Supplementary Table 3: Rich media regulatory network modules discovered by the GRAM algorithm

The GRAM algorithm discovered 106 modules ranging in size from five (the minimum allowed) to 52 genes (a large set of co- expressed ribosomal genes). The modules contained 655 distinct genes and were regulated by 68 of the 106 transcription factors. To determine the biological significance of the modules generated, we looked at the extent to which genes in the same module belonged to an identical MIPS sub-category. Statistics were computed using the hyper-geometric distribution and p-values were determined.

The modules are listed below. For each module, the top row lists the set of factors that regulate this module, and the second row contains the average pairwise expression similarity (across all 500+ expression experiments used) between the genes that belong to this module. Next, the list of genes that belong to this module is presented, where each gene is described by its ORF name, its name and the description that MIPS contains for this gene. Following the list of genes, there are (at most) three lines containing the different MIPS subcategories that significantly overlap with the set of genes in that module. We list the subcategory number and name, and the p-value that was computed for this module with this subcategory. For each ORF, a link is given to the SGD entry.

Cluster 1 regs: ABF1 YPD

avg corr: 0.67981

YBL039C	URA7	phospholipid biosynthesis* CTP synthase activity cytosol
YDL051W	LHP1	tRNA processing RNA binding nucleus*
YDL081C	RPP1A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR172W	SUP35	translational termination translation release factor activity cytosol
YDR280W	RRP45	35S primary transcript processing* 3'-5' exoribonuclease activity nuclear exosome (RNase complex)*
YDR361C	BCP1	biological_process unknown molecular_function unknown cellular_component unknown
YDR365C		biological_process unknown molecular_function unknown cellular_component unknown
YDR398W	UTP5	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YER165W	PAB1	regulation of translational initiation poly(A) binding nucleus*
YGL169W	SUA5	cell growth and/or maintenance molecular_function unknown cellular_component unknown
YGR128C	UTP8	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YGR187C	HGH1	biological_process unknown molecular_function unknown cellular_component unknown
YHR020W		biological_process unknown proline-tRNA ligase activity cellular_component unknown
YHR064C	SSZ1	protein biosynthesis chaperone activity cytoplasm
YJL069C	UTP18	biological_process unknown molecular_function unknown cellular_component unknown
YJR063W	RPA12	transcription from Pol I promoter DNA-directed RNA polymerase activity DNA-directed RNA polymerase I complex
YKL014C		biological_process unknown molecular_function unknown cellular_component unknown
YKL078W	DHR2	ribosome biogenesis RNA helicase activity nucleolus
YKL099C	UTP11	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YKL143W	LTV1	biological_process unknown molecular_function unknown cellular_component unknown
YKL144C	RPC25	transcription from Pol III promoter DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex
YKL172W	EBP2	rRNA processing molecular_function unknown nucleolus
YKL191W	DPH2	peptidyl-diphthamide biosynthesis from peptidyl-histidine molecular_function unknown cellular_component unknown
YKR056W	TRM2	tRNA modification tRNA methyltransferase activity cellular_component unknown
YKR057W	RPS21A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YKR059W	TIF1	translational initiation translation initiation factor activity ribosome
YKR081C	RPF2	ribosomal large subunit assembly and maintenance* rRNA binding* nucleolus
YLL011W	SOF1	rRNA modification* snoRNA binding small nucleolar ribonucleoprotein complex*
YLL034C		biological_process unknown helicase activity cellular_component unknown
YLL044W
YLR003C		regulation of DNA replication molecular_function unknown cellular_component unknown
YLR029C	RPL15A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YLR180W	SAM1	methionine metabolism methionine adenosyltransferase activity cytoplasm
YLR222C	UTP13	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YLR264W	RPS28B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR401C	DUS3	tRNA modification tRNA dihydrouridine synthase activity cellular_component unknown
YMR079W	SEC14	Golgi to plasma membrane transport* phosphatidylinositol transporter activity cytosol
YMR093W	UTP15	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YMR217W	GUA1	GMP metabolism GMP synthase (glutamine hydrolyzing) activity cellular_component unknown
YMR260C	TIF11	translational initiation translation initiation factor activity ribosome
YNL113W	RPC19	transcription from Pol I promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YNL119W		biological_process unknown molecular_function unknown cellular_component unknown
YNL186W	UBP10	protein deubiquitination ubiquitin-specific protease activity nucleus
YNL209W	SSB2	protein biosynthesis chaperone activity* cytoplasm*
YNL255C	GIS2	intracellular signaling cascade transcription factor activity cellular_component unknown
YNL313C		biological_process unknown molecular_function unknown cellular_component unknown
YNR038W	DBP6	35S primary transcript processing* ATP dependent RNA helicase activity nucleolus
YNR046W		biological_process unknown molecular_function unknown cellular_component unknown
YNR053C	NOG2	mRNA splicing GTPase activity nucleus*
YOL077C	BRX1	ribosomal large subunit assembly and maintenance rRNA primary transcript binding* nucleolus
YOR056C	NOB1	ubiquitin-dependent protein catabolism* chaperone activity nucleus*
YOR078W	BUD21	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YOR145C	PNO1	rRNA processing* chaperone activity nucleus*
YOR167C	RPS28A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR168W	GLN4	amino acid activation glutamine-tRNA ligase activity cytoplasm
YOR206W	NOC2	ribosome nucleus export* molecular_function unknown nucleus
YOR224C	RPB8	transcription from Pol II promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YOR310C	NOP58	rRNA modification* molecular_function unknown small nucleolar ribonucleoprotein complex*
YPL012W	RRP12	processing of 20S pre-rRNA* molecular_function unknown ribosome
YPL146C		biological_process unknown molecular_function unknown nucleus*
YPL160W	CDC60	leucyl-tRNA aminoacylation leucine-tRNA ligase activity cytoplasm
YPR137W	RRP9	rRNA modification* snoRNA binding small nucleolar ribonucleoprotein complex*
YPR187W	RPO26	transcription from Pol II promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YPR190C	RPC82	transcription from Pol III promoter DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex

04.03.01	tRNA synthesis (24 ORFs)	4.28447342963709e-06	24	5
4	TRANSCRIPTION (771 ORFs)	0.000836988952174198	771	18
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.55619277725479	2258	24

Cluster 2 regs: ACE2 YPD

avg corr: 0.62282

YER126C	NSA2	ribosomal large subunit biogenesis molecular_function unknown nucleus
YER127W	LCP5	rRNA modification* RNA binding small nucleolar ribonucleoprotein complex*
YGR283C		biological_process unknown molecular_function unknown cellular_component unknown
YHL013C		biological_process unknown molecular_function unknown cellular_component unknown
YJR145C	RPS4A	protein biosynthesis* structural constituent of ribosome cytoplasm*

UNCLASSIFIED PROTEINS (2399 ORFs)

0.3170943242567

2399

Cluster 3 regs: ARO80 YPD

avg corr: 0.50081

YDL091C		biological_process unknown molecular_function unknown cellular_component unknown
YGR053C		biological_process unknown molecular_function unknown cellular_component unknown
YHR138C		vacuole fusion (non-autophagic) endopeptidase inhibitor activity cellular_component unknown
YHR139C	SPS100	spore wall assembly (sensu Saccharomyces) molecular_function unknown spore wall (sensu Fungi)
YHR140W		biological_process unknown molecular_function unknown integral to membrane
YNL117W	MLS1	glyoxylate cycle malate synthase activity cytoplasm*
YNL125C	ESBP6	transport transporter activity* mitochondrion*
YOR005C	DNL4	double-strand break repair via nonhomologous end-joining DNA ligase (ATP) activity nucleus

99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.405487582468869	2399	4
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.633382423311607	2258	3

Cluster 4 regs: AZF1 YPD

avg corr: 0.54526

YDL037C	BSC1	biological_process unknown molecular_function unknown cellular_component unknown
YDR144C	MKC7	proteolysis and peptidolysis aspartic-type signal peptidase activity cell wall (sensu Fungi)
YER007C-A		biological_process unknown RNA binding cellular_component unknown
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YKR024C	DBP7	35S primary transcript processing* ATP dependent RNA helicase activity nucleolus
YKR025W	RPC37	transcription from Pol III promoter DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex
YLR175W	CBF5	rRNA modification* pseudouridylate synthase activity small nucleolar ribonucleoprotein complex
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR413W		biological_process unknown molecular_function unknown cellular_component unknown
YNR053C	NOG2	mRNA splicing GTPase activity nucleus*
YOL121C	RPS19A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR210W	RPB10	transcription from Pol II promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*

4.01	rRNA transcription (109 ORFs)	4.56074711705104e-05	109	4
4	TRANSCRIPTION (771 ORFs)	0.0125821179968523	771	5
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.274018143655166	2258	6

Cluster 5 regs: BAS1 YPD

avg corr: 0.60169

YCL030C	HIS4	histidine biosynthesis phosphoribosyl-ATP pyrophosphatase activity* cell
YGL234W		"ADE5,7" purine base metabolism phosphoribosylamine-glycine ligase activity* cytoplasm
YGR061C	ADE6	purine nucleotide biosynthesis phosphoribosylformylglycinamidine synthase activity cellular_component unknown
YKR080W	MTD1	one-carbon compound metabolism* methylenetetrahydrofolate dehydrogenase (NAD+) activity cytosol
YLR058C	SHM2	one-carbon compound metabolism glycine hydroxymethyltransferase activity cytoplasm
YLR359W	ADE13	purine base metabolism adenylosuccinate lyase activity cellular_component unknown
YMR120C	ADE17	'de novo' IMP biosynthesis IMP cyclohydrolase activity* cytosol
YMR300C	ADE4	purine base metabolism amidophosphoribosyltransferase activity cellular_component unknown
YNL220W	ADE12	adenosine biosynthesis adenylosuccinate synthase activity cellular_component unknown
YOR128C	ADE2	purine base metabolism phosphoribosylaminoimidazole carboxylase activity cellular_component unknown

01.03.01	purine ribonucleotide metabolism (45 ORFs)	3.19276805493848e-19	45	9
1.03	nucleotide metabolism (148 ORFs)	2.59845386637821e-14	148	9
1	METABOLISM (1066 ORFs)	3.02642914890285e-08	1066	10

Cluster 6 regs: CBF1 YPD

avg corr: 0.66057

YHR089C	GAR1	rRNA modification* RNA binding nucleolus*
YIL127C		biological_process unknown molecular_function unknown cellular_component unknown
YKL191W	DPH2	peptidyl-diphthamide biosynthesis from peptidyl-histidine molecular_function unknown cellular_component unknown
YLL008W	DRS1	35S primary transcript processing* ATP dependent RNA helicase activity nucleolus
YNL282W	POP3	rRNA processing* ribonuclease P activity* ribonuclease MRP complex*
YPL093W	NOG1	ribosome nucleus export GTPase activity nucleolus

04.01.04	rRNA processing (63 ORFs)	2.157971847744e-05	63	3
4.01	rRNA transcription (109 ORFs)	0.000112112355521937	109	3
4	TRANSCRIPTION (771 ORFs)	0.0313091002487	771	3

Cluster 7 regs: CUP9 YPD

avg corr: 0.57762

YDR064W	RPS13	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YFR005C	SAD1	mRNA splicing pre-mRNA splicing factor activity nucleus
YGL077C	HNM1	choline transport choline transporter activity plasma membrane
YGR027C	RPS25A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YJL191W	RPS14B	protein biosynthesis* structural constituent of ribosome* cytosolic small ribosomal subunit (sensu Eukarya)
YJL192C	SOP4	ER to Golgi transport molecular_function unknown endoplasmic reticulum*
YKL156W	RPS27A	protein biosynthesis structural constituent of ribosome cytoplasm*
YKR092C	SRP40	nucleocytoplasmic transport chaperone activity nucleolus
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YMR014W	BUD22	bud site selection molecular_function unknown nucleus
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown
YPL198W	RPL7B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	4.66198590143982e-06	215	6
5	PROTEIN SYNTHESIS (359 ORFs)	8.76466234101534e-05	359	6
40.03	cytoplasm (554 ORFs)	0.000948882282107884	554	6

Cluster 8 regs: DAL81 YPD

avg corr: 0.49917

YBR069C	TAT1	amino acid transport amino acid transporter activity plasma membrane
YDR046C	BAP3	amino acid transport amino acid transporter activity plasma membrane
YDR508C	GNP1	amino acid transport amino acid transporter activity* plasma membrane
YEL046C	GLY1	threonine catabolism* threonine aldolase activity cytosol
YGR055W	MUP1	sulfur amino acid transport L-methionine porter activity integral to plasma membrane
YOL020W	TAT2	aromatic amino acid transport aromatic amino acid transporter activity plasma membrane

01.01.07	amino acid transport (23 ORFs)	3.11303790206357e-12	23	5
67.1	amino-acid transporters (25 ORFs)	4.91395306935577e-12	25	5
1.01	amino acid metabolism (204 ORFs)	1.43792180689675e-09	204	6

Cluster 9 regs: DIG1 YPD

avg corr: 0.62321

YAR009C

YCL019W

YCL020W

YER138C

YER160C

Cluster 10 regs: FHL1 YPD

avg corr: 0.81066

YDR385W	EFT2	translational elongation translation elongation factor activity ribosome
YGR027C	RPS25A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGR085C	RPL11B	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHL033C	RPL8A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJR123W	RPS5	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YKR057W	RPS21A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR029C	RPL15A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YLR075W	RPL10	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR150W	STM1	telomere maintenance* telomeric DNA binding cytoplasm*
YLR264W	RPS28B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR369C	RPS12	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	1.76179487007218e-13	215	10
5	PROTEIN SYNTHESIS (359 ORFs)	3.45600892781495e-13	359	11
40.03	cytoplasm (554 ORFs)	4.17863356203501e-11	554	11

