Rachel Brem, PhD - Publications

Affiliations: 
University of California, Berkeley, Berkeley, CA 

36 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 Roop JI, Chang KC, Brem RB. Polygenic evolution of a sugar specialization trade-off in yeast. Nature. PMID 26863195 DOI: 10.1038/nature16938  1
2015 McCormick MA, Delaney JR, Tsuchiya M, Tsuchiyama S, Shemorry A, Sim S, Chou AC, Ahmed U, Carr D, Murakami CJ, Schleit J, Sutphin GL, Wasko BM, Bennett CF, Wang AM, ... ... Brem RB, et al. A Comprehensive Analysis of Replicative Lifespan in 4,698 Single-Gene Deletion Strains Uncovers Conserved Mechanisms of Aging. Cell Metabolism. PMID 26456335 DOI: 10.1016/j.cmet.2015.09.008  1
2015 Morita T, McClain SP, Batia LM, Pellegrino M, Wilson SR, Kienzler MA, Lyman K, Olsen AS, Wong JF, Stucky CL, Brem RB, Bautista DM. HTR7 Mediates Serotonergic Acute and Chronic Itch. Neuron. PMID 26074006 DOI: 10.1016/j.neuron.2015.05.044  1
2014 Kellner R, Bhattacharyya A, Poppe S, Hsu TY, Brem RB, Stukenbrock EH. Expression profiling of the wheat pathogen Zymoseptoria tritici reveals genomic patterns of transcription and host-specific regulatory programs. Genome Biology and Evolution. 6: 1353-65. PMID 24920004 DOI: 10.1093/gbe/evu101  1
2014 Wong VL, Ellison CE, Eisen MB, Pachter L, Brem RB. Structural variation among wild and industrial strains of Penicillium chrysogenum. Plos One. 9: e96784. PMID 24824901 DOI: 10.1371/journal.pone.0096784  1
2014 Ellison CE, Kowbel D, Glass NL, Taylor JW, Brem RB. Discovering functions of unannotated genes from a transcriptome survey of wild fungal isolates. Mbio. 5: e01046-13. PMID 24692637 DOI: 10.1128/mBio.01046-13  1
2014 Brem RB. Genomic data analyses unveil cases of polygenic evolution: Powerful analytic tools are beginning to establish how changes involving suites of genes lead to new traits in evolving microbes Microbe. 9: 18-22.  1
2013 Lee HN, Mostovoy Y, Hsu TY, Chang AH, Brem RB. Divergence of iron metabolism in wild Malaysian yeast. G3 (Bethesda, Md.). 3: 2187-94. PMID 24142925 DOI: 10.1534/g3.113.008011  1
2013 Schraiber JG, Mostovoy Y, Hsu TY, Brem RB. Inferring evolutionary histories of pathway regulation from transcriptional profiling data. Plos Computational Biology. 9: e1003255. PMID 24130471 DOI: 10.1371/journal.pcbi.1003255  1
2013 Palma-Guerrero J, Hall CR, Kowbel D, Welch J, Taylor JW, Brem RB, Glass NL. Genome wide association identifies novel loci involved in fungal communication. Plos Genetics. 9: e1003669. PMID 23935534 DOI: 10.1371/journal.pgen.1003669  1
2013 Roop JI, Brem RB. Rare variants in hypermutable genes underlie common morphology and growth traits in wild Saccharomyces paradoxus. Genetics. 195: 513-25. PMID 23934881 DOI: 10.1534/genetics.113.155341  1
2013 Gerhold KA, Pellegrino M, Tsunozaki M, Morita T, Leitch DB, Tsuruda PR, Brem RB, Catania KC, Bautista DM. The star-nosed mole reveals clues to the molecular basis of mammalian touch. Plos One. 8: e55001. PMID 23383028 DOI: 10.1371/journal.pone.0055001  1
2012 Jenkins PA, Song YS, Brem RB. Genealogy-based methods for inference of historical recombination and gene flow and their application in Saccharomyces cerevisiae. Plos One. 7: e46947. PMID 23226196 DOI: 10.1371/journal.pone.0046947  1
2012 Yoon OK, Hsu TY, Im JH, Brem RB. Genetics and regulatory impact of alternative polyadenylation in human B-lymphoblastoid cells. Plos Genetics. 8: e1002882. PMID 22916029 DOI: 10.1371/journal.pgen.1002882  1
2012 Zhu J, Sova P, Xu Q, Dombek KM, Xu EY, Vu H, Tu Z, Brem RB, Bumgarner RE, Schadt EE. Stitching together multiple data dimensions reveals interacting metabolomic and transcriptomic networks that modulate cell regulation. Plos Biology. 10: e1001301. PMID 22509135 DOI: 10.1371/journal.pbio.1001301  1
2012 Denby CM, Im JH, Yu RC, Pesce CG, Brem RB. Negative feedback confers mutational robustness in yeast transcription factor regulation. Proceedings of the National Academy of Sciences of the United States of America. 109: 3874-8. PMID 22355134 DOI: 10.1073/pnas.1116360109  1
2012 Martin HC, Roop JI, Schraiber JG, Hsu TY, Brem RB. Evolution of a membrane protein regulon in Saccharomyces. Molecular Biology and Evolution. 29: 1747-56. PMID 22319167 DOI: 10.1093/molbev/mss017  1
