| scholarly article | Q13442814 |
| P50 | author | David Botstein | Q1173787 |
| J. Michael Cherry | Q56955001 | ||
| Selina S Dwight | Q92225279 | ||
| P2093 | author name string | Ball C | |
| Jia Y | |||
| Weng S | |||
| Schroeder M | |||
| Adler C | |||
| Chervitz SA | |||
| Hester ET | |||
| Juvik G | |||
| Roe T | |||
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| P433 | issue | 1 | |
| P407 | language of work or name | English | Q1860 |
| P921 | main subject | database | Q8513 |
| P304 | page(s) | 73-9 | |
| P577 | publication date | 1998-01-01 | |
| P1433 | published in | Nucleic Acids Research | Q135122 |
| P1476 | title | SGD: Saccharomyces Genome Database | |
| P478 | volume | 26 |
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| Q47270306 | A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks |
| Q34190287 | A new essential protein discovery method based on the integration of protein-protein interaction and gene expression data |
| Q27939438 | A new gene involved in the transport-dependent metabolism of phosphatidylserine, PSTB2/PDR17, shares sequence similarity with the gene encoding the phosphatidylinositol/phosphatidylcholine transfer protein, SEC14. |
| Q55218502 | A new method for predicting essential proteins based on participation degree in protein complex and subgraph density. |
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| Q38514801 | A novel stepwise analysis procedure of genome-wide expression profiles identifies transcript signatures of thiamine genes as classifiers of mitochondrial mutants |
| Q28730814 | A nucleosomal surface defines an integration hotspot for the Saccharomyces cerevisiae Ty1 retrotransposon |
| Q33521302 | A phenotypic profile of the Candida albicans regulatory network |
| Q27937526 | A plasma-membrane E-MAP reveals links of the eisosome with sphingolipid metabolism and endosomal trafficking |
| Q30664635 | A quantitative imaging-based screen reveals the exocyst as a network hub connecting endocytosis and exocytosis |
| Q24555053 | A receptor tyrosine kinase from choanoflagellates: molecular insights into early animal evolution |
| Q33382540 | A relation based measure of semantic similarity for Gene Ontology annotations |
| Q37038066 | A temperature-responsive network links cell shape and virulence traits in a primary fungal pathogen |
| Q33957138 | A trans-activation domain in yeast heat shock transcription factor is essential for cell cycle progression during stress |
| Q35934515 | A two-layer integration framework for protein complex detection |
| Q74228622 | AGEID: a database of aging genes and interventions |
| Q36171298 | ATP-binding cassette transporters and sterol O-acyltransferases interact at membrane microdomains to modulate sterol uptake and esterification |
| Q33408115 | Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing |
| Q35195765 | Accurate, model-based tuning of synthetic gene expression using introns in S. cerevisiae |
| Q60243150 | Alternative Mechanisms of Transcriptional Activation by Rap1p |
| Q91940556 | An Evaluation of Machine Learning Approaches for the Prediction of Essential Genes in Eukaryotes Using Protein Sequence-Derived Features |
| Q36112067 | An ensemble framework for identifying essential proteins. |
| Q37417297 | An ensemble model of competitive multi-factor binding of the genome |
| Q33301341 | An improved, bias-reduced probabilistic functional gene network of baker's yeast, Saccharomyces cerevisiae |
| Q27932854 | An in silico approach combined with in vivo experiments enables the identification of a new protein whose overexpression can compensate for specific respiratory defects in Saccharomyces cerevisiae |
| Q36801428 | An integrative, translational approach to understanding rare and orphan genetically based diseases |
| Q92992870 | An iteration method for identifying yeast essential proteins from heterogeneous network |
| Q30814879 | An unsupervised approach to predict functional relations between genes based on expression data. |
| Q27932507 | Analysis of polyubiquitin conjugates reveals that the Rpn10 substrate receptor contributes to the turnover of multiple proteasome targets |
| Q28299231 | Analysis of the human protein interactome and comparison with yeast, worm and fly interaction datasets |
| Q30881250 | Annotation of genomics data using bidirectional hidden Markov models unveils variations in Pol II transcription cycle |
| Q27936978 | Applicability of tandem affinity purification MudPIT to pathway proteomics in yeast |
| Q34452516 | Applications of yeast in drug discovery. |
| Q33716309 | Assessing experimentally derived interactions in a small world |
| Q35003471 | Associating genes with gene ontology codes using a maximum entropy analysis of biomedical literature |
| Q33678884 | Asymmetric sequence divergence of duplicate genes |
| Q34649628 | AtDB, the Arabidopsis thaliana database, and graphical-web-display of progress by the Arabidopsis Genome Initiative. |
| Q30708150 | Balony: a software package for analysis of data generated by synthetic genetic array experiments |
| Q33512623 | BayesPI - a new model to study protein-DNA interactions: a case study of condition-specific protein binding parameters for Yeast transcription factors |
| Q42406596 | Bayesian correlated clustering to integrate multiple datasets |
| Q35985633 | Biocuration at the Saccharomyces genome database |