Cluster 11 regs: FKH1 YPD

avg corr: 0.52257

YBL064C	PRX1	regulation of redox homeostasis thioredoxin peroxidase activity mitochondrion
YBR139W		biological_process unknown carboxypeptidase C activity cellular_component unknown
YKL157W	APE2	peptide metabolism leucyl aminopeptidase activity cytoplasm*
YLL006W	MMM1	mitochondrion organization and biogenesis* molecular_function unknown mitochondrial outer membrane
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YMR261C	TPS3	response to stress* "alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity" "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YMR262W		biological_process unknown molecular_function unknown cellular_component unknown

2.19	"metabolism of energy reserves (glycogen, trehalose) (37 ORFs)"	0.000762141615762888	37	2
2	ENERGY (252 ORFs)	0.0320849425127742	252	2
01.05.01	C-compound and carbohydrate utilization (261 ORFs)	0.0342482701030078	261	2

Cluster 12 regs: FZF1 YPD

avg corr: 0.67418

YBR143C	SUP45	translational termination "translation release factor activity, codon specific" cytosol
YBR154C	RPB5	transcription from Pol II promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YBR155W	CNS1	protein folding chaperone activity cytoplasm
YBR189W	RPS9B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL192W	ARF1	ER to Golgi transport* ARF small monomeric GTPase activity cytosol*
YDR012W	RPL4B	protein biosynthesis structural constituent of ribosome cytoplasm*
YDR064W	RPS13	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR245W	MNN10	actin filament organization* "alpha-1,6-mannosyltransferase activity" mannosyltransferase complex
YER049W		biological_process unknown molecular_function unknown cellular_component unknown
YHR089C	GAR1	rRNA modification* RNA binding nucleolus*
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YKL172W	EBP2	rRNA processing molecular_function unknown nucleolus
YLR083C	EMP70	transport transporter activity membrane fraction*
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YMR131C	RRB1	ribosome biogenesis molecular_function unknown nucleolus
YOR004W		processing of 20S pre-rRNA* molecular_function unknown cellular_component unknown
YPL217C	BMS1	rRNA processing* GTP binding nucleus*
YPL235W	RVB2	regulation of transcription from Pol II promoter* ATPase activity nucleus*

4.01	rRNA transcription (109 ORFs)	4.86803347635467e-07	109	6
5	PROTEIN SYNTHESIS (359 ORFs)	0.00333991053294132	359	5
40.03	cytoplasm (554 ORFs)	0.020463725447587	554	5

Cluster 13 regs: GCN4 YPD

avg corr: 0.58897

YBL076C	ILS1	protein biosynthesis isoleucine-tRNA ligase activity cytosol
YBR249C	ARO4	aromatic amino acid family biosynthesis 2-dehydro-3-deoxyphosphoheptonate aldolase activity cellular_component unknown
YDR341C		protein biosynthesis arginine-tRNA ligase activity cytoplasm
YER052C	HOM3	methionine metabolism* aspartate kinase activity cellular_component unknown
YER055C	HIS1	histidine biosynthesis ATP phosphoribosyltransferase activity cell
YER090W	TRP2	tryptophan biosynthesis anthranilate synthase activity cellular_component unknown
YHR019C	DED81	asparaginyl-tRNA aminoacylation ATP binding* cytoplasm
YHR020W		biological_process unknown proline-tRNA ligase activity cellular_component unknown
YJL200C		biological_process unknown aconitate hydratase activity cellular_component unknown
YLR355C	ILV5	mitochondrial genome maintenance* ketol-acid reductoisomerase activity mitochondrion
YMR260C	TIF11	translational initiation translation initiation factor activity ribosome
YOR108W	LEU9	leucine biosynthesis 2-isopropylmalate synthase activity mitochondrion
YPR110C	RPC40	transcription from Pol I promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YPR145W	ASN1	asparagine biosynthesis asparagine synthase (glutamine-hydrolyzing) activity cellular_component unknown

01.01.01	amino acid biosynthesis (118 ORFs)	2.91594499370392e-09	118	7
1.01	amino acid metabolism (204 ORFs)	1.32921945781206e-07	204	7
5.1	aminoacyl-tRNA-synthetases (37 ORFs)	1.17261299611358e-06	37	4

Cluster 14 regs: GCR1 YPD

avg corr: 0.62068

YAL038W	CDC19	glycolysis* pyruvate kinase activity cytosol
YBR196C	PGI1	gluconeogenesis* glucose-6-phosphate isomerase activity cytosol
YDR050C	TPI1	gluconeogenesis* triose-phosphate isomerase activity cytoplasm*
YER177W	BMH1	pseudohyphal growth* DNA binding nucleus
YGR192C	TDH3	gluconeogenesis* glyceraldehyde 3-phosphate dehydrogenase (phosphorylating) activity cytoplasm*
YKL152C	GPM1	gluconeogenesis* phosphoglycerate mutase activity cytosol
YLR044C	PDC1	pyruvate metabolism* pyruvate decarboxylase activity cellular_component unknown

2.01	glycolysis and gluconeogenesis (35 ORFs)	1.04503266731069e-10	35	5
2	ENERGY (252 ORFs)	3.50014502964287e-08	252	6
01.05.01	C-compound and carbohydrate utilization (261 ORFs)	4.32364967854434e-08	261	6

Cluster 15 regs: GCR2 YPD

avg corr: 0.61914

YDL192W	ARF1	ER to Golgi transport* ARF small monomeric GTPase activity cytosol*
YDR245W	MNN10	actin filament organization* "alpha-1,6-mannosyltransferase activity" mannosyltransferase complex
YER007C-A		biological_process unknown RNA binding cellular_component unknown
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YLR196W	PWP1	biological_process unknown molecular_function unknown cellular_component unknown
YLR264W	RPS28B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YMR259C		biological_process unknown molecular_function unknown cellular_component unknown
YOL121C	RPS19A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR021C		biological_process unknown molecular_function unknown cellular_component unknown

40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.219002125576767	2258	5
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.517013835636977	2399	4

Cluster 16 regs: GRF10(Pho2) YPD

avg corr: 0.47475

YDL124W		biological_process unknown molecular_function unknown cellular_component unknown
YDL215C	GDH2	nitrogen metabolism glutamate dehydrogenase activity soluble fraction
YDR223W		biological_process unknown molecular_function unknown cellular_component unknown
YGR205W		biological_process unknown molecular_function unknown cytoplasm
YIL077C		biological_process unknown molecular_function unknown cellular_component unknown
YIL166C		transport transporter activity membrane
YJL161W		biological_process unknown molecular_function unknown cellular_component unknown
YLR152C		biological_process unknown molecular_function unknown cellular_component unknown
YMR170C	ALD2	aldehyde metabolism* aldehyde dehydrogenase activity cytoplasm
YPR149W	NCE102	protein secretion molecular_function unknown cytoplasm*

UNCLASSIFIED PROTEINS (2399 ORFs)

0.366394754619043

2399

Cluster 17 regs: HAP2 YPD

avg corr: 0.51995

YBR025C		biological_process unknown molecular_function unknown cytoplasm
YDL063C		biological_process unknown molecular_function unknown cellular_component unknown
YGR234W	YHB1	response to stress molecular_function unknown cellular_component unknown
YIL096C		biological_process unknown molecular_function unknown cellular_component unknown
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YJL191W	RPS14B	protein biosynthesis* structural constituent of ribosome* cytosolic small ribosomal subunit (sensu Eukarya)
YJL192C	SOP4	ER to Golgi transport molecular_function unknown endoplasmic reticulum*
YPL207W		biological_process unknown molecular_function unknown cellular_component unknown

99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.173257491770402	2399	5
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.633382423311607	2258	3

Cluster 18 regs: HAP4 YPD

avg corr: 0.62138

YBL030C	PET9	ATP/ADP exchange ATP/ADP antiporter activity mitochondrial inner membrane
YBL045C	COR1	aerobic respiration ubiquinol-cytochrome c reductase activity respiratory chain complex III (sensu Eukarya)
YBL099W	ATP1	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase, catalytic core (sensu Eukarya)"
YDL004W	ATP16	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase, central stalk (sensu Eukarya)"
YDL181W	INH1	ATP synthesis coupled proton transport enzyme inhibitor activity proton-transporting ATP synthase complex (sensu Eukarya)
YDR148C	KGD2	tricarboxylic acid cycle* molecular_function unknown mitochondrial matrix
YDR298C	ATP5	ATP synthesis coupled proton transport structural molecule activity* "proton-transporting ATP synthase, stator stalk (sensu Eukarya)"
YFR033C	QCR6	aerobic respiration* ubiquinol-cytochrome c reductase activity mitochondrion*
YGL191W	COX13	aerobic respiration enzyme regulator activity* respiratory chain complex IV (sensu Eukarya)
YKL148C	SDH1	tricarboxylic acid cycle* succinate dehydrogenase (ubiquinone) activity respiratory chain complex II (sensu Eukarya)
YLR038C	COX12	cytochrome c oxidase biogenesis cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YLR395C	COX8	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YMR256C	COX7	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YNL052W	COX5A	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YOR065W	CYT1	"mitochondrial electron transport, ubiquinol to cytochrome c" "electron transporter, transferring electrons within CoQH2-cytochrome c reductase complex activity" mitochondrial inner membrane

40.16	mitochondrion (366 ORFs)	4.58439924592177e-19	366	15
2	ENERGY (252 ORFs)	5.39565045473654e-19	252	14
2.13	respiration (88 ORFs)	4.62638947958396e-18	88	11

Cluster 19 regs: HSF1 YPD

avg corr: 0.57710

YBR072W	HSP26	response to stress* chaperone activity* nucleus*
YDR171W	HSP42	response to stress* chaperone activity* cytoplasm*
YDR214W	AHA1	response to stress* chaperone activator activity cytoplasm
YER037W	PHM8	biological_process unknown molecular_function unknown cellular_component unknown
YER103W	SSA4	response to stress* chaperone activity* nucleus*
YFL014W	HSP12	response to oxidative stress* heat shock protein activity cellular_component unknown
YFL016C	MDJ1	protein folding* co-chaperone activity mitochondrial inner membrane
YGL037C	PNC1	chromatin silencing at telomere* nicotinamidase activity nucleus*
YGR142W	BTN2	intracellular protein transport* molecular_function unknown cytosol
YGR194C	XKS1	xylulose catabolism xylulokinase activity cellular_component unknown
YLL023C		biological_process unknown molecular_function unknown cellular_component unknown
YLL026W	HSP104	response to stress* heat shock protein activity* nucleus*
YLL039C	UBI4	response to stress* protein tagging activity* cytoplasm
YLR216C	CPR6	protein folding chaperone activity* cytoplasm
YLR327C		biological_process unknown molecular_function unknown cellular_component unknown
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YNL006W	LST8	transport* protein binding Golgi membrane*
YNL007C	SIS1	translational initiation chaperone activity cytosolic small ribosomal subunit (sensu Eukarya)
YOR027W	STI1	protein folding chaperone activity* cytoplasm
YOR317W	FAA1	lipid metabolism* long-chain-fatty-acid-CoA-ligase activity lipid particle
YPR154W	PIN3	actin cytoskeleton organization and biogenesis molecular_function unknown cellular_component unknown
YPR158W		biological_process unknown molecular_function unknown cellular_component unknown

11.01	stress response (175 ORFs)	1.87632507898222e-06	175	7
11	"CELL RESCUE, DEFENSE AND VIRULENCE (278 ORFs)"	3.97691691211604e-05	278	7
40.03	cytoplasm (554 ORFs)	0.00273761513554987	554	7

Cluster 20 regs: IXR1 YPD

avg corr: 0.60085

YBL087C	RPL23A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR061C	TRM7	protein biosynthesis* tRNA methyltransferase activity cytoplasm
YDR086C	SSS1	cotranslational membrane targeting protein transporter activity translocon
YDR101C	ARX1	ribosomal large subunit biogenesis molecular_function unknown cytoplasm*
YDR361C	BCP1	biological_process unknown molecular_function unknown cellular_component unknown
YKR026C	GCN3	translational initiation translation initiation factor activity eukaryotic translation initiation factor 2B complex
YLL034C		biological_process unknown helicase activity cellular_component unknown
YLR002C	NOC3	rRNA processing* protein binding* nucleus*
YLR167W	RPS31	protein biosynthesis* structural constituent of ribosome* cytoplasm*
YMR260C	TIF11	translational initiation translation initiation factor activity ribosome
YNR054C		biological_process unknown transcription regulator activity cellular_component unknown
YOR252W		biological_process unknown molecular_function unknown cellular_component unknown
YOR253W	NAT5	protein amino acid acetylation peptide alpha-N-acetyltransferase activity cytoplasm
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown

5	PROTEIN SYNTHESIS (359 ORFs)	0.00780844387046667	359	4
40.03	cytoplasm (554 ORFs)	0.0340192308161599	554	4
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.513680043136072	2399	6

Cluster 21 regs: LEU3 YPD

avg corr: 0.51976

YBR048W	RPS11B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGL009C	LEU1	leucine biosynthesis 3-isopropylmalate dehydratase activity cytosol
YHR208W	BAT1	branched chain family amino acid biosynthesis* branched-chain amino acid aminotransferase activity mitochondrial matrix
YKL120W	OAC1	sulfate transport* oxaloacetate carrier activity* mitochondrial inner membrane
YMR108W	ILV2	branched chain family amino acid biosynthesis acetolactate synthase activity mitochondrion
YOR108W	LEU9	leucine biosynthesis 2-isopropylmalate synthase activity mitochondrion
YOR271C		biological_process unknown molecular_function unknown cellular_component unknown

01.01.01	amino acid biosynthesis (118 ORFs)	4.75512574027679e-06	118	4
1.01	amino acid metabolism (204 ORFs)	4.191485726997e-05	204	4
40.16	mitochondrion (366 ORFs)	0.00655203376474224	366	3

