Lars M. Steinmetz, Ph.D. - Publications

Affiliations: 
Stanford University, Palo Alto, CA 
Area:
Functional Genomics

130 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any innacuracies, 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
2019 Zuo E, Sun Y, Wei W, Yuan T, Ying W, Sun H, Yuan L, Steinmetz LM, Li Y, Yang H. Cytosine base editor generates substantial off-target single-nucleotide variants in mouse embryos. Science (New York, N.Y.). PMID 30819928 DOI: 10.1126/science.aav9973  0.64
2019 Nadal-Ribelles M, Islam S, Wei W, Latorre P, Nguyen M, de Nadal E, Posas F, Steinmetz LM. Sensitive high-throughput single-cell RNA-seq reveals within-clonal transcript correlations in yeast populations. Nature Microbiology. PMID 30718850 DOI: 10.1038/s41564-018-0346-9  0.64
2018 Pękowska A, Klaus B, Xiang W, Severino J, Daigle N, Klein FA, Oleś M, Casellas R, Ellenberg J, Steinmetz LM, Bertone P, Huber W. Gain of CTCF-Anchored Chromatin Loops Marks the Exit from Naive Pluripotency. Cell Systems. PMID 30414923 DOI: 10.1016/j.cels.2018.09.003  0.4
2018 Roy KR, Smith JD, Vonesch SC, Lin G, Tu CS, Lederer AR, Chu A, Suresh S, Nguyen M, Horecka J, Tripathi A, Burnett WT, Morgan MA, Schulz J, Orsley KM, ... ... Steinmetz LM, et al. Multiplexed precision genome editing with trackable genomic barcodes in yeast. Nature Biotechnology. PMID 29734294 DOI: 10.1038/nbt.4137  0.92
2018 Harvey CJB, Tang M, Schlecht U, Horecka J, Fischer CR, Lin HC, Li J, Naughton B, Cherry J, Miranda M, Li YF, Chu AM, Hennessy JR, Vandova GA, Inglis D, ... ... Steinmetz LM, et al. HEx: A heterologous expression platform for the discovery of fungal natural products. Science Advances. 4: eaar5459. PMID 29651464 DOI: 10.1126/sciadv.aar5459  0.92
2018 Chabbert CD, Adjalley SH, Steinmetz LM, Pelechano V. Multiplexed ChIP-Seq Using Direct Nucleosome Barcoding: A Tool for High-Throughput Chromatin Analysis. Methods in Molecular Biology (Clifton, N.J.). 1689: 177-194. PMID 29027175 DOI: 10.1007/978-1-4939-7380-4_16  0.96
2017 Tomlin FM, Gerling-Driessen UIM, Liu YC, Flynn RA, Vangala JR, Lentz CS, Clauder-Muenster S, Jakob P, Mueller WF, Ordoñez-Rueda D, Paulsen M, Matsui N, Foley D, Rafalko A, Suzuki T, ... ... Steinmetz LM, et al. Inhibition of NGLY1 Inactivates the Transcription Factor Nrf1 and Potentiates Proteasome Inhibitor Cytotoxicity. Acs Central Science. 3: 1143-1155. PMID 29202016 DOI: 10.1021/acscentsci.7b00224  0.48
2017 Hennig BP, Velten L, Racke I, Szu Tu C, Thoms M, Rybin V, Besir H, Remans K, Steinmetz LM. Large-Scale Low-Cost NGS Library Preparation Using a Robust Tn5 Purification and Tagmentation Protocol. G3 (Bethesda, Md.). PMID 29118030 DOI: 10.1534/g3.117.300257  0.4
2017 Birey F, Andersen J, Makinson CD, Islam S, Wei W, Huber N, Fan HC, Metzler KRC, Panagiotakos G, Thom N, O'Rourke NA, Steinmetz LM, Bernstein JA, Hallmayer J, Huguenard JR, et al. Assembly of functionally integrated human forebrain spheroids. Nature. PMID 28445465 DOI: 10.1038/nature22330  0.64
2017 Velten L, Haas SF, Raffel S, Blaszkiewicz S, Islam S, Hennig BP, Hirche C, Lutz C, Buss EC, Nowak D, Boch T, Hofmann WK, Ho AD, Huber W, Trumpp A, ... ... Steinmetz LM, et al. Human haematopoietic stem cell lineage commitment is a continuous process. Nature Cell Biology. PMID 28319093 DOI: 10.1038/ncb3493  0.4