| Q37610681 | Biogenesis of tail-anchored proteins: the beginning for the end? |
| Q27937853 | Biogenesis of the mitochondrial TOM complex: Mim1 promotes insertion and assembly of signal-anchored receptors |
| Q33526237 | Blurring of high-resolution data shows that the effect of intrinsic nucleosome occupancy on transcription factor binding is mostly regional, not local |
| Q36465540 | Broad network-based predictability of Saccharomyces cerevisiae gene loss-of-function phenotypes |
| Q93107002 | CDAP: An Online Package for Evaluation of Complex Detection Methods |
| Q34629832 | COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA |
| Q37520495 | Calculating the statistical significance of physical clusters of co-regulated genes in the genome: the role of chromatin in domain-wide gene regulation. |
| Q85713916 | Calculation of nucleosomal DNA deformation energy: its implication for nucleosome positioning |
| Q34005147 | Categorizing biases in high-confidence high-throughput protein-protein interaction data sets |
| Q34745471 | Cdc42p-interacting protein Bem4p regulates the filamentous-growth mitogen-activated protein kinase pathway |
| Q33386002 | Cell cycle- and chaperone-mediated regulation of H3K56ac incorporation in yeast |
| Q91555099 | Challenges and opportunities for strain verification by whole-genome sequencing |
| Q34830313 | Challenges and rewards of interaction proteomics |
| Q24290660 | Characterization of 16 novel human genes showing high similarity to yeast sequences |
| Q86115940 | Characterization of TATA-containing genes and TATA-less genes in S. cerevisiae by network topologies and biological properties |
| Q37318155 | Characterization of binding sites of eukaryotic transcription factors |
| Q38387252 | Characterization of proteins in S. cerevisiae with subcellular localizations. |
| Q34012041 | Characterizing a collective and dynamic component of chromatin immunoprecipitation enrichment profiles in yeast |
| Q24309270 | Chromatin components as part of a putative transcriptional repressing complex |
| Q36291083 | Circulating microbial RNA and health |
| Q30333134 | Classification schemes for protein structure and function. |
| Q42852173 | Clustering of phosphorylation site recognition motifs can be exploited to predict the targets of cyclin-dependent kinase |
| Q37173160 | Co-evolutionary rates of functionally related yeast genes. |
| Q38654080 | Comparative Genomics and Evolutionary Modularity of Prokaryotes |
| Q91659496 | Comparative genome analysis of Phyllosticta citricarpa and Phyllosticta capitalensis, two fungi species that share the same host |
| Q28391508 | Comparative genome sequencing reveals chemotype-specific gene clusters in the toxigenic black mold Stachybotrys |
| Q53851802 | Comparative genotyping of the Saccharomyces cerevisiae laboratory strains S288C and CEN.PK113-7D using oligonucleotide microarrays. |
| Q44383864 | Comparison of targeted maximum likelihood and shrinkage estimators of parameters in gene networks |
| Q34554028 | Complete genome sequence and comparative genomics of the probiotic yeast Saccharomyces boulardii |
| Q43537165 | Complex coordination of multi-scale cellular responses to environmental stress |
| Q27936839 | Comprehensive structural and substrate specificity classification of the Saccharomyces cerevisiae methyltransferome |
| Q34652402 | Computational discovery of transcriptional regulatory modules in fungal ribosome biogenesis genes reveals novel sequence and function patterns |
| Q33619833 | Computational identification of cis-acting elements affecting post-transcriptional control of gene expression in Saccharomyces cerevisiae |
| Q39480814 | Computational phosphorylation site prediction in plants using random forests and organism-specific instance weights |
| Q30580889 | Construction and application of dynamic protein interaction network based on time course gene expression data |
| Q28474514 | Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae |
| Q33441756 | Core and periphery structures in protein interaction networks |
| Q38503825 | Cross-species Functionome analysis identifies proteins associated with DNA repair, translation and aerobic respiration as conserved modulators of UV-toxicity. |
| Q33787461 | Curated protein information in the Saccharomyces genome database |
| Q34361205 | DEOP: a database on osmoprotectants and associated pathways |
| Q28244173 | DFA7, a new method to distinguish between intron-containing and intronless genes |
| Q30773103 | Data analysis--the Achilles heel of proteomics |
| Q37471556 | Database resources in metabolomics: an overview |
| Q89601840 | De novo emergence of adaptive membrane proteins from thymine-rich genomic sequences |
| Q103825979 | Deep learning suggests that gene expression is encoded in all parts of a co-evolving interacting gene regulatory structure |
| Q91577994 | DeepEP: a deep learning framework for identifying essential proteins |
| Q48143131 | Design of a synthetic yeast genome. |
| Q28657363 | Detecting overlapping protein complexes based on a generative model with functional and topological properties |
| Q29301011 | Detection of gene orthology from gene co-expression and protein interaction networks |
| Q33236891 | Development of an unbiased statistical method for the analysis of unigenic evolution |
| Q27316108 | Different levels of catabolite repression optimize growth in stable and variable environments |