Cluster 22 regs: MAC1 YPD

avg corr: 0.58134

YCL031C	RRP7	35S primary transcript processing* molecular_function unknown cellular_component unknown
YDL184C	RPL41A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR324C	UTP4	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YER007C-A		biological_process unknown RNA binding cellular_component unknown
YGL135W	RPL1B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR193C	EGD2	nascent polypeptide association chaperone activity nascent polypeptide-associated complex
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YKL080W	VMA5	vacuolar acidification "hydrogen-transporting ATPase activity, rotational mechanism" vacuolar membrane (sensu Fungi)*
YNL016W	PUB1	"mRNA catabolism, nonsense-mediated" nucleic acid binding nucleus*
YNL255C	GIS2	intracellular signaling cascade transcription factor activity cellular_component unknown
YOL022C		biological_process unknown molecular_function unknown cellular_component unknown
YOL080C	REX4	rRNA processing* 3'-5' exonuclease activity cellular_component unknown
YOR271C		biological_process unknown molecular_function unknown cellular_component unknown
YPL183C		biological_process unknown molecular_function unknown cellular_component unknown
YPR110C	RPC40	transcription from Pol I promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*

4	TRANSCRIPTION (771 ORFs)	0.00789789898641683	771	6
5	PROTEIN SYNTHESIS (359 ORFs)	0.0101538317540325	359	4
40.03	cytoplasm (554 ORFs)	0.0431022380867664	554	4

Cluster 23 regs: MBP1 YPD

avg corr: 0.62221

YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR324C	UTP4	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YDR500C	RPL37B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGL147C	RPL9A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHL013C		biological_process unknown molecular_function unknown cellular_component unknown
YLR397C	AFG2	response to drug ATPase activity intracellular
YNL313C		biological_process unknown molecular_function unknown cellular_component unknown
YPL050C	MNN9	N-linked glycosylation mannosyltransferase activity membrane*
YPL081W	RPS9A	protein biosynthesis* structural constituent of ribosome cytoplasm*
YPL126W	NAN1	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex

5.01	ribosome biogenesis (215 ORFs)	0.000284059922341679	215	4
5	PROTEIN SYNTHESIS (359 ORFs)	0.00198308016305811	359	4
40.03	cytoplasm (554 ORFs)	0.00960391769761188	554	4

Cluster 24 regs: MET31 YPD

avg corr: 0.53518

YDL059C	RAD59	double-strand break repair via break-induced replication* protein binding* nucleus
YEL072W	RMD6	biological_process unknown molecular_function unknown cellular_component unknown
YFR030W	MET10	sulfate assimilation sulfite reductase (NADPH) activity cellular_component unknown
YGL184C	STR3	methionine biosynthesis cystathionine beta-lyase activity peroxisome
YNL277W	MET2	methionine biosynthesis* homoserine O-acetyltransferase activity cytoplasm
YPR167C	MET16	methionine metabolism* phosphoadenylyl-sulfate reductase (thioredoxin) activity intracellular

01.01.01	amino acid biosynthesis (118 ORFs)	2.06935432602272e-06	118	4
1.01	amino acid metabolism (204 ORFs)	1.84549785276975e-05	204	4
01.02.01	nitrogen and sulfur utilization (38 ORFs)	0.000576614354728918	38	2

Cluster 25 regs: MET4 YPD

avg corr: 0.56919

YAL012W	CYS3	sulfur amino acid metabolism* cystathionine-gamma-lyase activity cellular_component unknown
YBR078W	ECM33	cell wall organization and biogenesis molecular_function unknown plasma membrane
YDL060W	TSR1	rRNA processing* molecular_function unknown nucleolus
YDL061C	RPS29B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGR155W	CYS4	cysteine biosynthesis cystathione beta-synthase activity cytoplasm
YKR092C	SRP40	nucleocytoplasmic transport chaperone activity nucleolus
YLR179C		biological_process unknown molecular_function unknown cytoplasm
YLR180W	SAM1	methionine metabolism methionine adenosyltransferase activity cytoplasm
YLR355C	ILV5	mitochondrial genome maintenance* ketol-acid reductoisomerase activity mitochondrion
YLR432W	IMD3	GTP biosynthesis IMP dehydrogenase activity cytoplasm
YNL016W	PUB1	"mRNA catabolism, nonsense-mediated" nucleic acid binding nucleus*
YOL039W	RPP2A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOL040C	RPS15	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL143W	RPL33A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPL198W	RPL7B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPR102C	RPL11A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	1.17030971639504e-05	215	6
40.03	cytoplasm (554 ORFs)	3.31144098467604e-05	554	8
5	PROTEIN SYNTHESIS (359 ORFs)	0.000210915450931232	359	6

Cluster 26 regs: MSN4 YPD

avg corr: 0.59093

YBR072W	HSP26	response to stress* chaperone activity* nucleus*
YER103W	SSA4	response to stress* chaperone activity* nucleus*
YGR142W	BTN2	intracellular protein transport* molecular_function unknown cytosol
YHR087W		biological_process unknown molecular_function unknown cellular_component unknown
YLL026W	HSP104	response to stress* heat shock protein activity* nucleus*
YNL077W	APJ1	biological_process unknown chaperone activity cellular_component unknown
YOR292C		biological_process unknown molecular_function unknown cellular_component unknown
YPR154W	PIN3	actin cytoskeleton organization and biogenesis molecular_function unknown cellular_component unknown

11.01	stress response (175 ORFs)	0.00122600763348727	175	3
40.03	cytoplasm (554 ORFs)	0.00371976820625942	554	4
11	"CELL RESCUE, DEFENSE AND VIRULENCE (278 ORFs)"	0.0046316835734585	278	3

Cluster 27 regs: MSS11 YPD

avg corr: 0.58545

YBL087C	RPL23A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR121C	GRS1	glycyl-tRNA aminoacylation* glycine-tRNA ligase activity cytoplasm*
YBR189W	RPS9B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL136W	RPL35B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL184C	RPL41A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR119W		biological_process unknown molecular_function unknown cellular_component unknown
YDR365C		biological_process unknown molecular_function unknown cellular_component unknown
YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YER009W	NTF2	protein-nucleus import* RAN protein binding nuclear membrane
YFR005C	SAD1	mRNA splicing pre-mRNA splicing factor activity nucleus
YGL070C	RPB9	transcription from Pol II promoter DNA-directed RNA polymerase activity "DNA-directed RNA polymerase II, core complex"
YGR264C	MES1	amino acid activation methionine-tRNA ligase activity cytoplasm
YHR216W	IMD2	GTP biosynthesis IMP dehydrogenase activity cellular_component unknown
YJL014W	CCT3	protein folding* chaperone activity cytoplasm*
YJR041C		biological_process unknown molecular_function unknown cellular_component unknown
YLR065C		biological_process unknown molecular_function unknown cellular_component unknown
YLR243W		biological_process unknown molecular_function unknown cellular_component unknown
YLR291C	GCD7	translational initiation translation initiation factor activity ribosome*
YOR078W	BUD21	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YOR276W	CAF20	negative regulation of translation translation regulator activity mRNA cap complex
YPL198W	RPL7B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPR033C	HTS1	histidyl-tRNA aminoacylation histidine-tRNA ligase activity cytoplasm*
YPR069C	SPE3	pantothenate biosynthesis* spermidine synthase activity cellular_component unknown

40.03	cytoplasm (554 ORFs)	1.78673757847048e-07	554	12
5	PROTEIN SYNTHESIS (359 ORFs)	2.9483982354879e-07	359	10
01.20.17.03	biosynthesis of amines (4 ORFs)	0.0152491826539625	4	1

Cluster 28 regs: MTH1 YPD

avg corr: 0.48740

YBL054W		biological_process unknown molecular_function unknown cellular_component unknown
YDL038C		biological_process unknown molecular_function unknown cellular_component unknown
YDL039C	PRM7	conjugation with cellular fusion molecular_function unknown integral to membrane
YDR299W	BFR2	ER to Golgi transport molecular_function unknown cellular_component unknown
YER056C-A	RPL34A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL019W		biological_process unknown molecular_function unknown cellular_component unknown
YIL064W		biological_process unknown molecular_function unknown cellular_component unknown
YLR406C	RPL31B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOR101W	RAS1	RAS protein signal transduction* RAS small monomeric GTPase activity plasma membrane
YOR271C		biological_process unknown molecular_function unknown cellular_component unknown

14.2	cell aging (4 ORFs)	0.00665167750242983	4	1
40.03	cytoplasm (554 ORFs)	0.0574635965422283	554	3
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.556857863713207	2258	4

Cluster 29 regs: NDD1 YPD

avg corr: 0.50832

YGL116W	CDC20	ubiquitin-dependent protein catabolism* enzyme activator activity anaphase-promoting complex
YGR229C	SMI1	cell wall organization and biogenesis* molecular_function unknown nucleus*
YML052W	SUR7	sporulation (sensu Saccharomyces) molecular_function unknown integral to membrane*
YMR001C	CDC5	protein amino acid phosphorylation* protein serine/threonine kinase activity nucleus*
YOR025W	HST3	chromatin silencing at telomere* DNA binding nucleus

40.1	nucleus (774 ORFs)	0.0174805436225279	774	3
03.03.01	mitotic cell cycle and cell cycle control (352 ORFs)	0.0304918613303646	352	2
3.03	cell cycle (451 ORFs)	0.0484062865728623	451	2

Cluster 30 regs: NRG1 YPD

avg corr: 0.54677

YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YER049W		biological_process unknown molecular_function unknown cellular_component unknown
YIL020C	HIS6	histidine biosynthesis 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity cell
YJL145W	SFH5	phospholipid transport phosphatidylinositol transporter activity cellular_component unknown
YLL034C		biological_process unknown helicase activity cellular_component unknown
YLR413W		biological_process unknown molecular_function unknown cellular_component unknown
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown
YPR009W	SUT2	regulation of transcription from Pol II promoter* specific RNA polymerase II transcription factor activity cellular_component unknown

UNCLASSIFIED PROTEINS (2399 ORFs)

0.684396309094381

2399

Cluster 31 regs: PDR1 YPD

avg corr: 0.59181

YDL148C	NOP14	processing of 20S pre-rRNA snoRNA binding nucleus*
YHR193C	EGD2	nascent polypeptide association chaperone activity nascent polypeptide-associated complex
YHR197W	RIX1	ribosome nucleus export molecular_function unknown nucleoplasm
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YMR241W	YHM2	tricarboxylic acid transport tricarboxylate carrier activity mitochondrial inner membrane
YOL080C	REX4	rRNA processing* 3'-5' exonuclease activity cellular_component unknown
YOR369C	RPS12	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL050C	MNN9	N-linked glycosylation mannosyltransferase activity membrane*

SUBCELLULAR LOCALISATION (2258 ORFs)

0.139063368123159

2258

Cluster 32 regs: PHD1 YPD

avg corr: 0.52313

YAL002W	VPS8	late endosome to vacuole transport molecular_function unknown membrane fraction
YER033C	ZRG8	biological_process unknown molecular_function unknown cellular_component unknown
YHL024W	RIM4	meiosis* RNA binding cytoplasm
YJL219W	HXT9	hexose transport glucose transporter activity* plasma membrane
YJR127C	ZMS1	biological_process unknown transcription factor activity cellular_component unknown
YLR369W	SSQ1	DNA dependent DNA replication* chaperone activity mitochondrial matrix

8	CELLULAR TRANSPORT AND TRANSPORT MECHANISMS (495 ORFs)	0.0815416464724023	495	2
6	"PROTEIN FATE (folding, modification, destination) (595 ORFs)"	0.112546161576658	595	2
3	CELL CYCLE AND DNA PROCESSING (628 ORFs)	0.123486780058244	628	2

Cluster 33 regs: PHO4 YPD

avg corr: 0.56988

YCL035C	GRX1	response to oxidative stress* thiol-disulfide exchange intermediate activity* cytoplasm
YDR474C		biological_process unknown molecular_function unknown cellular_component unknown
YER033C	ZRG8	biological_process unknown molecular_function unknown cellular_component unknown
YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR045W		transport transporter activity mitochondrial inner membrane
YIL136W	OM45	biological_process unknown molecular_function unknown mitochondrial outer membrane
YKL142W	MRP8	protein biosynthesis structural constituent of ribosome mitochondrial ribosome
YLR267W	BOP2	biological_process unknown molecular_function unknown cellular_component unknown
YPR026W	ATH1	response to stress* "alpha,alpha-trehalase activity" vacuole (sensu Fungi)

99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.517013835636977	2399	4
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.721260252804704	2258	3

Cluster 34 regs: PUT3 YPD

avg corr: 0.57593

YGL103W	RPL28	protein biosynthesis structural constituent of ribosome* nucleus*
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YLL044W
YNL016W	PUB1	"mRNA catabolism, nonsense-mediated" nucleic acid binding nucleus*
YOR272W	YTM1	ribosomal large subunit biogenesis* molecular_function unknown nucleus*
YOR306C	MCH5	transport transporter activity* membrane

40.03	cytoplasm (554 ORFs)	0.0126592745407328	554	3
5.01	ribosome biogenesis (215 ORFs)	0.0174291489890849	215	2
5	PROTEIN SYNTHESIS (359 ORFs)	0.0456087958690493	359	2

Cluster 35 regs: RAP1 YPD

avg corr: 0.55608

YBL048W
YBL049W	MOH1	biological_process unknown molecular_function unknown cellular_component unknown
YBR117C	TKL2	pentose-phosphate shunt transketolase activity cellular_component unknown
YER035W	EDC2	deadenylation-dependent decapping RNA binding cellular_component unknown
YER101C	AST2	biological_process unknown molecular_function unknown cytoplasm
YFL014W	HSP12	response to oxidative stress* heat shock protein activity cellular_component unknown
YGL104C	VPS73	protein-vacuolar targeting molecular_function unknown cellular_component unknown
YGR149W		biological_process unknown molecular_function unknown integral to membrane
YHR096C	HXT5	hexose transport glucose transporter activity* plasma membrane
YIR016W		biological_process unknown molecular_function unknown cellular_component unknown
YJR073C	OPI3	phosphatidylcholine biosynthesis phosphatidyl-N-methylethanolamine N-methyltransferase activity endoplasmic reticulum
YKL150W	MCR1	response to oxidative stress* cytochrome b5 reductase activity mitochondrial intermembrane space*
YKL151C		biological_process unknown molecular_function unknown cellular_component unknown
YLL039C	UBI4	response to stress* protein tagging activity* cytoplasm
YLR174W	IDP2	glutamate biosynthesis* isocitrate dehydrogenase (NADP+) activity cytosol
YLR311C
YLR312C		biological_process unknown molecular_function unknown cellular_component unknown
YMR206W		biological_process unknown molecular_function unknown cellular_component unknown
YOL082W	CVT19	protein-vacuolar targeting protein binding cytoplasm*
YOR100C	CRC1	fatty acid metabolism carnitine/acyl carnitine carrier activity mitochondrion*
YOR161C		biological_process unknown molecular_function unknown integral to plasma membrane
YOR374W	ALD4	ethanol metabolism aldehyde dehydrogenase (NAD+) activity mitochondrion
YPL054W	LEE1	biological_process unknown molecular_function unknown cellular_component unknown
YPR030W	CSR2	cell wall organization and biogenesis* molecular_function unknown nucleus

