| DHH1 | YDL160C | Cytoplasmic DEAD-box helicase and mRNA decapping activator | physical | 3 | 1 | 3 | Affinity Capture-RNA, Affinity Capture-RNA, Affinity Capture-RNA | 
            
                | FKH2 | YNL068C | Forkhead family transcription factor | regulation | 2 | 2 | 2 | chromatin immunoprecipitation-chip evidence, ChEC-Seq experiments | 
            
                | TCB3 | YML072C | Cortical ER protein involved in ER-plasma membrane tethering | physical | 2 | 1 | 2 | PCA, PCA | 
            
                | YIR016W | YIR016W | Putative protein of unknown function | genetic | 2 | 1 | 2 | Negative Genetic, Negative Genetic | 
            
                | GIM4 | YEL003W | Subunit of the heterohexameric cochaperone prefoldin complex | genetic | 2 | 1 | 2 | Negative Genetic, Negative Genetic | 
            
                | ENT5 | YDR153C | Protein containing an N-terminal epsin-like domain | genetic | 2 | 1 | 2 | Negative Genetic, Negative Genetic | 
            
                | ENV9 | YOR246C | Conserved oxidoreductase involved in lipid droplet morphology | genetic | 2 | 1 | 2 | Negative Genetic, Negative Genetic | 
            
                | FKH1 | YIL131C | Forkhead family transcription factor | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | STE12 | YHR084W | Transcription factor that is activated by a MAPK signaling cascade | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | SPT10 | YJL127C | Histone H3 acetylase with a role in transcriptional regulation | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | GCR1 | YPL075W | Transcriptional activator of genes involved in glycolysis | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | HFI1 | YPL254W | Adaptor protein required for structural integrity of the SAGA complex | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | SPT20 | YOL148C | Subunit of the SAGA transcriptional regulatory complex | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | YAP6 | YDR259C | Basic leucine zipper (bZIP) transcription factor | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | SIN4 | YNL236W | Subunit of the RNA polymerase II mediator complex | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | HSF1 | YGL073W | Trimeric heat shock transcription factor | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | UME6 | YDR207C | Rpd3L histone deacetylase complex subunit | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | CST6 | YIL036W | Basic leucine zipper (bZIP) transcription factor from ATF/CREB family | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | SIN3 | YOL004W | Component of both the Rpd3S and Rpd3L histone deacetylase complexes | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | UGA3 | YDL170W | Transcriptional activator for GABA-dependent induction of GABA genes | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | CKB1 | YGL019W | Beta regulatory subunit of casein kinase 2 (CK2) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | DED1 | YOR204W | ATP-dependent DEAD-box RNA helicase with strand-annealing activity | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | CCR4 | YAL021C | Component of the CCR4-NOT transcriptional complex | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | GLO3 | YER122C | ADP-ribosylation factor GTPase activating protein (ARF GAP) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | IMG1 | YCR046C | Mitochondrial ribosomal protein of the large subunit | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | GEP3 | YOR205C | Protein required for mitochondrial ribosome small subunit biogenesis | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | GPT2 | YKR067W | Glycerol-3-phosphate/dihydroxyacetone phosphate sn-1 acyltransferase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | HEK2 | YBL032W | RNA binding protein involved in asymmetric localization of ASH1 mRNA | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | CAB5 | YDR196C | Subunit of the CoA-Synthesizing Protein Complex (CoA-SPC) | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | ADR1 | YDR216W | Carbon source-responsive zinc-finger transcription factor | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | ADH2 | YMR303C | Glucose-repressible alcohol dehydrogenase II | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | HYP2 | YEL034W | Translation elongation factor eIF-5A | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | ACS2 | YLR153C | Acetyl-coA synthetase isoform | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | ERG10 | YPL028W | Acetyl-CoA C-acetyltransferase (acetoacetyl-CoA thiolase) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | GPA2 | YER020W | Nucleotide binding alpha subunit of the heterotrimeric G protein | physical | 1 | 1 | 1 | PCA | 
            