| Q44205396 | Digging deep for ancient relics: a survey of protein motifs in the intergenic sequences of four eukaryotic genomes |
| Q33419869 | Directing experimental biology: a case study in mitochondrial biogenesis |
| Q37196183 | Discovering structural cis-regulatory elements by modeling the behaviors of mRNAs |
| Q37657594 | Disruption of yeast forkhead-associated cell cycle transcription by oxidative stress |
| Q33383211 | Distinct modes of regulation by chromatin encoded through nucleosome positioning signals |
| Q27939876 | Distinguishing direct versus indirect transcription factor-DNA interactions |
| Q31148683 | Distinguishing plant and fungal sequences in ESTs from infected plant tissues |
| Q33693122 | Diverse and specific gene expression responses to stresses in cultured human cells |
| Q30914825 | Domain repertoires as a tool to derive protein recognition rules. |
| Q28476723 | Dominating biological networks |
| Q36708592 | Drug uptake, lipid rafts, and vesicle trafficking modulate resistance to an anticancer lysophosphatidylcholine analogue in yeast |
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| Q101051283 | Dynamic transcriptional response of Saccharomyces cerevisiae cells to copper |
| Q37341549 | Dynamics of the yeast transcriptome during wine fermentation reveals a novel fermentation stress response |
| Q46928057 | Effective identification of essential proteins based on priori knowledge, network topology and gene expressions |
| Q41346487 | Ensemble non-negative matrix factorization methods for clustering protein-protein interactions. |
| Q39611938 | Essential protein discovery based on a combination of modularity and conservatism |
| Q33917483 | Evidence of association between nucleosome occupancy and the evolution of transcription factor binding sites in yeast |
| Q41865264 | Evidence of highly regulated genes (in-Hubs) in gene networks of Saccharomyces cerevisiae |
| Q36257601 | Evolution of Robustness to Protein Mistranslation by Accelerated Protein Turnover |
| Q28743510 | Evolutionary plasticity determination by orthologous groups distribution |
| Q37208711 | Evolutionary rates and centrality in the yeast gene regulatory network |
| Q34569304 | Expanding yeast knowledge online |
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| Q34391317 | Exploring overlapping functional units with various structure in protein interaction networks |
| Q30988748 | Exploring relationships and mining data with the UCSC Gene Sorter |
| Q29616559 | Exploring the new world of the genome with DNA microarrays |
| Q36589002 | Extensive transcript diversity and novel upstream open reading frame regulation in yeast |
| Q101157747 | Extraction and Integration of Genetic Networks from Short-Profile Omic Data Sets |
| Q30493380 | FUNGIpath: a tool to assess fungal metabolic pathways predicted by orthology. |
| Q30862098 | Fault tolerance in protein interaction networks: stable bipartite subgraphs and redundant pathways |
| Q62495633 | Feature Selection via Swarm Intelligence for Determining Protein Essentiality |
| Q28286620 | Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation |
| Q33633583 | Fragile genomic sites are associated with origins of replication. |
| Q42394861 | From E-MAPs to module maps: dissecting quantitative genetic interactions using physical interactions |
| Q24794194 | FunSpec: a web-based cluster interpreter for yeast |
| Q33950505 | FuncBase: a resource for quantitative gene function annotation |
| Q28647453 | Function of a p24 Heterodimer in Morphogenesis and Protein Transport in Penicillium oxalicum |
| Q35641570 | Functional analysis of gene duplications in Saccharomyces cerevisiae |
| Q33525024 | Functional characterization of the Chlamydomonas reinhardtii ERG3 ortholog, a gene involved in the biosynthesis of ergosterol |
| Q34629093 | Functional knowledge transfer for high-accuracy prediction of under-studied biological processes |
| Q64117167 | Functional protein representations from biological networks enable diverse cross-species inference |
| Q27938824 | Functional studies of aldo-keto reductases in Saccharomyces cerevisiae |
| Q38365647 | Fungal genome sequencing: basic biology to biotechnology |
| Q22065314 | Further understanding human disease genes by comparing with housekeeping genes and other genes |
| Q64110343 | GO functional similarity clustering depends on similarity measure, clustering method, and annotation completeness |
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| Q33259997 | GOLEM: an interactive graph-based gene-ontology navigation and analysis tool |
| Q24791245 | GOToolBox: functional analysis of gene datasets based on Gene Ontology |
| Q35488768 | Gas-phase purification enables accurate, multiplexed proteome quantification with isobaric tagging |
| Q22010861 | Gene organization and sequence of the region containing the ribosomal protein genes RPL13A and RPS11 in the human genome and conserved features in the mouse genome |
| Q38427720 | GeneLynx mouse: integrated portal to the mouse genome |
| Q35038086 | GeneLynx: a gene-centric portal to the human genome |
| Q35630969 | GeneWeaver: a web-based system for integrative functional genomics. |
| Q94592117 | Genetic interactions derived from high-throughput phenotyping of 6589 yeast cell cycle mutants |
| Q51335809 | Genetically modified industrial yeast ready for application. |
| Q25255306 | Genolevures complete genomes provide data and tools for comparative genomics of hemiascomycetous yeasts |