UNCLASSIFIED PROTEINS (2399 ORFs)

0.113474841719829

2399

Cluster 36 regs: REB1 YPD

avg corr: 0.66290

YDR465C	RMT2	peptidyl-arginine methylation protein-arginine N-methyltransferase activity cellular_component unknown
YER049W		biological_process unknown molecular_function unknown cellular_component unknown
YER156C		biological_process unknown molecular_function unknown cellular_component unknown
YFL023W	BUD27	bud site selection molecular_function unknown cellular_component unknown
YGL120C	PRP43	"lariat formation, 5'-splice site cleavage" pre-mRNA splicing factor activity* spliceosome complex
YGR173W	GIR1	biological_process unknown molecular_function unknown cellular_component unknown
YGR272C		processing of 20S pre-rRNA molecular_function unknown cellular_component unknown
YHR170W	NMD3	ribosomal large subunit assembly and maintenance protein binding* cytosol*
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YKL081W	TEF4	translational elongation translation elongation factor activity ribosome
YKL082C	RRP14	biological_process unknown molecular_function unknown nucleolus
YLL034C		biological_process unknown helicase activity cellular_component unknown
YLR083C	EMP70	transport transporter activity membrane fraction*
YLR150W	STM1	telomere maintenance* telomeric DNA binding cytoplasm*
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YMR260C	TIF11	translational initiation translation initiation factor activity ribosome
YNL113W	RPC19	transcription from Pol I promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YNR012W	URK1	pyrimidine salvage uridine kinase activity cellular_component unknown
YOR116C	RPO31	transcription from Pol III promoter DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex
YOR272W	YTM1	ribosomal large subunit biogenesis* molecular_function unknown nucleus*
YOR335C	ALA1	alanyl-tRNA aminoacylation alanine-tRNA ligase activity cytoplasm
YPL211W	NIP7	rRNA processing* molecular_function unknown nucleolus*
YPL212C	PUS1	tRNA modification pseudouridylate synthase activity nucleus
YPR163C	TIF3	translational initiation translation initiation factor activity ribosome

4	TRANSCRIPTION (771 ORFs)	0.0336324999605877	771	7
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.0471971222090879	2258	14

Cluster 37 regs: RME1 YPD

avg corr: 0.63044

YDL184C	RPL41A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL192W	ARF1	ER to Golgi transport* ARF small monomeric GTPase activity cytosol*
YDR144C	MKC7	proteolysis and peptidolysis aspartic-type signal peptidase activity cell wall (sensu Fungi)
YER007C-A		biological_process unknown RNA binding cellular_component unknown
YGL135W	RPL1B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL052C	RPL34B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YLR061W	RPL22A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR065C		biological_process unknown molecular_function unknown cellular_component unknown
YLR074C	BUD20	bud site selection molecular_function unknown nucleus
YLR075W	RPL10	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR236W	DFR1	folic acid and derivative metabolism dihydrofolate reductase activity cytosol
YOR369C	RPS12	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL143W	RPL33A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPL198W	RPL7B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	7.5928789076247e-10	215	9
5	PROTEIN SYNTHESIS (359 ORFs)	7.00868718820494e-08	359	9
40.03	cytoplasm (554 ORFs)	2.89627848724723e-06	554	9

Cluster 38 regs: ROX1 YPD

avg corr: 0.61357

YAL003W	EFB1	translational elongation translation elongation factor activity ribosome
YDL148C	NOP14	processing of 20S pre-rRNA snoRNA binding nucleus*
YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YEL055C	POL5	DNA dependent DNA replication DNA-directed DNA polymerase activity nucleolus
YER007C-A		biological_process unknown RNA binding cellular_component unknown
YGL135W	RPL1B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR193C	EGD2	nascent polypeptide association chaperone activity nascent polypeptide-associated complex
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YLR075W	RPL10	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YMR093W	UTP15	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YOL121C	RPS19A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown
YPR010C	RPA135	transcription from Pol I promoter DNA-directed RNA polymerase activity DNA-directed RNA polymerase I complex

5.01	ribosome biogenesis (215 ORFs)	8.66621649225611e-05	215	5
5	PROTEIN SYNTHESIS (359 ORFs)	8.76466234101534e-05	359	6
40.03	cytoplasm (554 ORFs)	0.000948882282107884	554	6

Cluster 39 regs: RPN4 YPD

avg corr: 0.58245

YAL003W	EFB1	translational elongation translation elongation factor activity ribosome
YBL068W	PRS4	histidine biosynthesis* ribose-phosphate pyrophosphokinase activity cellular_component unknown
YBL087C	RPL23A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR143C	SUP45	translational termination "translation release factor activity, codon specific" cytosol
YBR189W	RPS9B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR152W	GIR2	biological_process unknown molecular_function unknown cellular_component unknown
YFL023W	BUD27	bud site selection molecular_function unknown cellular_component unknown
YHR068W	DYS1	hypusine biosynthesis from peptidyl-lysine deoxyhypusine synthase activity cellular_component unknown
YKL009W	MRT4	rRNA processing* molecular_function unknown cellular_component unknown
YKL014C		biological_process unknown molecular_function unknown cellular_component unknown
YKR060W	UTP30	biological_process unknown molecular_function unknown cellular_component unknown
YLL035W	GRC3	rRNA processing* molecular_function unknown cellular_component unknown
YLR167W	RPS31	protein biosynthesis* structural constituent of ribosome* cytoplasm*
YLR412W		biological_process unknown molecular_function unknown cellular_component unknown
YMR131C	RRB1	ribosome biogenesis molecular_function unknown nucleolus
YMR229C	RRP5	processing of 20S pre-rRNA* RNA binding* nucleolus*
YMR239C	RNT1	35S primary transcript processing ribonuclease III activity nucleolus
YNL087W		biological_process unknown molecular_function unknown cellular_component unknown
YNR012W	URK1	pyrimidine salvage uridine kinase activity cellular_component unknown
YOL080C	REX4	rRNA processing* 3'-5' exonuclease activity cellular_component unknown
YOR236W	DFR1	folic acid and derivative metabolism dihydrofolate reductase activity cytosol
YOR252W		biological_process unknown molecular_function unknown cellular_component unknown

5	PROTEIN SYNTHESIS (359 ORFs)	0.00144615606159923	359	6
05.04.02	elongation (2 ORFs)	0.00732049786074468	2	1
40.03	cytoplasm (554 ORFs)	0.0124461026174154	554	6

Cluster 40 regs: SFP1 YPD

avg corr: 0.51868

YER103W	SSA4	response to stress* chaperone activity* nucleus*
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YGL104C	VPS73	protein-vacuolar targeting molecular_function unknown cellular_component unknown
YGR250C		biological_process unknown RNA binding cellular_component unknown
YJL068C		formaldehyde catabolism carboxylesterase activity cytosol
YKR009C	FOX2	fatty acid beta-oxidation 3-hydroxyacyl-CoA dehydrogenase activity* peroxisomal matrix
YML070W	DAK1	response to stress* glycerone kinase activity cellular_component unknown
YMR304W	UBP15	protein deubiquitination ubiquitin-specific protease activity cytoplasm
YNL241C	ZWF1	pentose-phosphate shunt glucose-6-phosphate 1-dehydrogenase activity cytoplasm
YNL305C		biological_process unknown molecular_function unknown cellular_component unknown

11.01	stress response (175 ORFs)	0.00251617253416399	175	3
11	"CELL RESCUE, DEFENSE AND VIRULENCE (278 ORFs)"	0.00926238578783713	278	3
1	METABOLISM (1066 ORFs)	0.0201056803884076	1066	5

Cluster 41 regs: SKN7 YPD

avg corr: 0.56040

YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YKR043C		biological_process unknown molecular_function unknown cellular_component unknown
YMR305C	SCW10	conjugation with cellular fusion glucosidase activity cytoplasm*
YOL039W	RPP2A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOL040C	RPS15	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR276W	CAF20	negative regulation of translation translation regulator activity mRNA cap complex
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown
YPL050C	MNN9	N-linked glycosylation mannosyltransferase activity membrane*
YPR009W	SUT2	regulation of transcription from Pol II promoter* specific RNA polymerase II transcription factor activity cellular_component unknown

5	PROTEIN SYNTHESIS (359 ORFs)	0.0136121964166075	359	3
40.03	cytoplasm (554 ORFs)	0.0431056928886983	554	3
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.219002125576767	2258	5

Cluster 42 regs: SMP1 YPD

avg corr: 0.67200

YBL087C	RPL23A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR189W	RPS9B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL060W	TSR1	rRNA processing* molecular_function unknown nucleolus
YDL061C	RPS29B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR418W	RPL12B	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR500C	RPL37B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER007C-A		biological_process unknown RNA binding cellular_component unknown
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGL135W	RPL1B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGR283C		biological_process unknown molecular_function unknown cellular_component unknown
YHR193C	EGD2	nascent polypeptide association chaperone activity nascent polypeptide-associated complex
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJL191W	RPS14B	protein biosynthesis* structural constituent of ribosome* cytosolic small ribosomal subunit (sensu Eukarya)
YJL192C	SOP4	ER to Golgi transport molecular_function unknown endoplasmic reticulum*
YMR014W	BUD22	bud site selection molecular_function unknown nucleus
YNL113W	RPC19	transcription from Pol I promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YOL121C	RPS19A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR369C	RPS12	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL050C	MNN9	N-linked glycosylation mannosyltransferase activity membrane*
YPL198W	RPL7B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	2.32639362145633e-15	215	14
5	PROTEIN SYNTHESIS (359 ORFs)	2.94168897383549e-12	359	14
40.03	cytoplasm (554 ORFs)	6.15446507478735e-11	554	15

Cluster 43 regs: STE12 YPD

avg corr: 0.51892

YFL027C	GYP8	vesicle-mediated transport Rab GTPase activator activity intracellular
YHR005C	GPA1	signal transduction during conjugation with cellular fusion heterotrimeric G-protein GTPase activity plasma membrane*
YHR084W	STE12	pseudohyphal growth* transcription factor activity nucleus
YLR452C	SST2	signal transduction* GTPase activator activity plasma membrane
YML046W	PRP39	mRNA splicing RNA binding snRNP U1*

13.11.03.07	pheromone response (37 ORFs)	2.14108915609828e-06	37	3
13.11	cellular sensing and response (73 ORFs)	1.69840572341724e-05	73	3
13.11.03	chemoperception and response (73 ORFs)	1.69840572341724e-05	73	3

Cluster 44 regs: SWI4 YPD

avg corr: 0.56818

YDR453C	TSA2	regulation of redox homeostasis thioredoxin peroxidase activity nucleus
YDR513W	TTR1	response to oxidative stress* thiol-disulfide exchange intermediate activity* mitochondrion*
YJR044C	VPS55	late endosome to vacuole transport molecular_function unknown late endosome
YKL007W	CAP1	cell wall organization and biogenesis* F-actin capping activity actin cortical patch (sensu Saccharomyces)*
YKL094W	YJU3	biological_process unknown molecular_function unknown cytoplasm*
YKL103C	LAP4	vacuolar protein catabolism aminopeptidase I activity vacuole (sensu Fungi)
YKR011C		biological_process unknown molecular_function unknown cellular_component unknown

11.07	detoxification (102 ORFs)	0.00568463755123991	102	2
11	"CELL RESCUE, DEFENSE AND VIRULENCE (278 ORFs)"	0.0384934554059747	278	2
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.527703278061681	2258	3

Cluster 45 regs: SWI5 YPD

avg corr: 0.61349

YDR398W	UTP5	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YFL022C	FRS2	phenylalanyl-tRNA aminoacylation phenylalanine-tRNA ligase activity cytoplasm*
YFR031C-A	RPL2A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHL013C		biological_process unknown molecular_function unknown cellular_component unknown
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL080C	SCP160	chromosome segregation* RNA binding endoplasmic reticulum membrane*
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YLR276C	DBP9	35S primary transcript processing* ATP dependent RNA helicase activity nucleolus
YML125C		biological_process unknown molecular_function unknown cellular_component unknown
YPL050C	MNN9	N-linked glycosylation mannosyltransferase activity membrane*

5	PROTEIN SYNTHESIS (359 ORFs)	0.0185961033825004	359	3
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.308780115175299	2258	5

Cluster 46 regs: SWI6 YPD

avg corr: 0.61338

YDR144C	MKC7	proteolysis and peptidolysis aspartic-type signal peptidase activity cell wall (sensu Fungi)
YDR500C	RPL37B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHL013C		biological_process unknown molecular_function unknown cellular_component unknown
YLL034C		biological_process unknown helicase activity cellular_component unknown
YML082W		sulfur metabolism carbon-sulfur lyase activity cellular_component unknown
YNL301C	RPL18B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YNL313C		biological_process unknown molecular_function unknown cellular_component unknown
YNR054C		biological_process unknown transcription regulator activity cellular_component unknown
YOR056C	NOB1	ubiquitin-dependent protein catabolism* chaperone activity nucleus*
YOR310C	NOP58	rRNA modification* molecular_function unknown small nucleolar ribonucleoprotein complex*
YPL126W	NAN1	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex

40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.402130239587232	2258	5
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.70351855031896	2399	4

