Audrey P. Gasch, Ph.D. - Publications

2000 Stanford University, Palo Alto, CA 
gene expression

48 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Guillen-Ahlers H, Rao PK, Levenstein ME, Kennedy-Darling J, Perumalla DS, Jadhav AY, Glenn JP, Ludwig-Kubinski A, Drigalenko E, Montoya MJ, Göring HH, Anderson CD, Scalf M, Gildersleeve HI, Cole R, ... ... Gasch AP, et al. HyCCAPP as a tool to characterize promoter DNA-protein interactions in Saccharomyces cerevisiae. Genomics. PMID 27184763 DOI: 10.1016/j.ygeno.2016.05.002  0.84
2016 McIlwain SJ, Peris D, Sardi M, Moskvin OV, Zhan F, Myers KS, Riley NM, Buzzell A, Parreiras LS, Ong IM, Landick R, Coon JJ, Gasch AP, Sato TK, Hittinger CT. Genome Sequence and Analysis of a Stress-Tolerant, Wild-Derived Strain of Saccharomyces cerevisiae Used in Biofuels Research. G3 (Bethesda, Md.). 6: 1757-66. PMID 27172212 DOI: 10.1534/g3.116.029389  0.84
2016 Gasch AP, Hose J, Newton MA, Sardi M, Yong M, Wang Z. Further support for aneuploidy tolerance in wild yeast and effects of dosage compensation on gene copy-number evolution. Elife. 5. PMID 26949252 DOI: 10.7554/eLife.14409  0.84
2016 Gasch AP, Payseur BA, Pool JE. The Power of Natural Variation for Model Organism Biology. Trends in Genetics : Tig. PMID 26777596 DOI: 10.1016/j.tig.2015.12.003  0.84
2015 Clowers KJ, Will JL, Gasch AP. A unique ecological niche fosters hybridization of oak-tree and vineyard isolates of Saccharomyces cerevisiae. Molecular Ecology. PMID 26518477 DOI: 10.1111/mec.13439  0.84
2015 Ho YH, Gasch AP. Exploiting the yeast stress-activated signaling network to inform on stress biology and disease signaling. Current Genetics. 61: 503-11. PMID 25957506 DOI: 10.1007/s00294-015-0491-0  0.84
2015 Hose J, Yong CM, Sardi M, Wang Z, Newton MA, Gasch AP. Dosage compensation can buffer copy-number variation in wild yeast. Elife. 4. PMID 25955966 DOI: 10.7554/eLife.05462  0.84
2015 Clowers KJ, Heilberger J, Piotrowski JS, Will JL, Gasch AP. Ecological and Genetic Barriers Differentiate Natural Populations of Saccharomyces cerevisiae. Molecular Biology and Evolution. 32: 2317-27. PMID 25953281 DOI: 10.1093/molbev/msv112  0.84
2015 Gasch AP, Yvert G. MEETING REPORT on Experimental Approaches to Evolution and Ecology Using Yeast & Other Model Systems. G3 (Bethesda, Md.). PMID 25908568 DOI: 10.1534/g3.115.018614  0.84
2014 Chasman D, Ho YH, Berry DB, Nemec CM, MacGilvray ME, Hose J, Merrill AE, Lee MV, Will JL, Coon JJ, Ansari AZ, Craven M, Gasch AP. Pathway connectivity and signaling coordination in the yeast stress-activated signaling network. Molecular Systems Biology. 10: 759. PMID 25411400 DOI: 10.15252/msb.20145120  0.84
2014 Wohlbach DJ, Rovinskiy N, Lewis JA, Sardi M, Schackwitz WS, Martin JA, Deshpande S, Daum CG, Lipzen A, Sato TK, Gasch AP. Comparative genomics of Saccharomyces cerevisiae natural isolates for bioenergy production. Genome Biology and Evolution. 6: 2557-66. PMID 25364804 DOI: 10.1093/gbe/evu199  0.84