2017 Chakraborty P, Pankajam AV, Lin G, Dutta A, Nandanan KG, Tekkedil MM, Shinohara A, Steinmetz LM, Thazath NK. Modulating Crossover Frequency and Interference for Obligate Crossovers in Saccharomyces cerevisiae Meiosis. G3 (Bethesda, Md.). PMID 28315832 DOI: 10.1534/g3.117.040071  0.32
2017 Smith JD, Schlecht U, Xu W, Suresh S, Horecka J, Proctor MJ, Aiyar RS, Bennett RA, Chu A, Li YF, Roy K, Davis RW, Steinmetz LM, Hyman RW, Levy SF, et al. A method for high-throughput production of sequence-verified DNA libraries and strain collections. Molecular Systems Biology. 13: 913. PMID 28193641  0.92
2016 Costanzo M, VanderSluis B, Koch EN, Baryshnikova A, Pons C, Tan G, Wang W, Usaj M, Hanchard J, Lee SD, Pelechano V, Styles EB, Billmann M, van Leeuwen J, van Dyk N, ... ... Steinmetz LM, et al. A global genetic interaction network maps a wiring diagram of cellular function. Science (New York, N.Y.). 353. PMID 27708008 DOI: 10.1126/science.aaf1420  0.96
2016 Chen Y, Pai AA, Herudek J, Lubas M, Meola N, Järvelin AI, Andersson R, Pelechano V, Steinmetz LM, Jensen TH, Sandelin A. Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters. Nature Genetics. PMID 27455346 DOI: 10.1038/ng.3616  0.96
2016 Gupta S, Radhakrishnan A, Nitin R, Raharja-Liu P, Lin G, Steinmetz LM, Gagneur J, Sinha H. Meiotic Interactors of a Mitotic Gene TAO3 Revealed by Functional Analysis of its Rare Variant. G3 (Bethesda, Md.). PMID 27317780 DOI: 10.1534/g3.116.029900  0.96
2016 Huber F, Bunina D, Gupta I, Khmelinskii A, Meurer M, Theer P, Steinmetz LM, Knop M. Protein Abundance Control by Non-coding Antisense Transcription. Cell Reports. PMID 27292640 DOI: 10.1016/j.celrep.2016.05.043  0.48
2016 Gupta I, Villanyi Z, Kassem S, Hughes C, Panasenko OO, Steinmetz LM, Collart MA. Translational Capacity of a Cell Is Determined during Transcription Elongation via the Ccr4-Not Complex. Cell Reports. PMID 27184853 DOI: 10.1016/j.celrep.2016.04.055  0.96
2016 Chlamydas S, Holz H, Samata M, Chelmicki T, Georgiev P, Pelechano V, Dündar F, Dasmeh P, Mittler G, Cadete FT, Ramírez F, Conrad T, Wei W, Raja S, Manke T, ... ... Steinmetz LM, et al. Functional interplay between MSL1 and CDK7 controls RNA polymerase II Ser5 phosphorylation. Nature Structural & Molecular Biology. PMID 27183194 DOI: 10.1038/nsmb.3233  0.96
2016 Chabbert CD, Steinmetz LM, Klaus B. DChIPRep, an R/Bioconductor package for differential enrichment analysis in chromatin studies. Peerj. 4: e1981. PMID 27168989 DOI: 10.7717/peerj.1981  0.96
2016 Smith JD, Suresh S, Schlecht U, Wu M, Wagih O, Peltz G, Davis RW, Steinmetz LM, Parts L, St Onge RP. Quantitative CRISPR interference screens in yeast identify chemical-genetic interactions and new rules for guide RNA design. Genome Biology. 17: 45. PMID 26956608 DOI: 10.1186/s13059-016-0900-9  0.96
2016 Adjalley SH, Chabbert CD, Klaus B, Pelechano V, Steinmetz LM. Landscape and Dynamics of Transcription Initiation in the Malaria Parasite Plasmodium falciparum. Cell Reports. PMID 26947071 DOI: 10.1016/j.celrep.2016.02.025  0.96
2016 Pelechano V, Wei W, Steinmetz LM. Genome-wide quantification of 5'-phosphorylated mRNA degradation intermediates for analysis of ribosome dynamics. Nature Protocols. 11: 359-76. PMID 26820793 DOI: 10.1038/nprot.2016.026  0.96
2016 Wilkening S, Pelechano V, Steinmetz LM. Genome-Wide Identification of Alternative Polyadenylation Events Using 3'T-Fill. Methods in Molecular Biology (Clifton, N.J.). 1358: 295-302. PMID 26463391 DOI: 10.1007/978-1-4939-3067-8_18  0.96