| Q36958211 | Genome Sequence and Analysis of a Stress-Tolerant, Wild-Derived Strain of Saccharomyces cerevisiae Used in Biofuels Research |
| Q34082670 | Genome annotation: from sequence to biology |
| Q77735758 | Genome expression on the World Wide Web |
| Q28485189 | Genome, functional gene annotation, and nuclear transformation of the heterokont oleaginous alga Nannochloropsis oceanica CCMP1779 |
| Q30322856 | Genome-based structural biology. |
| Q59831887 | Genome-scale modeling enables metabolic engineering of Saccharomyces cerevisiae for succinic acid production |
| Q34718110 | Genome-scale modeling of the protein secretory machinery in yeast |
| Q42132720 | Genome-wide analysis of chromatin features identifies histone modification sensitive and insensitive yeast transcription factors |
| Q30830625 | Genome-wide analysis of nucleotide-level variation in commonly used Saccharomyces cerevisiae strains |
| Q33525699 | Genome-wide computational prediction of tandem gene arrays: application in yeasts |
| Q34425629 | Genome-wide metabolic (re-) annotation of Kluyveromyces lactis |
| Q33704744 | Genome-wide model for the normal eukaryotic DNA replication fork. |
| Q27935978 | Genome-wide responses to mitochondrial dysfunction |
| Q34569322 | Genome-wide screen for inositol auxotrophy in Saccharomyces cerevisiae implicates lipid metabolism in stress response signaling |
| Q24563506 | Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome |
| Q33241585 | Genomic analysis of insertion behavior and target specificity of mini-Tn7 and Tn3 transposons in Saccharomyces cerevisiae |
| Q42099613 | Gleaning evolutionary insights from the genome sequence of a probiotic yeast Saccharomyces boulardii. |
| Q27937597 | Global analysis of protein palmitoylation in yeast |
| Q34994555 | Global response of Saccharomyces cerevisiae to an alkylating agent |
| Q34932996 | Génolevures: comparative genomics and molecular evolution of hemiascomycetous yeasts |
| Q35586003 | HKC: an algorithm to predict protein complexes in protein-protein interaction networks |
| Q33851657 | HMMerThread: detecting remote, functional conserved domains in entire genomes by combining relaxed sequence-database searches with fold recognition |
| Q35875193 | Harvesting the genome's bounty: integrative genomics |
| Q28473663 | High-content, image-based screening for drug targets in yeast |
| Q33951384 | Histidine kinases and response regulator proteins in two-component signaling systems |
| Q42957892 | IFIM: a database of integrated fitness information for microbial genes |
| Q28587685 | Identification and characterization of a novel murine multigene family containing a PHD-finger-like motif |
| Q28762893 | Identification and characterization of insect-specific proteins by genome data analysis |
| Q64105063 | Identification of Essential Proteins Based on Improved HITS Algorithm |
| Q35678325 | Identification of Essential Proteins Based on a New Combination of Local Interaction Density and Protein Complexes |
| Q33393994 | Identification of functional modules based on transcriptional regulation structure |
| Q33758101 | Identification of protein complexes from co-immunoprecipitation data |
| Q33523289 | Identifying Stress Transcription Factors Using Gene Expression and TF-Gene Association Data |
| Q30666997 | Identifying binary protein-protein interactions from affinity purification mass spectrometry data |
| Q36444090 | Identifying complexes from protein interaction networks according to different types of neighborhood density |
| Q33737595 | Identifying dynamic protein complexes based on gene expression profiles and PPI networks |
| Q35093178 | Identifying essential proteins from active PPI networks constructed with dynamic gene expression |
| Q33371395 | Identifying gene regulatory modules of heat shock response in yeast |
| Q90106941 | Identifying protein complexes based on an edge weight algorithm and core-attachment structure |
| Q35102034 | Identifying protein complexes based on density and modularity in protein-protein interaction network |
| Q73931523 | Identifying tagged transposon insertion sites in yeast by direct genomic sequencing |
| Q33495181 | Impact of chromatin structures on DNA processing for genomic analyses |
| Q55381094 | Improved flower pollination algorithm for identifying essential proteins. |
| Q33909267 | Improved functional overview of protein complexes using inferred epistatic relationships. |
| Q35636834 | Improving 3D Genome Reconstructions Using Orthologous and Functional Constraints |
| Q38508471 | In silico analysis of transcription factor repertoire and prediction of stress responsive transcription factors in soybean |
| Q28749566 | Industrial fuel ethanol yeasts contain adaptive copy number changes in genes involved in vitamin B1 and B6 biosynthesis |
| Q42801039 | Inferring condition-specific transcription factor function from DNA binding and gene expression data. |
| Q28675309 | Inferring evolutionary histories of pathway regulation from transcriptional profiling data |
| Q33901758 | Information theory applied to the sparse gene ontology annotation network to predict novel gene function |
| Q33466747 | Integrated assessment of genomic correlates of protein evolutionary rate |
| Q33538321 | Integrated cellular network of transcription regulations and protein-protein interactions |