                | DSS4 | YPR017C | Guanine nucleotide dissociation stimulator for Sec4p | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RAD24 | YER173W | Checkpoint protein | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | SNT2 | YGL131C | Subunit of Snt2C complex, RING finger ubiquitin ligase (E3) | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | SHE2 | YKL130C | RNA-binding protein that binds specific mRNAs and interacts with She3p | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | RIM1 | YCR028C-A | ssDNA-binding protein essential for mitochondrial genome maintenance | physical | 1 | 1 | 1 | PCA | 
            
                | PST2 | YDR032C | FMN-dependent NAD(P)H:quinone oxidoreductase | physical | 1 | 1 | 1 | PCA | 
            
                | PLM2 | YDR501W | Putative transcription factor, contains Forkhead Associated domain | physical | 1 | 1 | 1 | PCA | 
            
                | SDS23 | YGL056C | Protein involved in cell separation during budding | physical | 1 | 1 | 1 | PCA | 
            
                | KEX1 | YGL203C | Cell death protease essential for hypochlorite-induced apoptosis | physical | 1 | 1 | 1 | PCA | 
            
                | MUP1 | YGR055W | High affinity methionine permease | physical | 1 | 1 | 1 | PCA | 
            
                | VHT1 | YGR065C | High-affinity plasma membrane H+-biotin (vitamin H) symporter | physical | 1 | 1 | 1 | PCA | 
            
                | TPO2 | YGR138C | Polyamine transporter of the major facilitator superfamily | physical | 1 | 1 | 1 | PCA | 
            
                | QDR2 | YIL121W | Plasma membrane transporter of the major facilitator superfamily | physical | 1 | 1 | 1 | PCA | 
            
                | SFK1 | YKL051W | Protein that regulates phospholipid asymmetry at plasma membrane | physical | 1 | 1 | 1 | PCA | 
            
                | TPO1 | YLL028W | Polyamine transporter of the major facilitator superfamily | physical | 1 | 1 | 1 | PCA | 
            
                | MEP3 | YPR138C | Ammonium permease of high capacity and low affinity | physical | 1 | 1 | 1 | PCA | 
            
                | WHI3 | YNL197C | RNA binding protein that modulates mRNA stability | physical | 1 | 1 | 1 | Protein-RNA | 
            