2014 Parreiras LS, Breuer RJ, Avanasi Narasimhan R, Higbee AJ, La Reau A, Tremaine M, Qin L, Willis LB, Bice BD, Bonfert BL, Pinhancos RC, Balloon AJ, Uppugundla N, Liu T, Li C, ... ... Gasch AP, et al. Engineering and two-stage evolution of a lignocellulosic hydrolysate-tolerant Saccharomyces cerevisiae strain for anaerobic fermentation of xylose from AFEX pretreated corn stover. Plos One. 9: e107499. PMID 25222864 DOI: 10.1371/journal.pone.0107499  0.84
2014 Sorokin EP, Gasch AP, Kimble J. Competence for chemical reprogramming of sexual fate correlates with an intersexual molecular signature in Caenorhabditis elegans. Genetics. 198: 561-75. PMID 25146970 DOI: 10.1534/genetics.114.169409  0.84
2014 Kennedy-Darling J, Guillen-Ahlers H, Shortreed MR, Scalf M, Frey BL, Kendziorski C, Olivier M, Gasch AP, Smith LM. Discovery of Chromatin-Associated Proteins via Sequence-Specific Capture and Mass Spectrometric Protein Identification in Saccharomyces cerevisiae. Journal of Proteome Research. PMID 24999558 DOI: 10.1021/pr5004938  0.84
2014 Lewis JA, Broman AT, Will J, Gasch AP. Genetic architecture of ethanol-responsive transcriptome variation in Saccharomyces cerevisiae strains. Genetics. 198: 369-82. PMID 24970865 DOI: 10.1534/genetics.114.167429  0.84
2014 Merrill AE, Hebert AS, MacGilvray ME, Rose CM, Bailey DJ, Bradley JC, Wood WW, El Masri M, Westphall MS, Gasch AP, Coon JJ. NeuCode labels for relative protein quantification. Molecular & Cellular Proteomics : McP. 13: 2503-12. PMID 24938287 DOI: 10.1074/mcp.M114.040287  0.84
2014 Sato TK, Liu T, Parreiras LS, Williams DL, Wohlbach DJ, Bice BD, Ong IM, Breuer RJ, Qin L, Busalacchi D, Deshpande S, Daum C, Gasch AP, Hodge DB. Harnessing genetic diversity in Saccharomyces cerevisiae for fermentation of xylose in hydrolysates of alkaline hydrogen peroxide-pretreated biomass. Applied and Environmental Microbiology. 80: 540-54. PMID 24212571 DOI: 10.1128/AEM.01885-13  0.84
2013 Roy S, Lagree S, Hou Z, Thomson JA, Stewart R, Gasch AP. Integrated module and gene-specific regulatory inference implicates upstream signaling networks. Plos Computational Biology. 9: e1003252. PMID 24146602 DOI: 10.1371/journal.pcbi.1003252  0.84
2012 Lewis JA, Gasch AP. Natural variation in the yeast glucose-signaling network reveals a new role for the Mig3p transcription factor. G3 (Bethesda, Md.). 2: 1607-12. PMID 23275883 DOI: 10.1534/g3.112.004127  0.84
2012 Guan Q, Haroon S, Bravo DG, Will JL, Gasch AP. Cellular memory of acquired stress resistance in Saccharomyces cerevisiae. Genetics. 192: 495-505. PMID 22851651 DOI: 10.1534/genetics.112.143016  0.84
2012 Huebert DJ, Gasch AP. Defining flexible vs. inherent promoter architectures: the importance of dynamics and environmental considerations. Nucleus (Austin, Tex.). 3: 399-403. PMID 22751015 DOI: 10.4161/nucl.21172  0.84
2012 Huebert DJ, Kuan PF, Keleş S, Gasch AP. Dynamic changes in nucleosome occupancy are not predictive of gene expression dynamics but are linked to transcription and chromatin regulators. Molecular and Cellular Biology. 32: 1645-53. PMID 22354995 DOI: 10.1128/MCB.06170-11  0.84