2016 Castello A, Horos R, Strein C, Fischer B, Eichelbaum K, Steinmetz LM, Krijgsveld J, Hentze MW. Comprehensive Identification of RNA-Binding Proteins by RNA Interactome Capture. Methods in Molecular Biology (Clifton, N.J.). 1358: 131-9. PMID 26463381 DOI: 10.1007/978-1-4939-3067-8_8  0.96
2015 Holmes RK, Tuck AC, Zhu C, Dunn-Davies HR, Kudla G, Clauder-Munster S, Granneman S, Steinmetz LM, Guthrie C, Tollervey D. Loss of the Yeast SR Protein Npl3 Alters Gene Expression Due to Transcription Readthrough. Plos Genetics. 11: e1005735. PMID 26694144 DOI: 10.1371/journal.pgen.1005735  0.96
2015 Rege M, Subramanian V, Zhu C, Hsieh TS, Weiner A, Friedman N, Clauder-Münster S, Steinmetz LM, Rando OJ, Boyer LA, Peterson CL. Chromatin Dynamics and the RNA Exosome Function in Concert to Regulate Transcriptional Homeostasis. Cell Reports. PMID 26586442 DOI: 10.1016/j.celrep.2015.10.030  0.96
2015 Baday M, Calamak S, Durmus NG, Davis RW, Steinmetz LM, Demirci U. Integrating Cell Phone Imaging with Magnetic Levitation (i-LEV) for Label-Free Blood Analysis at the Point-of-Living. Small (Weinheim An Der Bergstrasse, Germany). PMID 26523938 DOI: 10.1002/smll.201501845  0.96
2015 Grubert F, Zaugg JB, Kasowski M, Ursu O, Spacek DV, Martin AR, Greenside P, Srivas R, Phanstiel DH, Pekowska A, Heidari N, Euskirchen G, Huber W, Pritchard JK, Bustamante CD, ... Steinmetz LM, et al. Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions. Cell. PMID 26300125 DOI: 10.1016/j.cell.2015.07.048  0.96
2015 Haas S, Hansson J, Klimmeck D, Loeffler D, Velten L, Uckelmann H, Wurzer S, Prendergast ÁM, Schnell A, Hexel K, Santarella-Mellwig R, Blaszkiewicz S, Kuck A, Geiger H, Milsom MD, ... Steinmetz LM, et al. Inflammation-Induced Emergency Megakaryopoiesis Driven by Hematopoietic Stem Cell-like Megakaryocyte Progenitors. Cell Stem Cell. 17: 422-34. PMID 26299573 DOI: 10.1016/j.stem.2015.07.007  0.96
2015 Brennecke P, Reyes A, Pinto S, Rattay K, Nguyen M, Küchler R, Huber W, Kyewski B, Steinmetz LM. Single-cell transcriptome analysis reveals coordinated ectopic gene-expression patterns in medullary thymic epithelial cells. Nature Immunology. 16: 933-41. PMID 26237553 DOI: 10.1038/ni.3246  0.96
2015 Inci F, Filippini C, Baday M, Ozen MO, Calamak S, Durmus NG, Wang S, Hanhauser E, Hobbs KS, Juillard F, Kuang PP, Vetter ML, Carocci M, Yamamoto HS, Takagi Y, ... ... Steinmetz LM, et al. Multitarget, quantitative nanoplasmonic electrical field-enhanced resonating device (NE2RD) for diagnostics. Proceedings of the National Academy of Sciences of the United States of America. PMID 26195743 DOI: 10.1073/pnas.1510824112  0.96
2015 Durmus NG, Tekin HC, Guven S, Sridhar K, Arslan Yildiz A, Calibasi G, Ghiran I, Davis RW, Steinmetz LM, Demirci U. Magnetic levitation of single cells. Proceedings of the National Academy of Sciences of the United States of America. 112: E3661-8. PMID 26124131 DOI: 10.1073/pnas.1509250112  0.92
2015 Schmid M, Olszewski P, Pelechano V, Gupta I, Steinmetz LM, Jensen TH. The Nuclear PolyA-Binding Protein Nab2p Is Essential for mRNA Production. Cell Reports. 12: 128-39. PMID 26119729 DOI: 10.1016/j.celrep.2015.06.008  0.96
2015 Pelechano V, Wei W, Steinmetz LM. Widespread Co-translational RNA Decay Reveals Ribosome Dynamics. Cell. 161: 1400-12. PMID 26046441 DOI: 10.1016/j.cell.2015.05.008  0.96