Cluster 47 regs: YAP1 YPD

avg corr: 0.65432

YFL056C	AAD6	aldehyde metabolism benzyl alcohol dehydrogenase activity cellular_component unknown
YFL057C	AAD16	aldehyde metabolism benzyl alcohol dehydrogenase activity cellular_component unknown
YGL114W		biological_process unknown molecular_function unknown cellular_component unknown
YKL071W		biological_process unknown molecular_function unknown cellular_component unknown
YLR460C		biological_process unknown molecular_function unknown cellular_component unknown
YML131W		biological_process unknown molecular_function unknown cellular_component unknown

2.16	fermentation (33 ORFs)	0.000434042137202959	33	2
2	ENERGY (252 ORFs)	0.0235634555800954	252	2
01.05.01	C-compound and carbohydrate utilization (261 ORFs)	0.0251773547066691	261	2

Cluster 48 regs: YAP5 YPD

avg corr: 0.58363

YDR287W		myo-inositol metabolism myo-inositol-1(or 4)-monophosphatase activity cellular_component unknown
YDR368W	YPR1	arabinose metabolism oxidoreductase activity cellular_component unknown
YGL104C	VPS73	protein-vacuolar targeting molecular_function unknown cellular_component unknown
YGR149W		biological_process unknown molecular_function unknown integral to membrane
YHR087W		biological_process unknown molecular_function unknown cellular_component unknown
YJR044C	VPS55	late endosome to vacuole transport molecular_function unknown late endosome
YOR292C		biological_process unknown molecular_function unknown cellular_component unknown

1.05	C-compound and carbohydrate metabolism (415 ORFs)	0.0794767638857971	415	2
1	METABOLISM (1066 ORFs)	0.111733918146545	1066	3
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.289372537119638	2399	4

Cluster 49 regs: YAP6 YPD

avg corr: 0.61893

YBL027W	RPL19B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBL028C		biological_process unknown molecular_function unknown cellular_component unknown
YDR144C	MKC7	proteolysis and peptidolysis aspartic-type signal peptidase activity cell wall (sensu Fungi)
YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YER007C-A		biological_process unknown RNA binding cellular_component unknown
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YJL191W	RPS14B	protein biosynthesis* structural constituent of ribosome* cytosolic small ribosomal subunit (sensu Eukarya)
YJR094W-A	RPL43B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YKL110C	KTI12	cell growth and/or maintenance* enzyme regulator activity "DNA-directed RNA polymerase II, holoenzyme"
YLR074C	BUD20	bud site selection molecular_function unknown nucleus
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YMR014W	BUD22	bud site selection molecular_function unknown nucleus
YOL121C	RPS19A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR369C	RPS12	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	4.66198590143982e-06	215	6
5	PROTEIN SYNTHESIS (359 ORFs)	8.76466234101534e-05	359	6
40.03	cytoplasm (554 ORFs)	0.000948882282107884	554	6

Cluster 50 regs: YFL044C YPD

avg corr: 0.73035

YBR154C	RPB5	transcription from Pol II promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YBR155W	CNS1	protein folding chaperone activity cytoplasm
YCR072C		biological_process unknown molecular_function unknown cellular_component unknown
YGR083C	GCD2	translational initiation translation initiation factor activity ribosome*
YGR128C	UTP8	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YLR017W	MEU1	glutamate biosynthesis molecular_function unknown cytoplasm
YLR409C	UTP21	biological_process unknown molecular_function unknown cellular_component unknown
YNL141W	AAH1	adenine catabolism adenine deaminase activity cellular_component unknown
YPR110C	RPC40	transcription from Pol I promoter* DNA-directed RNA polymerase activity DNA-directed RNA polymerase III complex*
YPR112C	MRD1	35S primary transcript processing snoRNA binding* nucleolus

40.1	nucleus (774 ORFs)	0.128317930170946	774	3
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.556857863713207	2258	4

Cluster 51 regs: ABF1 YPD | HAP4 YPD

avg corr: 0.61070

YGR183C	QCR9	aerobic respiration* ubiquinol-cytochrome c reductase activity respiratory chain complex III (sensu Eukarya)
YHR051W	COX6	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YKL016C	ATP7	protein complex assembly* structural molecule activity* "proton-transporting ATP synthase, stator stalk (sensu Eukarya)"
YLR295C	ATP14	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase complex, coupling factor F(o) (sensu Eukarya)"
YPR191W	QCR2	aerobic respiration* ubiquinol-cytochrome c reductase activity mitochondrion*

2.13	respiration (88 ORFs)	6.05572773421954e-10	88	5
2	ENERGY (252 ORFs)	1.25786215873762e-07	252	5
40.16	mitochondrion (366 ORFs)	8.23110766298474e-07	366	5

Cluster 52 regs: FKH1 YPD | FKH2 YPD

avg corr: 0.50578

YBL081W		biological_process unknown molecular_function unknown cellular_component unknown
YDR324C	UTP4	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YDR500C	RPL37B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YFL022C	FRS2	phenylalanyl-tRNA aminoacylation phenylalanine-tRNA ligase activity cytoplasm*
YIL158W		biological_process unknown molecular_function unknown cellular_component unknown
YKR059W	TIF1	translational initiation translation initiation factor activity ribosome
YMR215W	GAS3	biological_process unknown molecular_function unknown cell wall (sensu Fungi)
YPR119W	CLB2	G2/M transition of mitotic cell cycle* "cyclin-dependent protein kinase, intrinsic regulator activity" nucleus*

5	PROTEIN SYNTHESIS (359 ORFs)	0.00949092842058104	359	3
40.03	cytoplasm (554 ORFs)	0.0308073390180714	554	3
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.405487582468869	2399	4

Cluster 53 regs: ABF1 YPD | INO4 YPD

avg corr: 0.46449

YBR029C	CDS1	phosphatidylglycerol biosynthesis* phosphatidate cytidylyltransferase activity mitochondrion*
YBR030W		phospholipid metabolism molecular_function unknown cellular_component unknown
YDR312W	SSF2	ribosomal large subunit assembly and maintenance* rRNA binding nucleolus
YDR385W	EFT2	translational elongation translation elongation factor activity ribosome
YJR105W	ADO1	purine base metabolism adenosine kinase activity cellular_component unknown
YKL182W	FAS1	fatty acid biosynthesis [acyl-carrier protein] S-malonyltransferase activity* cytosol*

01.06.01	"lipid, fatty-acid and isoprenoid biosynthesis (119 ORFs)"	0.00555396954707822	119	2
1	METABOLISM (1066 ORFs)	0.0109715885893357	1066	4
1.06	"lipid, fatty-acid and isoprenoid metabolism (213 ORFs)"	0.0171210853312262	213	2

Cluster 54 regs: ACE2 YPD | NDD1 YPD

avg corr: 0.48127

YFL022C	FRS2	phenylalanyl-tRNA aminoacylation phenylalanine-tRNA ligase activity cytoplasm*
YGL008C	PMA1	regulation of pH* "hydrogen-exporting ATPase activity, phosphorylative mechanism" plasma membrane*
YHR193C	EGD2	nascent polypeptide association chaperone activity nascent polypeptide-associated complex
YJL080C	SCP160	chromosome segregation* RNA binding endoplasmic reticulum membrane*
YKR042W	UTH1	mitochondrion organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YNR018W		biological_process unknown molecular_function unknown cellular_component unknown
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown

03.03.01	mitotic cell cycle and cell cycle control (352 ORFs)	0.0592314774093082	352	2
3.03	cell cycle (451 ORFs)	0.0919807404186702	451	2
40.03	cytoplasm (554 ORFs)	0.130931980858489	554	2

Cluster 55 regs: CBF1 YPD | MET4 YPD

avg corr: 0.49928

YFR030W	MET10	sulfate assimilation sulfite reductase (NADPH) activity cellular_component unknown
YGR204W	ADE3	purine base biosynthesis formate-tetrahydrofolate ligase activity cytoplasm
YIL074C	SER33	serine family amino acid biosynthesis phosphoglycerate dehydrogenase activity cellular_component unknown
YJR010W	MET3	methionine metabolism* sulfate adenylyltransferase (ATP) activity cellular_component unknown
YLR092W	SUL2	sulfate transport sulfate transporter activity plasma membrane
YNL277W	MET2	methionine biosynthesis* homoserine O-acetyltransferase activity cytoplasm

01.01.01	amino acid biosynthesis (118 ORFs)	5.09783247121992e-11	118	6
1.01	amino acid metabolism (204 ORFs)	1.43792180689675e-09	204	6
1	METABOLISM (1066 ORFs)	3.10885288683565e-05	1066	6

Cluster 56 regs: HAP2 YPD | HAP4 YPD

avg corr: 0.65546

YBR039W	ATP3	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase, central stalk (sensu Eukarya)"
YDR377W	ATP17	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase complex, coupling factor F(o) (sensu Eukarya)"
YDR529C	QCR7	aerobic respiration* ubiquinol-cytochrome c reductase activity respiratory chain complex III (sensu Eukarya)
YEL024W	RIP1	aerobic respiration* ubiquinol-cytochrome c reductase activity respiratory chain complex III (sensu Eukarya)
YGL187C	COX4	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YGR183C	QCR9	aerobic respiration* ubiquinol-cytochrome c reductase activity respiratory chain complex III (sensu Eukarya)
YHR001W-A	QCR10	aerobic respiration* ubiquinol-cytochrome c reductase activity respiratory chain complex III (sensu Eukarya)
YHR051W	COX6	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YJR077C	MIR1	phosphate transport inorganic phosphate transporter activity mitochondrion*
YML120C	NDI1	"mitochondrial electron transport, NADH to ubiquinone" NADH dehydrogenase (ubiquinone) activity respiratory chain complex I (sensu Eukarya)

2.13	respiration (88 ORFs)	2.04515549900194e-16	88	9
40.16	mitochondrion (366 ORFs)	6.34881026448557e-13	366	10
2	ENERGY (252 ORFs)	3.41152524565331e-12	252	9

Cluster 57 regs: HAP3 YPD | HAP4 YPD

avg corr: 0.61604

YBR039W	ATP3	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase, central stalk (sensu Eukarya)"
YDR377W	ATP17	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase complex, coupling factor F(o) (sensu Eukarya)"
YGL187C	COX4	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YHR001W-A	QCR10	aerobic respiration* ubiquinol-cytochrome c reductase activity respiratory chain complex III (sensu Eukarya)
YHR051W	COX6	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YJR077C	MIR1	phosphate transport inorganic phosphate transporter activity mitochondrion*
YML120C	NDI1	"mitochondrial electron transport, NADH to ubiquinone" NADH dehydrogenase (ubiquinone) activity respiratory chain complex I (sensu Eukarya)

2.13	respiration (88 ORFs)	5.80003548635125e-11	88	6
40.16	mitochondrion (366 ORFs)	2.97688500815128e-09	366	7
2	ENERGY (252 ORFs)	3.50014502964287e-08	252	6

Cluster 58 regs: FKH2 YPD | MBP1 YPD

avg corr: 0.62532

YBR078W	ECM33	cell wall organization and biogenesis molecular_function unknown plasma membrane
YLR300W	EXG1	cell wall organization and biogenesis* "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YMR215W	GAS3	biological_process unknown molecular_function unknown cell wall (sensu Fungi)
YOR247W	SRL1	"nucleobase, nucleoside, nucleotide and nucleic acid metabolism" molecular_function unknown cellular_component unknown
YOR248W

14.04.03.05	sporulation and germination (114 ORFs)	0.00344711824345097	114	2
14.04	cell differentiation (382 ORFs)	0.0355503527525677	382	2
14.04.03	fungal cell differentiation (382 ORFs)	0.0355503527525677	382	2

Cluster 59 regs: HIR1 YPD | HIR2 YPD

avg corr: 0.85587

YBR009C	HHF1	chromatin assembly/disassembly DNA binding nuclear nucleosome
YBR010W	HHT1	chromatin assembly/disassembly DNA binding nucleus*
YDR224C	HTB1	chromatin assembly/disassembly DNA binding nuclear nucleosome
YDR225W	HTA1	chromatin assembly/disassembly DNA binding nuclear nucleosome
YNL030W	HHF2	chromatin assembly/disassembly DNA binding nuclear nucleosome
YNL031C	HHT2	chromatin assembly/disassembly DNA binding nuclear nucleosome

40.10.03	chromosome (44 ORFs)	1.09208751793707e-13	44	6
04.05.01.04	transcriptional control (334 ORFs)	2.85131488600771e-08	334	6
04.05.01	mRNA synthesis (406 ORFs)	9.27291885825369e-08	406	6

Cluster 60 regs: FKH2 YPD | NDD1 YPD

avg corr: 0.58939

YBR139W		biological_process unknown carboxypeptidase C activity cellular_component unknown
YDR148C	KGD2	tricarboxylic acid cycle* molecular_function unknown mitochondrial matrix
YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YPR149W	NCE102	protein secretion molecular_function unknown cytoplasm*

UNCLASSIFIED PROTEINS (2399 ORFs)

0.662838321557376

2399

Cluster 61 regs: FHL1 YPD | RAP1 YPD

avg corr: 0.77524

YBL072C	RPS8A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YBL092W	RPL32	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR118W	TEF2	translational elongation translation elongation factor activity ribosome
YBR189W	RPS9B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL061C	RPS29B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL136W	RPL35B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL184C	RPL41A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR447C	RPS17B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER102W	RPS8B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER131W	RPS26B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGL123W	RPS2	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGL147C	RPL9A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGR214W	RPS0A	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHL001W	RPL14B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJR145C	RPS4A	protein biosynthesis* structural constituent of ribosome cytoplasm*
YKR094C	RPL40B	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YLL045C	RPL8B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR325C	RPL38	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR333C	RPS25B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR340W	RPP0	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR344W	RPL26A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YLR388W	RPS29A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YMR116C	ASC1	biological_process unknown molecular_function unknown cytoplasm
YMR229C	RRP5	processing of 20S pre-rRNA* RNA binding* nucleolus*
YNL067W	RPL9B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YNL178W	RPS3	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YNL302C	RPS19B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR182C	RPS30B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL079W	RPL21B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPR043W	RPL43A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	2.29565151874733e-39	215	28
5	PROTEIN SYNTHESIS (359 ORFs)	3.23126276463083e-35	359	29
40.03	cytoplasm (554 ORFs)	1.37879528221054e-29	554	29