2011 Lee HN, Magwene PM, Brem RB. Natural variation in CDC28 underlies morphological phenotypes in an environmental yeast isolate. Genetics. 188: 723-30. PMID 21527779 DOI: 10.1534/genetics.111.128819  1
2011 Ellison CE, Hall C, Kowbel D, Welch J, Brem RB, Glass NL, Taylor JW. Population genomics and local adaptation in wild isolates of a model microbial eukaryote. Proceedings of the National Academy of Sciences of the United States of America. 108: 2831-6. PMID 21282627 DOI: 10.1073/pnas.1014971108  1
2010 Levin TC, Glazer AM, Pachter L, Brem RB, Eisen MB. Exploring the genetic basis of variation in gene predictions with a synthetic association study. Plos One. 5: e11645. PMID 20686598 DOI: 10.1371/journal.pone.0011645  1
2010 Yoon OK, Brem RB. Noncanonical transcript forms in yeast and their regulation during environmental stress. Rna (New York, N.Y.). 16: 1256-67. PMID 20421314 DOI: 10.1261/rna.2038810  1
2010 Bullard JH, Mostovoy Y, Dudoit S, Brem RB. Polygenic and directional regulatory evolution across pathways in Saccharomyces. Proceedings of the National Academy of Sciences of the United States of America. 107: 5058-63. PMID 20194736 DOI: 10.1073/pnas.0912959107  1
2009 Dimitrov LN, Brem RB, Kruglyak L, Gottschling DE. Polymorphisms in multiple genes contribute to the spontaneous mitochondrial genome instability of Saccharomyces cerevisiae S288C strains. Genetics. 183: 365-83. PMID 19581448 DOI: 10.1534/genetics.109.104497  1
2008 Zhu J, Zhang B, Smith EN, Drees B, Brem RB, Kruglyak L, Bumgarner RE, Schadt EE. Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks. Nature Genetics. 40: 854-61. PMID 18552845 DOI: 10.1038/ng.167  1
2006 Ronald J, Tang H, Brem RB. Genomewide evolutionary rates in laboratory and wild yeast. Genetics. 174: 541-4. PMID 16816417 DOI: 10.1534/genetics.106.060863  1
2005 Ronald J, Brem RB, Whittle J, Kruglyak L. Local regulatory variation in Saccharomyces cerevisiae. Plos Genetics. 1: e25. PMID 16121257 DOI: 10.1371/journal.pgen.0010025  1
2005 Brem RB, Storey JD, Whittle J, Kruglyak L. Genetic interactions between polymorphisms that affect gene expression in yeast. Nature. 436: 701-3. PMID 16079846 DOI: 10.1038/nature03865  1
2005 Brem RB, Kruglyak L. The landscape of genetic complexity across 5,700 gene expression traits in yeast. Proceedings of the National Academy of Sciences of the United States of America. 102: 1572-7. PMID 15659551 DOI: 10.1073/pnas.0408709102  1
2003 Yvert G, Brem RB, Whittle J, Akey JM, Foss E, Smith EN, Mackelprang R, Kruglyak L. Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. Nature Genetics. 35: 57-64. PMID 12897782 DOI: 10.1038/ng1222  1
2002 Brem RB, Yvert G, Clinton R, Kruglyak L. Genetic dissection of transcriptional regulation in budding yeast. Science (New York, N.Y.). 296: 752-5. PMID 11923494 DOI: 10.1126/science.1069516  1
2000 Brem R, Chan HS, Dill KA. Extracting microscopic energies from oil-phase solvation experiments Journal of Physical Chemistry B. 104: 7471-7482. DOI: 10.1021/jp0003297  1
1999 Brem R, Dill KA. The effect of multiple binding modes on empirical modeling of ligand docking to proteins. Protein Science : a Publication of the Protein Society. 8: 1134-43. PMID 10338024 DOI: 10.1110/ps.8.5.1134  1
1998 Finer-Moore JS, Liu L, Birdsall DL, Brem R, Apfeld J, Santi DV, Stroud RM. Contributions of orientation and hydrogen bonding to catalysis in Asn229 mutants of thymidylate synthase Journal of Molecular Biology. 276: 113-129. PMID 9514716 DOI: 10.1006/jmbi.1997.1495  1
1995 Sun S, Brem R, Chan HS, Dill KA. Designing amino acid sequences to fold with good hydrophobic cores. Protein Engineering. 8: 1205-13. PMID 8869633 DOI: 10.1093/protein/8.12.1205  1
1994 Robbins SG, Brem RB, Wilson DJ, O'Rourke LM, Robertson JE, Westra I, Planck SR, Rosenbaum JT. Immunolocalization of integrins in proliferative retinal membranes Investigative Ophthalmology and Visual Science. 35: 3475-3485. PMID 8056523  1
1994 Brem RB, Robbins SG, Wilson DJ, O'Rourke LM, Mixon RN, Robertson JE, Planck SR, Rosenbaum JT. Immunolocalization of integrins in the human retina Investigative Ophthalmology and Visual Science. 35: 3466-3474. PMID 8056522  1
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