| Q27940381 | Integrated phosphoproteomics analysis of a signaling network governing nutrient response and peroxisome induction |
| Q33610808 | Integrating functional genomic information into the Saccharomyces genome database |
| Q36955745 | Integration of new alternative reference strain genome sequences into the Saccharomyces genome database. |
| Q37532887 | Integration of two ancestral chaperone systems into one: the evolution of eukaryotic molecular chaperones in light of eukaryogenesis |
| Q35975088 | Integrative random forest for gene regulatory network inference |
| Q34450500 | Interactome-wide prediction of protein-protein binding sites reveals effects of protein sequence variation in Arabidopsis thaliana. |
| Q64249750 | Investigating Common Pathogenic Mechanisms between and Different Strains of for Drug Design: Systems Biology Approach via Two-Sided NGS Data Identification |
| Q48635874 | Is 'forward' the same as 'plus'?…and other adventures in SNP allele nomenclature. |
| Q28757163 | Isolation and mapping of self-assembling protein domains encoded by the Saccharomyces cerevisiae genome using lambda repressor fusions |
| Q52681322 | It is time to apply biclustering: a comprehensive review of biclustering applications in biological and biomedical data. |
| Q34342703 | Iteration method for predicting essential proteins based on orthology and protein-protein interaction networks |
| Q31122666 | LICORN: learning cooperative regulation networks from gene expression data |
| Q35775786 | La-motif-dependent mRNA association with Slf1 promotes copper detoxification in yeast |
| Q27929503 | Large-scale analysis of the yeast genome by transposon tagging and gene disruption |
| Q57203515 | Learning Cellular Sorting Pathways Using Protein Interactions and Sequence Motifs |
| Q90386322 | Learning causal networks using inducible transcription factors and transcriptome-wide time series |
| Q39106688 | Learning cellular sorting pathways using protein interactions and sequence motifs |
| Q34734547 | Luv1p/Rki1p/Tcs3p/Vps54p, a yeast protein that localizes to the late Golgi and early endosome, is required for normal vacuolar morphology |
| Q33715772 | MCL-CAw: a refinement of MCL for detecting yeast complexes from weighted PPI networks by incorporating core-attachment structure. |
| Q24798940 | MILANO--custom annotation of microarray results using automatic literature searches |
| Q24557460 | MONKEY: identifying conserved transcription-factor binding sites in multiple alignments using a binding site-specific evolutionary model |
| Q46808702 | MPIC: a mitochondrial protein import components database for plant and non-plant species. |
| Q35914094 | MYBS: a comprehensive web server for mining transcription factor binding sites in yeast |
| Q33512284 | Maximization of negative correlations in time-course gene expression data for enhancing understanding of molecular pathways |
| Q31038373 | Meta-analysis discovery of tissue-specific DNA sequence motifs from mammalian gene expression data |
| Q31141718 | MetaReg: a platform for modeling, analysis and visualization of biological systems using large-scale experimental data |
| Q34010644 | Metabolic model integration of the bibliome, genome, metabolome and reactome of Aspergillus niger |
| Q27940165 | Metalloregulation of yeast membrane steroid receptor homologs. |
| Q31153289 | Microarray data visualization and analysis with the Longhorn Array Database (LAD). |
| Q21266591 | Microarray karyotyping of commercial wine yeast strains reveals shared, as well as unique, genomic signatures |
| Q64102332 | Minor Isozymes Tailor Yeast Metabolism to Carbon Availability |
| Q33554229 | Misincorporation by RNA polymerase is a major source of transcription pausing in vivo |
| Q33560449 | Missing value imputation for epistatic MAPs |
| Q37264001 | MitoP2: an integrative tool for the analysis of the mitochondrial proteome |
| Q38174328 | Mitochondria in ageing: there is metabolism beyond the ROS. |
| Q41433040 | Mitochondrial genome evolution in the Saccharomyces sensu stricto complex |
| Q30421148 | Modeling coding-sequence evolution within the context of residue solvent accessibility |
| Q29618517 | Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data |
| Q27939904 | Molecular characterization of Ypi1, a novel Saccharomyces cerevisiae type 1 protein phosphatase inhibitor. |
| Q33682035 | Molecular inroads into the regulation and metabolism of fatty acids, lessons from bacteria |
| Q30688142 | Molecular mechanisms of system responses to novel stimuli are predictable from public data |
| Q90236994 | Multi-kinase control of environmental stress responsive transcription |
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| Q36729883 | Multiple domains of repressor activator protein 1 contribute to facilitated binding of glycolysis regulatory protein 1. |
| Q35585075 | Nature and distribution of large sequence polymorphisms in Saccharomyces cerevisiae |
| Q30010152 | Network evolution: rewiring and signatures of conservation in signaling |
| Q28751567 | Network integration and graph analysis in mammalian molecular systems biology |
| Q33780650 | New genes with roles in the C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones |
| Q33777365 | New insights into protein-protein interaction data lead to increased estimates of the S. cerevisiae interactome size |