Cluster 62 regs: INO2 YPD | INO4 YPD

avg corr: 0.55087

YBR029C	CDS1	phosphatidylglycerol biosynthesis* phosphatidate cytidylyltransferase activity mitochondrion*
YBR030W		phospholipid metabolism molecular_function unknown cellular_component unknown
YCR034W	FEN1	sphingolipid biosynthesis* fatty acid elongase activity endoplasmic reticulum*
YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YER043C	SAH1	methionine metabolism* adenosylhomocysteinase activity cellular_component unknown
YGR155W	CYS4	cysteine biosynthesis cystathione beta-synthase activity cytoplasm
YJR105W	ADO1	purine base metabolism adenosine kinase activity cellular_component unknown
YKL182W	FAS1	fatty acid biosynthesis [acyl-carrier protein] S-malonyltransferase activity* cytosol*
YLR249W	YEF3	translational elongation translation elongation factor activity ribosome
YNL175C	NOP13	biological_process unknown RNA binding nucleolus*
YNR017W	MAS6	mitochondrial translocation protein transporter activity mitochondrion*
YPL231W	FAS2	fatty acid biosynthesis* holo-[acyl-carrier protein] synthase activity* fatty-acid synthase complex

01.06.01	"lipid, fatty-acid and isoprenoid biosynthesis (119 ORFs)"	6.43995699634354e-05	119	4
1	METABOLISM (1066 ORFs)	0.000243522547518261	1066	8
1.06	"lipid, fatty-acid and isoprenoid metabolism (213 ORFs)"	0.000610613566854834	213	4

Cluster 63 regs: ACE2 YPD | SWI4 YPD

avg corr: 0.56164

YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YGL227W	VID30	regulation of nitrogen utilization* molecular_function unknown cellular_component unknown
YHR194W	MDM31	mitochondrion organization and biogenesis molecular_function unknown cellular_component unknown
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"

06.13.04.02	vacuolar degradation (1 ORF)	0.000833333333334153	1	1
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.3170943242567	2399	3

Cluster 64 regs: ACE2 YPD | SWI5 YPD

avg corr: 0.62691

YBR158W	AMN1	negative regulation of exit from mitosis* protein binding nucleus*
YGL028C	SCW11	"cytokinesis, completion of separation" "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YJL078C	PRY3	biological_process unknown molecular_function unknown cell wall (sensu Fungi)
YLR286C	CTS1	"cytokinesis, completion of separation" chitinase activity endoplasmic reticulum*
YNL327W	EGT2	cytokinesis cellulase activity cell wall (sensu Fungi)

03.03.03	cytokinesis (cell division) (35 ORFs)	0.000326987266386766	35	2
14	CELL FATE (427 ORFs)	0.0437476139933246	427	2
3.03	cell cycle (451 ORFs)	0.0484062865728623	451	2

Cluster 65 regs: HIR1 YPD | RCS1 YPD

avg corr: 0.60235

YDR064W	RPS13	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YFR001W	LOC1	ribosomal large subunit biogenesis mRNA binding nucleus
YGR187C	HGH1	biological_process unknown molecular_function unknown cellular_component unknown
YJR007W	SUI2	translational initiation translation initiation factor activity cytoplasm*
YKR026C	GCN3	translational initiation translation initiation factor activity eukaryotic translation initiation factor 2B complex
YLR002C	NOC3	rRNA processing* protein binding* nucleus*
YLR061W	RPL22A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR167W	RPS31	protein biosynthesis* structural constituent of ribosome* cytoplasm*
YOL144W	NOP8	rRNA processing* molecular_function unknown nucleolus
YPL019C	VTC3	vacuole fusion (non-autophagic) molecular_function unknown vacuolar membrane
YPR137W	RRP9	rRNA modification* snoRNA binding small nucleolar ribonucleoprotein complex*

5	PROTEIN SYNTHESIS (359 ORFs)	0.000255214809839275	359	5
5.01	ribosome biogenesis (215 ORFs)	0.00604901950257372	215	3
40.03	cytoplasm (554 ORFs)	0.0140063689567898	554	4

Cluster 66 regs: DIG1 YPD | STE12 YPD

avg corr: 0.60737

YCL027W	FUS1	conjugation with cellular fusion molecular_function unknown plasma membrane*
YCL055W	KAR4	meiosis* transcription regulator activity nucleus
YCR089W	FIG2	cellular morphogenesis during conjugation with cellular fusion* molecular_function unknown cell wall (sensu Fungi)
YIL037C	PRM2	conjugation with cellular fusion molecular_function unknown integral to membrane
YIL082W
YKL189W	HYM1	"cytokinesis, completion of separation*" transcriptional repressor activity intracellular
YMR198W	CIK1	meiosis* microtubule motor activity spindle pole body*
YNL279W	PRM1	plasma membrane fusion molecular_function unknown integral to membrane*
YOR343C

14.04.03.03	"pheromone response, mating-type determination, sex-specific proteins (160 ORFs)"	0.00138900004503084	160	3
14.04	cell differentiation (382 ORFs)	0.00157660365623644	382	4
14.04.03	fungal cell differentiation (382 ORFs)	0.00157660365623644	382	4

Cluster 67 regs: CAD1 YPD | YAP1 YPD

avg corr: 0.52901

YKL103C	LAP4	vacuolar protein catabolism aminopeptidase I activity vacuole (sensu Fungi)
YLL060C	GTT2	glutathione metabolism glutathione transferase activity cell
YML116W	ATR1	multidrug transport multidrug efflux pump activity plasma membrane
YNL134C		biological_process unknown alcohol dehydrogenase (NADP+) activity cellular_component unknown
YOL119C	MCH4	transport transporter activity* vacuolar membrane (sensu Fungi)

11.07	detoxification (102 ORFs)	0.00276788355745683	102	2
11	"CELL RESCUE, DEFENSE AND VIRULENCE (278 ORFs)"	0.0194920959372797	278	2
67	TRANSPORT FACILITATION (313 ORFs)	0.024425230914597	313	2

Cluster 68 regs: MBP1 YPD | NDD1 YPD

avg corr: 0.60528

YBR078W	ECM33	cell wall organization and biogenesis molecular_function unknown plasma membrane
YJL080C	SCP160	chromosome segregation* RNA binding endoplasmic reticulum membrane*
YLR300W	EXG1	cell wall organization and biogenesis* "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YLR367W	RPS22B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR247W	SRL1	"nucleobase, nucleoside, nucleotide and nucleic acid metabolism" molecular_function unknown cellular_component unknown
YOR248W

14.04.03.05	sporulation and germination (114 ORFs)	0.00510659090571004	114	2
14.04	cell differentiation (382 ORFs)	0.0511100064598624	382	2
14.04.03	fungal cell differentiation (382 ORFs)	0.0511100064598624	382	2

Cluster 69 regs: CIN5 YPD | YAP6 YPD

avg corr: 0.63623

YJR145C	RPS4A	protein biosynthesis* structural constituent of ribosome cytoplasm*
YLR075W	RPL10	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR413W		biological_process unknown molecular_function unknown cellular_component unknown
YNL087W		biological_process unknown molecular_function unknown cellular_component unknown
YNL178W	RPS3	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown

5.01	ribosome biogenesis (215 ORFs)	0.000837674434419021	215	3
5	PROTEIN SYNTHESIS (359 ORFs)	0.00370921584174111	359	3
40.03	cytoplasm (554 ORFs)	0.0126592745407328	554	3

Cluster 70 regs: FKH2 YPD | SWI4 YPD

avg corr: 0.49047

YDR261C	EXG2	biological_process unknown "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YIL123W	SIM1	microtubule cytoskeleton organization and biogenesis molecular_function unknown cell wall (sensu Fungi)
YLR084C	RAX2	bud site selection molecular_function unknown membrane*
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown
YPR119W	CLB2	G2/M transition of mitotic cell cycle* "cyclin-dependent protein kinase, intrinsic regulator activity" nucleus*

14	CELL FATE (427 ORFs)	0.00321183376949065	427	3
14.2	cell aging (4 ORFs)	0.00333000055595307	4	1
03.03.01	mitotic cell cycle and cell cycle control (352 ORFs)	0.0304918613303646	352	2

Cluster 71 regs: MBP1 YPD | RLM1 YPD

avg corr: 0.41110

YDR309C	GIC2	establishment of cell polarity (sensu Saccharomyces)* small GTPase regulatory/interacting protein activity shmoo tip*
YGR189C	CRH1	biological_process unknown molecular_function unknown cell wall (sensu Fungi)*
YHR193C	EGD2	nascent polypeptide association chaperone activity nascent polypeptide-associated complex
YJL148W	RPA34	transcription from Pol I promoter DNA-directed RNA polymerase activity nucleus*
YLR300W	EXG1	cell wall organization and biogenesis* "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YLR342W	FKS1	cell wall organization and biogenesis* "1,3-beta-glucan synthase activity" actin cap (sensu Saccharomyces)*

40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.00282901211591983	2258	6
14.01	cell growth / morphogenesis (96 ORFs)	0.00364454694027443	96	2
1.05	C-compound and carbohydrate metabolism (415 ORFs)	0.00561198638681244	415	3

Cluster 72 regs: IME4 YPD | SWI5 YPD

avg corr: 0.49227

YDL223C	HBT1	cellular morphogenesis during conjugation with cellular fusion molecular_function unknown shmoo tip
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YGL227W	VID30	regulation of nitrogen utilization* molecular_function unknown cellular_component unknown
YHR138C		vacuole fusion (non-autophagic) endopeptidase inhibitor activity cellular_component unknown
YJR044C	VPS55	late endosome to vacuole transport molecular_function unknown late endosome

06.13.04.02	vacuolar degradation (1 ORF)	0.000833333333334153	1	1
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.0868224816526523	2399	4

Cluster 73 regs: MCM1 YPD | STE12 YPD

avg corr: 0.55119

YDR461W	MFA1	signal transduction during conjugation with cellular fusion pheromone activity soluble fraction*
YFL026W	STE2	response to pheromone during conjugation with cellular fusion* mating-type alpha-factor pheromone receptor activity integral to plasma membrane
YGL032C	AGA2	agglutination during conjugation with cellular fusion cell adhesion receptor activity cell wall (sensu Fungi)
YKL209C	STE6	peptide pheromone export ATP-binding cassette (ABC) transporter activity integral to plasma membrane*
YNL145W	MFA2	signal transduction during conjugation with cellular fusion pheromone activity extracellular

14.04.03.03	"pheromone response, mating-type determination, sex-specific proteins (160 ORFs)"	1.26813706989326e-08	160	5
40.27	extracellular / secretion proteins (20 ORFs)	3.15479319445959e-07	20	3
14.04	cell differentiation (382 ORFs)	1.02063556638278e-06	382	5

Cluster 74 regs: MBP1 YPD | SWI4 YPD

avg corr: 0.60861

YBR078W	ECM33	cell wall organization and biogenesis molecular_function unknown plasma membrane
YGR189C	CRH1	biological_process unknown molecular_function unknown cell wall (sensu Fungi)*
YLR300W	EXG1	cell wall organization and biogenesis* "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YMR305C	SCW10	conjugation with cellular fusion glucosidase activity cytoplasm*
YOR247W	SRL1	"nucleobase, nucleoside, nucleotide and nucleic acid metabolism" molecular_function unknown cellular_component unknown
YOR248W

14.04.03.05	sporulation and germination (114 ORFs)	0.00510659090571004	114	2
14.04	cell differentiation (382 ORFs)	0.0511100064598624	382	2
14.04.03	fungal cell differentiation (382 ORFs)	0.0511100064598624	382	2

Cluster 75 regs: NDD1 YPD | SKN7 YPD

avg corr: 0.51766

YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YJL100W	LSB6	actin filament organization 1-phosphatidylinositol 4-kinase activity cytoplasm*
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YMR135C	GID8	negative regulation of gluconeogenesis molecular_function unknown cellular_component unknown
YMR136W	GAT2	transcription transcription factor activity nucleus
YPR149W	NCE102	protein secretion molecular_function unknown cytoplasm*
YPR151C	SUE1	biological_process unknown molecular_function unknown cellular_component unknown

UNCLASSIFIED PROTEINS (2399 ORFs)

0.0495907730987665

2399

Cluster 76 regs: MCM1 YPD | SWI4 YPD

avg corr: 0.53357

YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YIL123W	SIM1	microtubule cytoskeleton organization and biogenesis molecular_function unknown cell wall (sensu Fungi)
YLR084C	RAX2	bud site selection molecular_function unknown membrane*
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown
YPR119W	CLB2	G2/M transition of mitotic cell cycle* "cyclin-dependent protein kinase, intrinsic regulator activity" nucleus*

14.2	cell aging (4 ORFs)	0.00333000055595307	4	1
03.03.01	mitotic cell cycle and cell cycle control (352 ORFs)	0.0304918613303646	352	2
14	CELL FATE (427 ORFs)	0.0437476139933246	427	2

Cluster 77 regs: NRG1 YPD | SKN7 YPD

avg corr: 0.48604

YDR043C	NRG1	regulation of transcription from Pol II promoter* DNA binding* nucleus
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YGL227W	VID30	regulation of nitrogen utilization* molecular_function unknown cellular_component unknown
YHR138C		vacuole fusion (non-autophagic) endopeptidase inhibitor activity cellular_component unknown
YIL097W	FYV10	negative regulation of gluconeogenesis molecular_function unknown cellular_component unknown
YIL099W	SGA1	sporulation (sensu Saccharomyces) "glucan 1,4-alpha-glucosidase activity" vacuole (sensu Fungi)
YMR017W	SPO20	nonselective vesicle fusion* v-SNARE activity prospore membrane
YMR135C	GID8	negative regulation of gluconeogenesis molecular_function unknown cellular_component unknown
YOR273C	TPO4	polyamine transport spermine transporter activity* plasma membrane*
YPL230W		biological_process unknown molecular_function unknown cellular_component unknown