2012 Yin WB, Amaike S, Wohlbach DJ, Gasch AP, Chiang YM, Wang CC, Bok JW, Rohlfs M, Keller NP. An Aspergillus nidulans bZIP response pathway hardwired for defensive secondary metabolism operates through aflR. Molecular Microbiology. 83: 1024-34. PMID 22283524 DOI: 10.1111/j.1365-2958.2012.07986.x  0.84
2011 Berry DB, Guan Q, Hose J, Haroon S, Gebbia M, Heisler LE, Nislow C, Giaever G, Gasch AP. Multiple means to the same end: the genetic basis of acquired stress resistance in yeast. Plos Genetics. 7: e1002353. PMID 22102822 DOI: 10.1371/journal.pgen.1002353  0.84
2011 Lee MV, Topper SE, Hubler SL, Hose J, Wenger CD, Coon JJ, Gasch AP. A dynamic model of proteome changes reveals new roles for transcript alteration in yeast. Molecular Systems Biology. 7: 514. PMID 21772262 DOI: 10.1038/msb.2011.48  0.84
2010 Lewis JA, Elkon IM, McGee MA, Higbee AJ, Gasch AP. Exploiting natural variation in Saccharomyces cerevisiae to identify genes for increased ethanol resistance. Genetics. 186: 1197-205. PMID 20855568 DOI: 10.1534/genetics.110.121871  0.84
2010 Will JL, Kim HS, Clarke J, Painter JC, Fay JC, Gasch AP. Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisiae populations. Plos Genetics. 6: e1000893. PMID 20369021 DOI: 10.1371/journal.pgen.1000893  0.84
2010 Eng KH, Kvitek DJ, Keles S, Gasch AP. Transient genotype-by-environment interactions following environmental shock provide a source of expression variation for essential genes. Genetics. 184: 587-93. PMID 19966067 DOI: 10.1534/genetics.109.107268  0.84
2009 Wohlbach DJ, Thompson DA, Gasch AP, Regev A. From elements to modules: regulatory evolution in Ascomycota fungi. Current Opinion in Genetics & Development. 19: 571-8. PMID 19879128 DOI: 10.1016/j.gde.2009.09.007  0.84
2009 Kuan PF, Huebert D, Gasch A, Keles S. A non-homogeneous hidden-state model on first order differences for automatic detection of nucleosome positions. Statistical Applications in Genetics and Molecular Biology. 8: Article29. PMID 19572828 DOI: 10.2202/1544-6115.1454  0.84
2009 Alejandro-Osorio AL, Huebert DJ, Porcaro DT, Sonntag ME, Nillasithanukroh S, Will JL, Gasch AP. The histone deacetylase Rpd3p is required for transient changes in genomic expression in response to stress. Genome Biology. 10: R57. PMID 19470158 DOI: 10.1186/gb-2009-10-5-r57  0.84
2008 Kvitek DJ, Will JL, Gasch AP. Variations in stress sensitivity and genomic expression in diverse S. cerevisiae isolates. Plos Genetics. 4: e1000223. PMID 18927628 DOI: 10.1371/journal.pgen.1000223  0.84
2008 Berry DB, Gasch AP. Stress-activated genomic expression changes serve a preparative role for impending stress in yeast. Molecular Biology of the Cell. 19: 4580-7. PMID 18753408 DOI: 10.1091/mbc.E07-07-0680  0.84
2007 Gasch AP. Comparative genomics of the environmental stress response in ascomycete fungi. Yeast (Chichester, England). 24: 961-76. PMID 17605132 DOI: 10.1002/yea.1512  0.84
2006 Chiang DY, Nix DA, Shultzaberger RK, Gasch AP, Eisen MB. Flexible promoter architecture requirements for coactivator recruitment. Bmc Molecular Biology. 7: 16. PMID 16646957 DOI: 10.1186/1471-2199-7-16  0.84