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| Q37079528 | Phylogenetic portrait of the Saccharomyces cerevisiae functional genome |
| Q35253010 | PlasmID: a centralized repository for plasmid clone information and distribution |
| Q36834546 | Practical and theoretical advances in predicting the function of a protein by its phylogenetic distribution |
| Q41830307 | Precursor charge state prediction for electron transfer dissociation tandem mass spectra |
| Q43169919 | Predicting disease genes using protein-protein interactions. |
| Q36120863 | Predicting essential proteins based on subcellular localization, orthology and PPI networks |
| Q37283280 | Predicting functional transcription factor binding through alignment-free and affinity-based analysis of orthologous promoter sequences |
| Q38522833 | Predicting gene function from patterns of annotation |
| Q42063703 | Predicting physical interactions between protein complexes |
| Q36689451 | Predicting protein functions from redundancies in large-scale protein interaction networks |
| Q41842333 | Predicting synthetic lethal genetic interactions in Saccharomyces cerevisiae using short polypeptide clusters |
| Q33528207 | Predicting the protein-protein interactions using primary structures with predicted protein surface |
| Q35051017 | Prediction of essential proteins based on gene expression programming |
| Q47270294 | Prediction of essential proteins based on subcellular localization and gene expression correlation |
| Q24813122 | Preferential attachment in the evolution of metabolic networks |
| Q28141235 | Principal components analysis to summarize microarray experiments: application to sporulation time series |
| Q35758300 | Prior knowledge driven Granger causality analysis on gene regulatory network discovery |
| Q40644747 | Probabilistic cross-species inference of orthologous genomic regions created by whole-genome duplication in yeast |
| Q39597801 | Probabilistic prediction of Saccharomyces cerevisiae mRNA 3'-processing sites |
| Q34121939 | Profiling of protein interaction networks of protein complexes using affinity purification and quantitative mass spectrometry |
| Q41660913 | Protein Complexes Prediction Method Based on Core-Attachment Structure and Functional Annotations |
| Q64100887 | Protein complex detection based on flower pollination mechanism in multi-relation reconstructed dynamic protein networks |
| Q37254749 | Protein complex detection based on partially shared multi-view clustering |
| Q34712428 | Protein complex detection via weighted ensemble clustering based on Bayesian nonnegative matrix factorization |
| Q35080691 | Protein complex identification by integrating protein-protein interaction evidence from multiple sources |
| Q42362578 | Protein complex prediction via dense subgraphs and false positive analysis |
| Q34189209 | Protein evolution in yeast transcription factor subnetworks |
| Q35610649 | Protein expression regulation under oxidative stress |
| Q30696445 | Protein interaction verification and functional annotation by integrated analysis of genome-scale data. |
| Q34572425 | Protein kinase A regulates constitutive expression of small heat-shock genes in an Msn2/4p-independent and Hsf1p-dependent manner in Saccharomyces cerevisiae |
| Q36972115 | Protein networks markedly improve prediction of subcellular localization in multiple eukaryotic species |
| Q33236253 | Protein protein interactions, evolutionary rate, abundance and age. |
| Q74403365 | Proteins with class alpha/beta fold have high-level participation in fusion events |
| Q33507934 | Proteomics data repositories |
| Q35074889 | Proteomics: the first decade and beyond |
| Q33267063 | Pseudolipasin A is a specific inhibitor for phospholipase A2 activity of Pseudomonas aeruginosa cytotoxin ExoU. |
| Q30594487 | Pulsatile dynamics in the yeast proteome |
| Q24601905 | Purification and characterization of the nuclear RNase P holoenzyme complex reveals extensive subunit overlap with RNase MRP |
| Q46850654 | Purifying selection against gene conversions between the polyamine transport (TPO) genes of Saccharomyces species |
| Q33497895 | Pushing structural information into the yeast interactome by high-throughput protein docking experiments |
| Q57977722 | Quantitative analysis of wine yeast gene expression profiles under winemaking conditions |
| Q33597953 | Quantitative proteomics by metabolic labeling of model organisms |
| Q36810542 | Quantitative residue-level structure-evolution relationships in the yeast membrane proteome |
| Q36417636 | RNA polymerase II collision interrupts convergent transcription |
| Q34846196 | Re-annotation of protein-coding genes in the genome of saccharomyces cerevisiae based on support vector machines. |
| Q57766197 | Recent advances in methods of lexical semantic relatedness – a survey |
| Q34020017 | Recent developments and future directions in computational genomics |
| Q37321832 | Reconstructing a network of stress-response regulators via dynamic system modeling of gene regulation |
| Q29616018 | Reconstruction of biochemical networks in microorganisms |
| Q34260049 | Regulatory Snapshots: integrative mining of regulatory modules from expression time series and regulatory networks |
| Q36140799 | Regulatory evolution in proteins by turnover and lineage-specific changes of cyclin-dependent kinase consensus sites |
| Q24796543 | Reinvestigation of the Saccharomyces cerevisiae genome annotation by comparison to the genome of a related fungus: Ashbya gossypii |