2015 Velten L, Anders S, Pekowska A, Järvelin AI, Huber W, Pelechano V, Steinmetz LM. Single-cell polyadenylation site mapping reveals 3' isoform choice variability. Molecular Systems Biology. 11: 812. PMID 26040288  0.96
2015 Gupta S, Radhakrishnan A, Raharja-Liu P, Lin G, Steinmetz LM, Gagneur J, Sinha H. Temporal expression profiling identifies pathways mediating effect of causal variant on phenotype. Plos Genetics. 11: e1005195. PMID 26039065 DOI: 10.1371/journal.pgen.1005195  0.96
2015 Lasserre JP, Dautant A, Aiyar RS, Kucharczyk R, Glatigny A, Tribouillard-Tanvier D, Rytka J, Blondel M, Skoczen N, Reynier P, Pitayu L, Rötig A, Delahodde A, Steinmetz LM, Dujardin G, et al. Yeast as a system for modeling mitochondrial disease mechanisms and discovering therapies. Disease Models & Mechanisms. 8: 509-26. PMID 26035862 DOI: 10.1242/dmm.020438  0.96
2015 Bader DM, Wilkening S, Lin G, Tekkedil MM, Dietrich K, Steinmetz LM, Gagneur J. Negative feedback buffers effects of regulatory variants. Molecular Systems Biology. 11: 785. PMID 25634765 DOI: 10.15252/msb.20145844  0.96
2015 Chabbert CD, Adjalley SH, Klaus B, Fritsch ES, Gupta I, Pelechano V, Steinmetz LM. A high-throughput ChIP-Seq for large-scale chromatin studies. Molecular Systems Biology. 11: 777. PMID 25583149 DOI: 10.15252/msb.20145776  0.96
2015 Jordán-Pla A, Gupta I, de Miguel-Jiménez L, Steinmetz LM, Chávez S, Pelechano V, Pérez-Ortín JE. Chromatin-dependent regulation of RNA polymerases II and III activity throughout the transcription cycle. Nucleic Acids Research. 43: 787-802. PMID 25550430 DOI: 10.1093/nar/gku1349  0.96
2015 Lardenois A, Stuparevic I, Liu Y, Law MJ, Becker E, Smagulova F, Waern K, Guilleux MH, Horecka J, Chu A, Kervarrec C, Strich R, Snyder M, Davis RW, Steinmetz LM, et al. The conserved histone deacetylase Rpd3 and its DNA binding subunit Ume6 control dynamic transcript architecture during mitotic growth and meiotic development. Nucleic Acids Research. 43: 115-28. PMID 25477386 DOI: 10.1093/nar/gku1185  0.96
2015 Krishnaprasad GN, Anand MT, Lin G, Tekkedil MM, Steinmetz LM, Nishant KT. Variation in crossover frequencies perturb crossover assurance without affecting meiotic chromosome segregation in Saccharomyces cerevisiae. Genetics. 199: 399-412. PMID 25467183 DOI: 10.1534/genetics.114.172320  0.32
2015 Krishnaprasad GN, Anand MT, Lin G, Tekkedil MM, Steinmetz LM, Nishant KT. Variation in crossover frequencies perturb crossover assurance without affecting meiotic chromosome segregation in Saccharomyces cerevisiae Genetics. 199: 399-412. DOI: 10.1534/genetics.114.172320  0.96
2015 Velten L, Anders S, Pekowska A, Järvelin AI, Huber W, Pelechano V, Steinmetz LM. Single-cell polyadenylation site mapping reveals 3′ isoform choice variability Molecular Systems Biology. 11. DOI: 10.15252/msb.20156198  0.96
2015 Durmus NG, Tekin HC, Guven S, Sridhar K, Yildiz AA, Calibasi G, Ghiran I, Davis RW, Steinmetz LM, Demirci U. Magnetic levitation of single cells Proceedings of the National Academy of Sciences of the United States of America. 112: E3661-E3668. DOI: 10.1073/pnas.1509250112  0.96
2014 Aiyar RS, Bohnert M, Duvezin-Caubet S, Voisset C, Gagneur J, Fritsch ES, Couplan E, von der Malsburg K, Funaya C, Soubigou F, Courtin F, Suresh S, Kucharczyk R, Evrard J, Antony C, ... ... Steinmetz LM, et al. Mitochondrial protein sorting as a therapeutic target for ATP synthase disorders. Nature Communications. 5: 5585. PMID 25519239 DOI: 10.1038/ncomms6585  0.96