06.13.04.02	vacuolar degradation (1 ORF)	0.00166666666667769	1	1
99	UNCLASSIFIED PROTEINS (2399 ORFs)	0.617426556322468	2399	4

Cluster 78 regs: MBP1 YPD | SWI6 YPD

avg corr: 0.56101

YDL003W	MCD1	mitotic chromosome condensation* molecular_function unknown nuclear cohesin complex
YDR097C	MSH6	mismatch repair DNA binding* nucleus
YDR507C	GIN4	protein amino acid phosphorylation* protein kinase activity bud neck
YIL026C	IRR1	cytogamy* protein binding nuclear cohesin complex
YJL074C	SMC3	sporulation (sensu Saccharomyces)* ATPase activity nuclear cohesin complex
YJR030C		biological_process unknown molecular_function unknown cellular_component unknown
YKL113C	RAD27	DNA repair* flap endonuclease activity nucleus
YLR103C	CDC45	DNA replication initiation* DNA binding replication fork*
YMR076C	PDS5	mitotic chromosome condensation* structural molecule activity condensed nuclear chromosome
YNL273W	TOF1	DNA topological change molecular_function unknown cell
YOR074C	CDC21	DNA dependent DNA replication* thymidylate synthase activity nucleus

3	CELL CYCLE AND DNA PROCESSING (628 ORFs)	6.47888620386623e-08	628	9
3.03	cell cycle (451 ORFs)	5.82080170045508e-05	451	6
03.03.01	mitotic cell cycle and cell cycle control (352 ORFs)	0.000232567878626122	352	5

Cluster 79 regs: NDD1 YPD | SWI4 YPD

avg corr: 0.53307

YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YHR194W	MDM31	mitochondrion organization and biogenesis molecular_function unknown cellular_component unknown
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YMR135C	GID8	negative regulation of gluconeogenesis molecular_function unknown cellular_component unknown
YMR136W	GAT2	transcription transcription factor activity nucleus
YPR149W	NCE102	protein secretion molecular_function unknown cytoplasm*

UNCLASSIFIED PROTEINS (2399 ORFs)

0.0959657926006121

2399

Cluster 80 regs: PHD1 YPD | SWI4 YPD

avg corr: 0.49335

YBR162C	TOS1	biological_process unknown molecular_function unknown cellular_component unknown
YDR261C	EXG2	biological_process unknown "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YDR309C	GIC2	establishment of cell polarity (sensu Saccharomyces)* small GTPase regulatory/interacting protein activity shmoo tip*
YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YJL158C	CIS3	cell wall organization and biogenesis structural constituent of cell wall plasma membrane*
YNL178W	RPS3	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

14.01	cell growth / morphogenesis (96 ORFs)	0.00364454694027443	96	2
14.04.03	fungal cell differentiation (382 ORFs)	0.00443104533795693	382	3
14.04	cell differentiation (382 ORFs)	0.00443104533795693	382	3

Cluster 81 regs: RLM1 YPD | SWI4 YPD

avg corr: 0.52925

YEL040W	UTR2	cell wall organization and biogenesis molecular_function unknown cell wall (sensu Fungi)*
YGR189C	CRH1	biological_process unknown molecular_function unknown cell wall (sensu Fungi)*
YJL158C	CIS3	cell wall organization and biogenesis structural constituent of cell wall plasma membrane*
YLR300W	EXG1	cell wall organization and biogenesis* "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YLR342W	FKS1	cell wall organization and biogenesis* "1,3-beta-glucan synthase activity" actin cap (sensu Saccharomyces)*

01.05.01	C-compound and carbohydrate utilization (261 ORFs)	0.0172768800068144	261	2
14.04	cell differentiation (382 ORFs)	0.0355503527525677	382	2
14.04.03	fungal cell differentiation (382 ORFs)	0.0355503527525677	382	2

Cluster 82 regs: SKN7 YPD | SWI4 YPD

avg corr: 0.50488

YBR077C		biological_process unknown molecular_function unknown cytoplasm
YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YMR135C	GID8	negative regulation of gluconeogenesis molecular_function unknown cellular_component unknown
YMR136W	GAT2	transcription transcription factor activity nucleus
YPR149W	NCE102	protein secretion molecular_function unknown cytoplasm*

UNCLASSIFIED PROTEINS (2399 ORFs)

0.0959657926006121

2399

Cluster 83 regs: STB1 YPD | SWI4 YPD

avg corr: 0.50492

YDR500C	RPL37B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOR246C		biological_process unknown oxidoreductase activity cellular_component unknown
YOR247W	SRL1	"nucleobase, nucleoside, nucleotide and nucleic acid metabolism" molecular_function unknown cellular_component unknown
YOR248W
YPL256C	CLN2	regulation of CDK activity* "cyclin-dependent protein kinase, intrinsic regulator activity" nucleus*

40.03	cytoplasm (554 ORFs)	0.0705015585817968	554	2
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.621045124991401	2258	2

Cluster 84 regs: STE12 YPD | SWI4 YPD

avg corr: 0.58495

YGR014W	MSB2	establishment of cell polarity (sensu Saccharomyces)* osmosensor activity integral to plasma membrane
YGR189C	CRH1	biological_process unknown molecular_function unknown cell wall (sensu Fungi)*
YIL123W	SIM1	microtubule cytoskeleton organization and biogenesis molecular_function unknown cell wall (sensu Fungi)
YOR247W	SRL1	"nucleobase, nucleoside, nucleotide and nucleic acid metabolism" molecular_function unknown cellular_component unknown
YOR248W

14.2	cell aging (4 ORFs)	0.00333000055595307	4	1
14	CELL FATE (427 ORFs)	0.0437476139933246	427	2
40	SUBCELLULAR LOCALISATION (2258 ORFs)	0.621045124991401	2258	2

Cluster 85 regs: SWI4 YPD | SWI6 YPD

avg corr: 0.57679

YBR078W	ECM33	cell wall organization and biogenesis molecular_function unknown plasma membrane
YGR014W	MSB2	establishment of cell polarity (sensu Saccharomyces)* osmosensor activity integral to plasma membrane
YIL123W	SIM1	microtubule cytoskeleton organization and biogenesis molecular_function unknown cell wall (sensu Fungi)
YJL158C	CIS3	cell wall organization and biogenesis structural constituent of cell wall plasma membrane*
YKR013W	PRY2	biological_process unknown molecular_function unknown cellular_component unknown
YLR300W	EXG1	cell wall organization and biogenesis* "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YMR305C	SCW10	conjugation with cellular fusion glucosidase activity cytoplasm*
YNL300W		biological_process unknown molecular_function unknown cell wall (sensu Fungi)
YPL163C	SVS1	response to chemical substance molecular_function unknown cellular_component unknown

14	CELL FATE (427 ORFs)	0.000176817662507712	427	5
14.04	cell differentiation (382 ORFs)	0.00157660365623644	382	4
14.04.03	fungal cell differentiation (382 ORFs)	0.00157660365623644	382	4

Cluster 86 regs: ARG80 YPD | ARG81 YPD | GCN4 YPD

avg corr: 0.49256

YER069W		"ARG5,6" arginine biosynthesis* N-acetyl-gamma-glutamyl-phosphate reductase activity* mitochondrial matrix
YJL088W	ARG3	arginine biosynthesis* ornithine carbamoyltransferase activity cytosol
YOL058W	ARG1	arginine biosynthesis* argininosuccinate synthase activity cytosol
YOR302W		regulation of protein biosynthesis translation regulator activity cytosol
YOR303W	CPA1	arginine biosynthesis carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity cytosol

01.01.01	amino acid biosynthesis (118 ORFs)	7.00433079680243e-07	118	4
1.01	amino acid metabolism (204 ORFs)	6.32013962722021e-06	204	4
40.03	cytoplasm (554 ORFs)	0.000333446042413407	554	4

Cluster 87 regs: HAP2 YPD | HAP3 YPD | HAP5 YPD

avg corr: 0.44299

YBR039W	ATP3	ATP synthesis coupled proton transport "hydrogen-transporting ATP synthase activity, rotational mechanism" "proton-transporting ATP synthase, central stalk (sensu Eukarya)"
YGL187C	COX4	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YHR051W	COX6	aerobic respiration cytochrome c oxidase activity respiratory chain complex IV (sensu Eukarya)
YLL027W	ISA1	iron ion transport molecular_function unknown mitochondrial matrix
YLR220W	CCC1	iron ion homeostasis* molecular_function unknown membrane fraction*

2.13	respiration (88 ORFs)	2.98527072797308e-05	88	3
13.01.01	homeostasis of cations (117 ORFs)	7.02485930094004e-05	117	3
13.01	ionic homeostasis (127 ORFs)	8.98004641274857e-05	127	3

Cluster 88 regs: FHL1 YPD | FKH2 YPD | RAP1 YPD

avg corr: 0.61850

YDR500C	RPL37B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YML063W	RPS1B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML064C	TEM1	signal transduction* protein binding* spindle pole body
YOR095C	RKI1	pentose-phosphate shunt ribose-5-phosphate isomerase activity cellular_component unknown
YOR096W	RPS7A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR312C	RPL20B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	2.27351792217391e-05	215	4
40.03	cytoplasm (554 ORFs)	3.65874226698324e-05	554	5
5	PROTEIN SYNTHESIS (359 ORFs)	0.000171755733028847	359	4

Cluster 89 regs: FHL1 YPD | GAT3 YPD | RAP1 YPD

avg corr: 0.82157

YBR084C-A	RPL19A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR181C	RPS6B	protein biosynthesis structural constituent of ribosome cytoplasm*
YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL075W	RPL31A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL191W	RPL35A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR025W	RPS11A	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR418W	RPL12B	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR449C	UTP6	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YDR450W	RPS18A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YFR031C-A	RPL2A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGL030W	RPL30	protein biosynthesis* structural constituent of ribosome cytoplasm*
YGL031C	RPL24A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YGL189C	RPS26A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGR034W	RPL26B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YGR148C	RPL24B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YHR021C	RPS27B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR203C	RPS4B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJL136C	RPS21B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YJL177W	RPL17B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL189W	RPL39	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL190C	RPS22A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YKL006W	RPL14A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YKL180W	RPL17A	protein biosynthesis structural constituent of ribosome cytoplasm*
YLR048W	RPS0B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR441C	RPS1A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR448W	RPL6B	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YML026C	RPS18B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML063W	RPS1B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML073C	RPL6A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YMR242C	RPL20A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YNL069C	RPL16B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YNL096C	RPS7B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOL039W	RPP2A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOL040C	RPS15	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOL127W	RPL25	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YOR234C	RPL33B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOR293W	RPS10A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOR312C	RPL20B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPL090C	RPS6A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL131W	RPL5	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YPR102C	RPL11A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPR132W	RPS23B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	1.82195415823064e-75	215	51
5	PROTEIN SYNTHESIS (359 ORFs)	6.16208977140745e-63	359	51
40.03	cytoplasm (554 ORFs)	4.66801166135241e-48	554	49

Cluster 90 regs: FKH2 YPD | MCM1 YPD | NDD1 YPD

avg corr: 0.55990

YDR146C	SWI5	G1-specific transcription in mitotic cell cycle transcriptional activator activity nucleus*
YGL021W	ALK1	mitosis protein serine/threonine kinase activity nucleus
YJL051W		biological_process unknown molecular_function unknown cellular_component unknown
YJR092W	BUD4	bud site selection* GTP binding contractile ring (sensu Saccharomyces)
YLR190W	MMR1	biological_process unknown molecular_function unknown cellular_component unknown
YOR315W		biological_process unknown molecular_function unknown cellular_component unknown
YPR119W	CLB2	G2/M transition of mitotic cell cycle* "cyclin-dependent protein kinase, intrinsic regulator activity" nucleus*

14.04	cell differentiation (382 ORFs)	0.00739033883588013	382	3
14.04.03	fungal cell differentiation (382 ORFs)	0.00739033883588013	382	3
14	CELL FATE (427 ORFs)	0.0100911167759946	427	3

Cluster 91 regs: FHL1 YPD | MET31 YPD | RAP1 YPD

avg corr: 0.66793

YDR064W	RPS13	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR500C	RPL37B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL191W	RPS14B	protein biosynthesis* structural constituent of ribosome* cytosolic small ribosomal subunit (sensu Eukarya)
YJL192C	SOP4	ER to Golgi transport molecular_function unknown endoplasmic reticulum*
YKL156W	RPS27A	protein biosynthesis structural constituent of ribosome cytoplasm*
YLR167W	RPS31	protein biosynthesis* structural constituent of ribosome* cytoplasm*
YOL121C	RPS19A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	1.34328561653203e-08	215	6
5	PROTEIN SYNTHESIS (359 ORFs)	2.9316253022033e-07	359	6
40.03	cytoplasm (554 ORFs)	3.90028736245919e-06	554	6

Cluster 92 regs: FHL1 YPD | GAT3 YPD | YAP5 YPD

avg corr: 0.82115

YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL191W	RPL35A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR449C	UTP6	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YDR450W	RPS18A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGL189C	RPS26A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGR034W	RPL26B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YGR148C	RPL24B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR203C	RPS4B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJL136C	RPS21B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YJL177W	RPL17B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL189W	RPL39	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL190C	RPS22A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR048W	RPS0B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR441C	RPS1A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR448W	RPL6B	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YML026C	RPS18B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML063W	RPS1B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML073C	RPL6A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YNL069C	RPL16B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YOL127W	RPL25	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YOR234C	RPL33B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOR293W	RPS10A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL090C	RPS6A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPR132W	RPS23B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	5.28974990464304e-48	215	33
5	PROTEIN SYNTHESIS (359 ORFs)	3.35963516240749e-40	359	33
40.03	cytoplasm (554 ORFs)	1.59588122837746e-31	554	32