| Q42680546 | Reproducibility of oligonucleotide microarray transcriptome analyses. An interlaboratory comparison using chemostat cultures of Saccharomyces cerevisiae. |
| Q34741251 | Reverse engineering gene regulatory networks: coupling an optimization algorithm with a parameter identification technique |
| Q35086178 | Review of biological network data and its applications |
| Q43071903 | Role of the cell wall integrity and filamentous growth mitogen-activated protein kinase pathways in cell wall remodeling during filamentous growth |
| Q24657647 | Rpp2, an essential protein subunit of nuclear RNase P, is required for processing of precursor tRNAs and 35S precursor rRNA in Saccharomyces cerevisiae |
| Q34662184 | SET-domain proteins of the Su(var)3-9, E(z) and trithorax families |
| Q27939597 | SET1, a yeast member of the trithorax family, functions in transcriptional silencing and diverse cellular processes |
| Q30655358 | SPINE: an integrated tracking database and data mining approach for identifying feasible targets in high-throughput structural proteomics |
| Q24548440 | Saccharomyces Genome Database (SGD) provides secondary gene annotation using the Gene Ontology (GO) |
| Q30621056 | Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data |
| Q37087145 | Saccharomyces cerevisiae phenotypes can be predicted by using constraint-based analysis of a genome-scale reconstructed metabolic network |
| Q58067700 | Scriptable Access to theCaenorhabditis elegansGenome Sequence and Other ACEDB Databases |
| Q31942597 | Scriptable access to the Caenorhabditis elegans genome sequence and other ACEDB databases |
| Q27302027 | Selection for reduced translation costs at the intronic 5' end in fungi |
| Q38415033 | Similarity-based search of model organism, disease and drug effect phenotypes |
| Q28476223 | Simultaneous genome-wide inference of physical, genetic, regulatory, and functional pathway components |
| Q91328358 | Single-cell transcriptome sequencing of rumen ciliates provides insight into their molecular adaptations to the anaerobic and carbohydrate-rich rumen microenvironment |
| Q34173966 | Soybean Knowledge Base (SoyKB): a web resource for soybean translational genomics |
| Q42048026 | Specific transcriptional responses induced by 8-methoxypsoralen and UVA in yeast |
| Q34015987 | Statistical methods for identifying yeast cell cycle transcription factors |
| Q37088590 | Statistical significance of combinatorial regulations |
| Q34156146 | Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species |
| Q33959836 | Studying genomes through the aeons: protein families, pseudogenes and proteome evolution |
| Q34410987 | Subtelomeric factors antagonize telomere anchoring and Tel1-independent telomere length regulation |
| Q33463258 | Systematic identification of balanced transposition polymorphisms in Saccharomyces cerevisiae |
| Q51711914 | Systematic identification of the genes affecting glycogen storage in the yeast Saccharomyces cerevisiae: implication of the vacuole as a determinant of glycogen level. |
| Q33390479 | Systematic identification of yeast cell cycle transcription factors using multiple data sources |
| Q37679194 | Systems biology as an integrated platform for bioinformatics, systems synthetic biology, and systems metabolic engineering |
| Q30165409 | Target-assisted iterative screening reveals novel interactors for PSD95, Nedd4, Src, Abl and Crk proteins |
| Q34530543 | Temporal dynamics of protein complexes in PPI networks: a case study using yeast cell cycle dynamics |
| Q90701002 | The CCR4-NOT Complex Maintains Stability and Transcription of rRNA Genes by Repressing Antisense Transcripts |
| Q44195411 | The Core Diseasome |
| Q34907179 | The DNA-encoded nucleosome organization of a eukaryotic genome |
| Q30400233 | The Impact of Native State Switching on Protein Sequence Evolution. |
| Q39726513 | The PRESAGE database for structural genomics |
| Q42019692 | The Saccharomyces cerevisiae 14-3-3 protein Bmh2 is required for regulation of the phosphorylation status of Fin1, a novel intermediate filament protein |
| Q24538169 | The YEASTRACT database: a tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae |
| Q34913126 | The Yeast Nucleosome Atlas (YNA) database: an integrative gene mining platform for studying chromatin structure and its regulation in yeast |
| Q33575093 | The Zymomonas mobilis regulator hfq contributes to tolerance against multiple lignocellulosic pretreatment inhibitors |
| Q38378393 | The anatomy of phenotype ontologies: principles, properties and applications. |
| Q35222434 | The computational analysis of scientific literature to define and recognize gene expression clusters |
| Q33649154 | The effect of prior assumptions over the weights in BayesPI with application to study protein-DNA interactions from ChIP-based high-throughput data |
| Q33885848 | The effects of network neighbours on protein evolution |
| Q41953749 | The evolutionary rate variation among genes of HOG-signaling pathway in yeast genomes |
| Q48149977 | The extent of ribosome queuing in budding yeast. |
| Q30986238 | The function of communities in protein interaction networks at multiple scales |
| Q21972841 | The genome sequence of Schizosaccharomyces pombe |
| Q42096508 | The histone deacetylase Rpd3p is required for transient changes in genomic expression in response to stress |