2014 Colin J, Candelli T, Porrua O, Boulay J, Zhu C, Lacroute F, Steinmetz LM, Libri D. Roadblock termination by reb1p restricts cryptic and readthrough transcription. Molecular Cell. 56: 667-80. PMID 25479637 DOI: 10.1016/j.molcel.2014.10.026  0.48
2014 Frechin M, Enkler L, Tetaud E, Laporte D, Senger B, Blancard C, Hammann P, Bader G, Clauder-Münster S, Steinmetz LM, Martin RP, di Rago JP, Becker HD. Expression of nuclear and mitochondrial genes encoding ATP synthase is synchronized by disassembly of a multisynthetase complex. Molecular Cell. 56: 763-76. PMID 25453761 DOI: 10.1016/j.molcel.2014.10.015  0.48
2014 Nguyen T, Fischl H, Howe FS, Woloszczuk R, Serra Barros A, Xu Z, Brown D, Murray SC, Haenni S, Halstead JM, O'Connor L, Shipkovenska G, Steinmetz LM, Mellor J. Transcription mediated insulation and interference direct gene cluster expression switches. Elife. 3: e03635. PMID 25407679 DOI: 10.7554/eLife.03635  0.96
2014 Villanyi Z, Ribaud V, Kassem S, Panasenko OO, Pahi Z, Gupta I, Steinmetz L, Boros I, Collart MA. The Not5 subunit of the ccr4-not complex connects transcription and translation. Plos Genetics. 10: e1004569. PMID 25340856 DOI: 10.1371/journal.pgen.1004569  0.96
2014 Moore LS, Wei W, Stolovicki E, Benbenishty T, Wilkening S, Steinmetz LM, Braun E, David L. Induced mutations in yeast cell populations adapting to an unforeseen challenge. Plos One. 9: e111133. PMID 25340744 DOI: 10.1371/journal.pone.0111133  0.96
2014 David L, Clauder-Münster S, Steinmetz LM. High-density tiling microarray analysis of the full transcriptional activity of yeast. Methods in Molecular Biology (Clifton, N.J.). 1205: 257-73. PMID 25213250 DOI: 10.1007/978-1-4939-1363-3_16  0.96
2014 Fritsch ES, Chabbert CD, Klaus B, Steinmetz LM. A genome-wide map of mitochondrial DNA recombination in yeast. Genetics. 198: 755-71. PMID 25081569 DOI: 10.1534/genetics.114.166637  0.96
2014 Pelechano V, Wei W, Jakob P, Steinmetz LM. Genome-wide identification of transcript start and end sites by transcript isoform sequencing. Nature Protocols. 9: 1740-59. PMID 24967623 DOI: 10.1038/nprot.2014.121  0.96
2014 Parts L, Liu YC, Tekkedil MM, Steinmetz LM, Caudy AA, Fraser AG, Boone C, Andrews BJ, Rosebrock AP. Heritability and genetic basis of protein level variation in an outbred population. Genome Research. 24: 1363-70. PMID 24823668 DOI: 10.1101/gr.170506.113  0.96
2014 Gupta I, Clauder-Münster S, Klaus B, Järvelin AI, Aiyar RS, Benes V, Wilkening S, Huber W, Pelechano V, Steinmetz LM. Alternative polyadenylation diversifies post-transcriptional regulation by selective RNA-protein interactions. Molecular Systems Biology. 10: 719. PMID 24569168 DOI: 10.1002/msb.135068  0.96
2014 Nadal-Ribelles M, Solé C, Xu Z, Steinmetz LM, de Nadal E, Posas F. Control of Cdc28 CDK1 by a stress-induced lncRNA. Molecular Cell. 53: 549-61. PMID 24508389 DOI: 10.1016/j.molcel.2014.01.006  0.48
2014 Castelnuovo M, Zaugg JB, Guffanti E, Maffioletti A, Camblong J, Xu Z, Clauder-Münster S, Steinmetz LM, Luscombe NM, Stutz F. Role of histone modifications and early termination in pervasive transcription and antisense-mediated gene silencing in yeast. Nucleic Acids Research. 42: 4348-62. PMID 24497191 DOI: 10.1093/nar/gku100  0.96
2014 Bhatia A, Yadav A, Zhu C, Gagneur J, Radhakrishnan A, Steinmetz LM, Bhanot G, Sinha H. Yeast growth plasticity is regulated by environment-specific multi-QTL interactions. G3 (Bethesda, Md.). 4: 769-77. PMID 24474169 DOI: 10.1534/g3.113.009142  0.36