2004 Gasch AP, Moses AM, Chiang DY, Fraser HB, Berardini M, Eisen MB. Conservation and evolution of cis-regulatory systems in ascomycete fungi. Plos Biology. 2: e398. PMID 15534694 DOI: 10.1371/journal.pbio.0020398  0.84
2004 Koc A, Gasch AP, Rutherford JC, Kim HY, Gladyshev VN. Methionine sulfoxide reductase regulation of yeast lifespan reveals reactive oxygen species-dependent and -independent components of aging. Proceedings of the National Academy of Sciences of the United States of America. 101: 7999-8004. PMID 15141092 DOI: 10.1073/pnas.0307929101  0.84
2002 Gasch AP, Eisen MB. Exploring the conditional coregulation of yeast gene expression through fuzzy k-means clustering. Genome Biology. 3: RESEARCH0059. PMID 12429058  0.84
2002 Gasch AP, Werner-Washburne M. The genomics of yeast responses to environmental stress and starvation. Functional & Integrative Genomics. 2: 181-92. PMID 12192591 DOI: 10.1007/s10142-002-0058-2  0.84
2002 Gasch AP. Yeast genomic expression studies using DNA microarrays. Methods in Enzymology. 350: 393-414. PMID 12073326 DOI: 10.1016/S0076-6879(02)50976-9  0.84
2002 Yoshimoto H, Saltsman K, Gasch AP, Li HX, Ogawa N, Botstein D, Brown PO, Cyert MS. Genome-wide analysis of gene expression regulated by the calcineurin/Crz1p signaling pathway in Saccharomyces cerevisiae. The Journal of Biological Chemistry. 277: 31079-88. PMID 12058033 DOI: 10.1074/jbc.M202718200  0.84
2001 Gasch AP, Huang M, Metzner S, Botstein D, Elledge SJ, Brown PO. Genomic expression responses to DNA-damaging agents and the regulatory role of the yeast ATR homolog Mec1p. Molecular Biology of the Cell. 12: 2987-3003. PMID 11598186  0.84
2001 Segal E, Taskar B, Gasch A, Friedman N, Koller D. Rich probabilistic models for gene expression. Bioinformatics (Oxford, England). 17: S243-52. PMID 11473015  0.84
2001 Carmel-Harel O, Stearman R, Gasch AP, Botstein D, Brown PO, Storz G. Role of thioredoxin reductase in the Yap1p-dependent response to oxidative stress in Saccharomyces cerevisiae. Molecular Microbiology. 39: 595-605. PMID 11169101 DOI: 10.1046/j.1365-2958.2001.02255.x  0.84
2000 Lee SE, Pellicioli A, Demeter J, Vaze MP, Gasch AP, Malkova A, Brown PO, Botstein D, Stearns T, Foiani M, Haber JE. Arrest, adaptation, and recovery following a chromosome double-strand break in Saccharomyces cerevisiae. Cold Spring Harbor Symposia On Quantitative Biology. 65: 303-14. PMID 12760044  0.84
2000 Gasch AP, Spellman PT, Kao CM, Carmel-Harel O, Eisen MB, Storz G, Botstein D, Brown PO. Genomic expression programs in the response of yeast cells to environmental changes. Molecular Biology of the Cell. 11: 4241-57. PMID 11102521  0.84
2000 Lyons TJ, Gasch AP, Gaither LA, Botstein D, Brown PO, Eide DJ. Genome-wide characterization of the Zap1p zinc-responsive regulon in yeast. Proceedings of the National Academy of Sciences of the United States of America. 97: 7957-62. PMID 10884426 DOI: 10.1073/pnas.97.14.7957  0.84
1994 Weinreich MD, Gasch A, Reznikoff WS. Evidence that the cis preference of the Tn5 transposase is caused by nonproductive multimerization. Genes & Development. 8: 2363-74. PMID 7958902  0.84
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