| Q24672361 | The human genome browser at UCSC |
| Q33387028 | The integrated analysis of metabolic and protein interaction networks reveals novel molecular organizing principles |
| Q47849627 | The mitochondrial proteome database: MitoP2. |
| Q21203763 | The multiple personalities of Watson and Crick strands |
| Q35130112 | The organellar genome and metabolic potential of the hydrogen-producing mitochondrion of Nyctotherus ovalis. |
| Q30490889 | The post-genomic era of biological network alignment |
| Q24812477 | The rarity of gene shuffling in conserved genes |
| Q27635468 | The role of glutamine 114 in old yellow enzyme |
| Q30039084 | The role of palmitoylation for protein recruitment to the inner membrane complex of the malaria parasite |
| Q27939105 | The signaling mucins Msb2 and Hkr1 differentially regulate the filamentation mitogen-activated protein kinase pathway and contribute to a multimodal response. |
| Q41888858 | The tRNA modification complex elongator regulates the Cdc42-dependent mitogen-activated protein kinase pathway that controls filamentous growth in yeast |
| Q30378455 | The value of protein structure classification information-Surveying the scientific literature. |
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| Q41807312 | Towards accurate imputation of quantitative genetic interactions |
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| Q36812872 | Towards zoomable multidimensional maps of the cell |
| Q40636570 | Tradeoff between enzyme and metabolite efficiency maintains metabolic homeostasis upon perturbations in enzyme capacity. |
| Q33674530 | Training-free atomistic prediction of nucleosome occupancy |
| Q36175240 | Transcriptomic responses of a simplified soil microcosm to a plant pathogen and its biocontrol agent reveal a complex reaction to harsh habitat |
| Q36454295 | TransfactomeDB: a resource for exploring the nucleotide sequence specificity and condition-specific regulatory activity of trans-acting factors |
| Q36391935 | Translational infidelity-induced protein stress results from a deficiency in Trm9-catalyzed tRNA modifications |
| Q42134963 | Trm9-catalyzed tRNA modifications link translation to the DNA damage response |
| Q29615889 | Turning a hobby into a job: how duplicated genes find new functions |
| Q90721478 | Uncovering Natural Longevity Alleles from Intercrossed Pools of Aging Fission Yeast Cells |
| Q40140345 | Uncovering biological network function via graphlet degree signatures. |
| Q31152571 | Uncovering signal transduction networks from high-throughput data by integer linear programming |
| Q33903468 | Understanding and predicting synthetic lethal genetic interactions in Saccharomyces cerevisiae using domain genetic interactions |
| Q33781755 | Understanding protein evolutionary rate by integrating gene co-expression with protein interactions |
| Q33791681 | Understanding the growth phenotype of the yeast gcr1 mutant in terms of global genomic expression patterns |
| Q41472448 | Unraveling condition-dependent networks of transcription factors that control metabolic pathway activity in yeast |
| Q34778439 | Unsupervised clustering of subcellular protein expression patterns in high-throughput microscopy images reveals protein complexes and functional relationships between proteins |
| Q36265292 | Unsupervised detection of regulatory gene expression information in different genomic regions enables gene expression ranking |
| Q42029545 | Up-to-date catalogues of yeast protein complexes |
| Q33398158 | Upstream sequence elements direct post-transcriptional regulation of gene expression under stress conditions in yeast. |
| Q33238498 | Use of physiological constraints to identify quantitative design principles for gene expression in yeast adaptation to heat shock |
| Q28655514 | Using genome-wide expression profiling to define gene networks relevant to the study of complex traits: from RNA integrity to network topology |
| Q35806045 | Using text analysis to identify functionally coherent gene groups |
| Q36741638 | Utilizing yeast chemogenomic profiles for the prediction of pharmacogenomic associations in humans |
| Q33377460 | Variations in stress sensitivity and genomic expression in diverse S. cerevisiae isolates |
| Q39577960 | Very low rate of gene conversion in the yeast genome |
| Q37345430 | VisANT: an integrative framework for networks in systems biology |
| Q33784572 | Widespread compensatory evolution conserves DNA-encoded nucleosome organization in yeast |
| Q27931965 | Yeast Ste23p shares functional similarities with mammalian insulin-degrading enzymes. |
| Q34304001 | Yeast glucose pathways converge on the transcriptional regulation of trehalose biosynthesis. |
| Q42129783 | Yeast systems biology: our best shot at modeling a cell |
| Q27933667 | Yeast transcription termination factor Rtt103 functions in DNA damage response |
| Q39524563 | euGenes: a eukaryote genome information system |
| Q91870231 | modEnrichr: a suite of gene set enrichment analysis tools for model organisms |
| Q35914245 | oPOSSUM: integrated tools for analysis of regulatory motif over-representation |
| Q38398025 | simDEF: definition-based semantic similarity measure of gene ontology terms for functional similarity analysis of genes |
| Q30655362 | yMGV: a database for visualization and data mining of published genome-wide yeast expression data. |
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