                | SSB1 | YDL229W | Cytoplasmic ATPase that is a ribosome-associated molecular chaperone | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | INA1 | YLR413W | Protein of unknown function | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | SSA1 | YAL005C | ATPase involved in protein folding and NLS-directed nuclear transport | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | SSA2 | YLL024C | HSP70 family ATP-binding protein | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | LSM1 | YJL124C | Lsm (Like Sm) protein | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | PAT1 | YCR077C | Deadenylation-dependent mRNA-decapping factor | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | PUF3 | YLL013C | Protein of the mitochondrial outer surface | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | PUF2 | YPR042C | PUF family mRNA-binding protein | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | ISW1 | YBR245C | ATPase subunit of imitation-switch (ISWI) class chromatin remodelers | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | POP4 | YBR257W | Subunit of both RNase MRP and nuclear RNase P | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MSS2 | YDL107W | Peripherally bound inner membrane protein of the mitochondrial matrix | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | TAO3 | YIL129C | Component of the RAM signaling network | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | TIF6 | YPR016C | Constituent of 66S pre-ribosomal particles | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | INO4 | YOL108C | Transcription factor involved in phospholipid synthesis | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | TRM44 | YPL030W | tRNA(Ser) Um(44) 2'-O-methyltransferase | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | MSN1 | YOL116W | Transcriptional activator | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | MAK16 | YAL025C | Essential nuclear protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PKC1 | YBL105C | Protein serine/threonine kinase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPN6 | YDL097C | Essential, non-ATPase regulatory subunit of the 26S proteasome lid | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SEC31 | YDL195W | Component of the Sec13p-Sec31p complex of the COPII vesicle coat | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | STT3 | YGL022W | Catalytic subunit of the oligosaccharyltransferase complex of the ER l | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | NUP82 | YJL061W | Linker nucleoporin component of the nuclear pore complex (NPC) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MAK11 | YKL021C | Protein involved in an early step of 60S ribosomal subunit biogenesis | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | LAS17 | YOR181W | Actin assembly factor | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SCT1 | YBL011W | Glycerol 3-phosphate/dihydroxyacetone phosphate sn-1 acyltransferase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RBK1 | YCR036W | Ribokinase, phosphorylates ribose to ribose-5-phosphate | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SFA1 | YDL168W | Bifunctional alcohol dehydrogenase and formaldehyde dehydrogenase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPL41A | YDL184C | Ribosomal 60S subunit protein L41A | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PIB1 | YDR313C | RING-type ubiquitin ligase of the endosomal and vacuolar membranes | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPS24A | YER074W | Protein component of the small (40S) ribosomal subunit | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | TOS8 | YGL096W | Homeodomain-containing protein and putative transcription factor | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MNN11 | YJL183W | Subunit of a Golgi mannosyltransferase complex | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MNN5 | YJL186W | Alpha-1,2-mannosyltransferase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PET191 | YJR034W | Protein required for assembly of cytochrome c oxidase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | TUL1 | YKL034W | Subunit of the DSC ubiquitin ligase complex | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | LOS1 | YKL205W | Nuclear pore protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | YLR031W | YLR031W | Putative protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SHG1 | YBR258C | Subunit of the COMPASS (Set1C) complex | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | YKL091C | YKL091C | Putative phosphatidylinositol/phosphatidylcholine transfer protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPL8B | YLL045C | Ribosomal 60S subunit protein L8A | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MSC1 | YML128C | Protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | NTG2 | YOL043C | DNA N-glycosylase and apurinic/apyrimidinic (AP) lyase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | YOL153C | YOL153C | Blocked reading frame, contains two in-frame stops in translation | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SGF11 | YPL047W | Integral subunit of SAGA histone acetyltransferase complex | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PET111 | YMR257C | Mitochondrial translational activator specific for the COX2 mRNA | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SFB2 | YNL049C | Component of the Sec23p-Sfb2p heterodimer of the COPII vesicle coat | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | NIS1 | YNL078W | Protein involved in axial bud site selection | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | TPM1 | YNL079C | Major isoform of tropomyosin | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | IRA2 | YOL081W | GTPase-activating protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SHR5 | YOL110W | Palmitoyltransferase subunit | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MDY2 | YOL111C | Protein involved in inserting tail-anchored proteins into ER membranes | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PIN2 | YOR104W | Exomer-dependent cargo protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | LSC1 | YOR142W | Alpha subunit of succinyl-CoA ligase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MDM32 | YOR147W | Mitochondrial inner membrane protein with similarity to Mdm31p | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SLP1 | YOR154W | Glycosylated integral ER membrane protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | WTM2 | YOR229W | Transcriptional modulator | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | VMA13 | YPR036W | Subunit H of the V1 peripheral membrane domain of V-ATPase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | YPR084W | YPR084W | Putative protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | BUB3 | YOR026W | Kinetochore checkpoint WD40 repeat protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | APE2 | YKL157W | Aminopeptidase yscII | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | ACA1 | YER045C | ATF/CREB family basic leucine zipper (bZIP) transcription factor | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | COQ5 | YML110C | 2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | BFR1 | YOR198C | Component of mRNP complexes associated with polyribosomes | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | DAL80 | YKR034W | Negative regulator of genes in multiple nitrogen degradation pathways | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | COX19 | YLL018C-A | Protein required for cytochrome c oxidase assembly | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | HNM1 | YGL077C | Plasma membrane transporter for choline, ethanolamine, and carnitine | physical | 1 | 1 | 1 | PCA | 
            
                | CUE4 | YML101C | Protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | DDR48 | YMR173W | DNA damage-responsive protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | GRE3 | YHR104W | Aldose reductase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | FUN14 | YAL008W | Integral mitochondrial outer membrane (MOM) protein | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | FTR1 | YER145C | High affinity iron permease | physical | 1 | 1 | 1 | PCA | 
            
                | DSF1 | YEL070W | Mannitol dehydrogenase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | FRT1 | YOR324C | Tail-anchored ER membrane protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | AIM19 | YIL087C | Protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | GPI11 | YDR302W | ER membrane protein involved in a late step of GPI anchor assembly | genetic | 1 | 1 | 1 | Negative Genetic |