Cluster 93 regs: FHL1 YPD | PDR1 YPD | RAP1 YPD

avg corr: 0.77223

YBL087C	RPL23A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL075W	RPL31A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR064W	RPS13	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR418W	RPL12B	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER056C-A	RPL34A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGL103W	RPL28	protein biosynthesis structural constituent of ribosome* nucleus*
YGL189C	RPS26A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHR021C	RPS27B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJL191W	RPS14B	protein biosynthesis* structural constituent of ribosome* cytosolic small ribosomal subunit (sensu Eukarya)
YJL192C	SOP4	ER to Golgi transport molecular_function unknown endoplasmic reticulum*
YLR061W	RPL22A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YNL069C	RPL16B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YOL121C	RPS19A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL143W	RPL33A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPR080W	TEF1	translational elongation translation elongation factor activity ribosome
YPR102C	RPL11A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	5.84573326317581e-35	215	25
5	PROTEIN SYNTHESIS (359 ORFs)	1.69303641578294e-31	359	26
40.03	cytoplasm (554 ORFs)	2.42665917223091e-24	554	25

Cluster 94 regs: FHL1 YPD | RAP1 YPD | SFP1 YPD

avg corr: 0.82373

YDL075W	RPL31A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YFR031C-A	RPL2A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGL030W	RPL30	protein biosynthesis* structural constituent of ribosome cytoplasm*
YGL031C	RPL24A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YGL103W	RPL28	protein biosynthesis structural constituent of ribosome* nucleus*
YGL135W	RPL1B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR021C	RPS27B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YLR048W	RPS0B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR167W	RPS31	protein biosynthesis* structural constituent of ribosome* cytoplasm*
YNL096C	RPS7B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOL127W	RPL25	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YPR102C	RPL11A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	5.05309265368455e-30	215	20
5	PROTEIN SYNTHESIS (359 ORFs)	2.08211020235084e-25	359	20
40.03	cytoplasm (554 ORFs)	3.02757543303728e-19	554	19

Cluster 95 regs: FKH2 YPD | NDD1 YPD | SWI4 YPD

avg corr: 0.62116

YBR078W	ECM33	cell wall organization and biogenesis molecular_function unknown plasma membrane
YGL008C	PMA1	regulation of pH* "hydrogen-exporting ATPase activity, phosphorylative mechanism" plasma membrane*
YJL158C	CIS3	cell wall organization and biogenesis structural constituent of cell wall plasma membrane*
YLR300W	EXG1	cell wall organization and biogenesis* "glucan 1,3-beta-glucosidase activity" cell wall (sensu Fungi)
YOR247W	SRL1	"nucleobase, nucleoside, nucleotide and nucleic acid metabolism" molecular_function unknown cellular_component unknown
YOR248W

14.04.03	fungal cell differentiation (382 ORFs)	0.00443104533795693	382	3
14.04	cell differentiation (382 ORFs)	0.00443104533795693	382	3
14.04.03.05	sporulation and germination (114 ORFs)	0.00510659090571004	114	2

Cluster 96 regs: ACE2 YPD | SKN7 YPD | SWI5 YPD

avg corr: 0.48321

YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YGL227W	VID30	regulation of nitrogen utilization* molecular_function unknown cellular_component unknown
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YMR262W		biological_process unknown molecular_function unknown cellular_component unknown
YNL241C	ZWF1	pentose-phosphate shunt glucose-6-phosphate 1-dehydrogenase activity cytoplasm
YOR138C		biological_process unknown molecular_function unknown cytoplasm

06.13.04.02	vacuolar degradation (1 ORF)	0.00116666666667968	1	1
2	ENERGY (252 ORFs)	0.0320849425127742	252	2
01.05.01	C-compound and carbohydrate utilization (261 ORFs)	0.0342482701030078	261	2

Cluster 97 regs: FHL1 YPD | PDR1 YPD | YAP5 YPD

avg corr: 0.79365

YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER056C-A	RPL34A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGL103W	RPL28	protein biosynthesis structural constituent of ribosome* nucleus*
YGL189C	RPS26A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YNL069C	RPL16B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YPR080W	TEF1	translational elongation translation elongation factor activity ribosome

5.01	ribosome biogenesis (215 ORFs)	1.9732324118817e-21	215	15
5	PROTEIN SYNTHESIS (359 ORFs)	1.96101533069358e-20	359	16
40.03	cytoplasm (554 ORFs)	2.28806740831539e-17	554	16

Cluster 98 regs: FHL1 YPD | RAP1 YPD | YAP5 YPD

avg corr: 0.81408

YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL191W	RPL35A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR449C	UTP6	processing of 20S pre-rRNA snoRNA binding small nucleolar ribonucleoprotein complex
YDR450W	RPS18A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER056C-A	RPL34A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGL103W	RPL28	protein biosynthesis structural constituent of ribosome* nucleus*
YGL189C	RPS26A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGR034W	RPL26B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YGR118W	RPS23A	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YGR148C	RPL24B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR203C	RPS4B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJL136C	RPS21B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YJL177W	RPL17B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL189W	RPL39	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL190C	RPS22A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR048W	RPS0B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR185W	RPL37A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YLR441C	RPS1A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR448W	RPL6B	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YML026C	RPS18B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML063W	RPS1B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML073C	RPL6A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YNL069C	RPL16B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YNL162W	RPL42A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOL120C	RPL18A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOL127W	RPL25	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YOR234C	RPL33B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOR293W	RPS10A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL090C	RPS6A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPR080W	TEF1	translational elongation translation elongation factor activity ribosome
YPR132W	RPS23B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	9.21027709333298e-56	215	39
5	PROTEIN SYNTHESIS (359 ORFs)	5.54069158803105e-49	359	40
40.03	cytoplasm (554 ORFs)	8.81612228237181e-39	554	39

Cluster 99 regs: GAT3 YPD | PDR1 YPD | YAP5 YPD

avg corr: 0.68164

YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR091C	MSR1	protein biosynthesis* arginine-tRNA ligase activity mitochondrion
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YNL069C	RPL16B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	4.17447229929412e-17	215	12
5	PROTEIN SYNTHESIS (359 ORFs)	1.02432430530987e-16	359	13
40.03	cytoplasm (554 ORFs)	4.10235244108149e-12	554	12

Cluster 100 regs: GAT3 YPD | RAP1 YPD | YAP5 YPD

avg corr: 0.76794

YBR191W	RPL21A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDL191W	RPL35A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR450W	RPS18A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL076C		biological_process unknown molecular_function unknown cellular_component unknown
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YER117W	RPL23B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YGR034W	RPL26B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YGR148C	RPL24B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YHR203C	RPS4B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHR204W	MNL1	ER-associated protein catabolism carbohydrate binding endoplasmic reticulum
YIL018W	RPL2B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YJL136C	RPS21B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YJL177W	RPL17B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL189W	RPL39	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YJL190C	RPS22A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR048W	RPS0B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR441C	RPS1A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YLR448W	RPL6B	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YML026C	RPS18B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML063W	RPS1B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YML073C	RPL6A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YNL069C	RPL16B	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YOL127W	RPL25	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YOR234C	RPL33B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOR293W	RPS10A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPL090C	RPS6A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YPR132W	RPS23B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	2.76138742815475e-45	215	32
5	PROTEIN SYNTHESIS (359 ORFs)	9.57846271662461e-38	359	32
40.03	cytoplasm (554 ORFs)	1.77762101780148e-29	554	31

Cluster 101 regs: FHL1 YPD | RAP1 YPD | GAL4 YPD

avg corr: 0.75754

YBR084C-A	RPL19A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YBR181C	RPS6B	protein biosynthesis structural constituent of ribosome cytoplasm*
YDL075W	RPL31A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL082W	RPL13A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDL083C	RPS16B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YDR418W	RPL12B	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YDR471W	RPL27B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YEL054C	RPL12A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER056C-A	RPL34A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YER074W	RPS24A	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YHR141C	RPL42B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YIL133C	RPL16A	protein biosynthesis structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YIL148W	RPL40A	protein biosynthesis* structural constituent of ribosome* cytosolic large ribosomal subunit (sensu Eukarya)
YML026C	RPS18B	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOL039W	RPP2A	protein biosynthesis* structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOL040C	RPS15	protein biosynthesis structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)
YOL120C	RPL18A	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YOR312C	RPL20B	protein biosynthesis structural constituent of ribosome cytosolic large ribosomal subunit (sensu Eukarya)
YPR080W	TEF1	translational elongation translation elongation factor activity ribosome
YPR131C	NAT3	N-terminal peptidyl-methionine acetylation peptide alpha-N-acetyltransferase activity cellular_component unknown
YPR132W	RPS23B	protein biosynthesis* structural constituent of ribosome cytosolic small ribosomal subunit (sensu Eukarya)

5.01	ribosome biogenesis (215 ORFs)	3.03964237660858e-26	215	19
5	PROTEIN SYNTHESIS (359 ORFs)	4.13636608760056e-24	359	20
40.03	cytoplasm (554 ORFs)	2.84336094553106e-20	554	20

Cluster 102 regs: MBP1 YPD | SWI4 YPD | SWI6 YPD

avg corr: 0.48872

YER070W	RNR1	DNA replication ribonucleoside-diphosphate reductase activity cytoplasm
YJL187C	SWE1	G2/M transition of mitotic cell cycle* protein tyrosine kinase activity nucleus*
YML027W	YOX1	"negative regulation of transcription from Pol II promoter, mitotic" DNA binding nucleus
YMR144W		biological_process unknown molecular_function unknown nucleus
YMR179W	SPT21	regulation of transcription from Pol II promoter molecular_function unknown cellular_component unknown
YMR199W	CLN1	regulation of CDK activity "cyclin-dependent protein kinase, intrinsic regulator activity" nucleus*
YPL267W		biological_process unknown molecular_function unknown cellular_component unknown
YPR120C	CLB5	G1/S transition of mitotic cell cycle* "cyclin-dependent protein kinase, intrinsic regulator activity" nucleus

3	CELL CYCLE AND DNA PROCESSING (628 ORFs)	0.00589490560868084	628	4
03.03.01	mitotic cell cycle and cell cycle control (352 ORFs)	0.00898553741241632	352	3
3.03	cell cycle (451 ORFs)	0.0177575051999966	451	3

Cluster 103 regs: ACE2 YPD | MBP1 YPD | NDD1 YPD | SWI5 YPD

avg corr: 0.57228

YER079W		biological_process unknown molecular_function unknown cellular_component unknown
YFR017C		biological_process unknown molecular_function unknown cellular_component unknown
YJR044C	VPS55	late endosome to vacuole transport molecular_function unknown late endosome
YKL150W	MCR1	response to oxidative stress* cytochrome b5 reductase activity mitochondrial intermembrane space*
YKL151C		biological_process unknown molecular_function unknown cellular_component unknown
YML100W	TSL1	response to stress* enzyme regulator activity "alpha, alpha-trehalose-phosphate synthase complex (UDP-forming)"
YNL241C	ZWF1	pentose-phosphate shunt glucose-6-phosphate 1-dehydrogenase activity cytoplasm

2	ENERGY (252 ORFs)	0.00225973824882576	252	3
01.05.01	C-compound and carbohydrate utilization (261 ORFs)	0.0342482701030078	261	2
1.05	C-compound and carbohydrate metabolism (415 ORFs)	0.0794767638857971	415	2

Cluster 104 regs: NRG1 YPD | PHD1 YPD | ROX1 YPD | YAP6 YPD

avg corr: 0.42632

YDL245C	HXT15	hexose transport glucose transporter activity* plasma membrane
YIL099W	SGA1	sporulation (sensu Saccharomyces) "glucan 1,4-alpha-glucosidase activity" vacuole (sensu Fungi)
YJL221C	FSP2	biological_process unknown alpha-glucosidase activity cellular_component unknown
YJR158W	HXT16	hexose transport glucose transporter activity* plasma membrane
YMR017W	SPO20	nonselective vesicle fusion* v-SNARE activity prospore membrane
YMR135C	GID8	negative regulation of gluconeogenesis molecular_function unknown cellular_component unknown

1.05	C-compound and carbohydrate metabolism (415 ORFs)	0.000302613033238499	415	4
01.05.07	"C-compound, carbohydrate transport (42 ORFs)"	0.000704950720606137	42	2
67.07	C-compound and carbohydrate transporters (46 ORFs)	0.000845904286454829	46	2

Cluster 105 regs: NRG1 YPD | PHD1 YPD | SOK2 YPD | YAP6 YPD

avg corr: 0.48922

YDL245C	HXT15	hexose transport glucose transporter activity* plasma membrane
YEL069C	HXT13	hexose transport glucose transporter activity* plasma membrane
YEL070W		biological_process unknown molecular_function unknown cellular_component unknown
YJL221C	FSP2	biological_process unknown alpha-glucosidase activity cellular_component unknown
YJR158W	HXT16	hexose transport glucose transporter activity* plasma membrane

1.05	C-compound and carbohydrate metabolism (415 ORFs)	1.54776592308566e-06	415	5
01.05.07	"C-compound, carbohydrate transport (42 ORFs)"	3.15944007064993e-06	42	3
67.07	C-compound and carbohydrate transporters (46 ORFs)	4.17352842630164e-06	46	3

Cluster 106 regs: GAL4 YPD

avg corr: 0.58264

YBR018C	GAL7	galactose metabolism UTP-hexose-1-phosphate uridylyltransferase activity cytoplasm
YBR019C	GAL10	galactose metabolism molecular_function unknown cellular_component unknown
YBR020W	GAL1	galactose metabolism galactokinase activity cellular_component unknown
YDR009W	GAL3	"regulation of transcription, DNA-dependent*" protein binding cytoplasm
YLR081W	GAL2	galactose metabolism* glucose transporter activity* plasma membrane

1.05	C-compound and carbohydrate metabolism (415 ORFs)	1.54776592308566e-06	415	5
1	METABOLISM (1066 ORFs)	0.00017566044351101	1066	5
01.05.01	C-compound and carbohydrate utilization (261 ORFs)	0.000762463749656095	261	3