2014 Wilkening S, Lin G, Fritsch ES, Tekkedil MM, Anders S, Kuehn R, Nguyen M, Aiyar RS, Proctor M, Sakhanenko NA, Galas DJ, Gagneur J, Deutschbauer A, Steinmetz LM. An evaluation of high-throughput approaches to QTL mapping in Saccharomyces cerevisiae. Genetics. 196: 853-65. PMID 24374355 DOI: 10.1534/genetics.113.160291  0.96
2014 Hughes CS, Foehr S, Garfield DA, Furlong EE, Steinmetz LM, Krijgsveld J. Ultrasensitive proteome analysis using paramagnetic bead technology Molecular Systems Biology. 10. DOI: 10.15252/msb.20145625  0.96
2013 Lenstra TL, Tudek A, Clauder S, Xu Z, Pachis ST, van Leenen D, Kemmeren P, Steinmetz LM, Libri D, Holstege FC. The role of Ctk1 kinase in termination of small non-coding RNAs. Plos One. 8: e80495. PMID 24324601 DOI: 10.1371/journal.pone.0080495  0.48
2013 Pelechano V, Steinmetz LM. Gene regulation by antisense transcription. Nature Reviews. Genetics. 14: 880-93. PMID 24217315 DOI: 10.1038/nrg3594  0.96
2013 Kasowski M, Kyriazopoulou-Panagiotopoulou S, Grubert F, Zaugg JB, Kundaje A, Liu Y, Boyle AP, Zhang QC, Zakharia F, Spacek DV, Li J, Xie D, Olarerin-George A, Steinmetz LM, Hogenesch JB, et al. Extensive variation in chromatin states across humans. Science (New York, N.Y.). 342: 750-2. PMID 24136358 DOI: 10.1126/science.1242510  0.32
2013 Fehrmann S, Bottin-Duplus H, Leonidou A, Mollereau E, Barthelaix A, Wei W, Steinmetz LM, Yvert G. Natural sequence variants of yeast environmental sensors confer cell-to-cell expression variability. Molecular Systems Biology. 9: 695. PMID 24104478 DOI: 10.1038/msb.2013.53  0.96
2013 Gagneur J, Stegle O, Zhu C, Jakob P, Tekkedil MM, Aiyar RS, Schuon AK, Pe'er D, Steinmetz LM. Genotype-environment interactions reveal causal pathways that mediate genetic effects on phenotype. Plos Genetics. 9: e1003803. PMID 24068968 DOI: 10.1371/journal.pgen.1003803  0.96
2013 Reyes A, Anders S, Weatheritt RJ, Gibson TJ, Steinmetz LM, Huber W. Drift and conservation of differential exon usage across tissues in primate species. Proceedings of the National Academy of Sciences of the United States of America. 110: 15377-82. PMID 24003148 DOI: 10.1073/pnas.1307202110  0.96
2013 Ntini E, Järvelin AI, Bornholdt J, Chen Y, Boyd M, Jørgensen M, Andersson R, Hoof I, Schein A, Andersen PR, Andersen PK, Preker P, Valen E, Zhao X, Pelechano V, ... Steinmetz LM, et al. Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality. Nature Structural & Molecular Biology. 20: 923-8. PMID 23851456 DOI: 10.1038/nsmb.2640  0.48
2013 Pelechano V, Wei W, Steinmetz LM. Extensive transcriptional heterogeneity revealed by isoform profiling. Nature. 497: 127-31. PMID 23615609 DOI: 10.1038/nature12121  0.96
2013 David L, Ben-Harosh Y, Stolovicki E, Moore LS, Nguyen M, Tamse R, Dean J, Mancera E, Steinmetz LM, Braun E. Multiple genomic changes associated with reorganization of gene regulation and adaptation in yeast. Molecular Biology and Evolution. 30: 1514-26. PMID 23589456 DOI: 10.1093/molbev/mst071  0.48
2013 Landry JJ, Pyl PT, Rausch T, Zichner T, Tekkedil MM, Stütz AM, Jauch A, Aiyar RS, Pau G, Delhomme N, Gagneur J, Korbel JO, Huber W, Steinmetz LM. The genomic and transcriptomic landscape of a HeLa cell line. G3 (Bethesda, Md.). 3: 1213-24. PMID 23550136 DOI: 10.1534/g3.113.005777  0.48
2013 Castello A, Horos R, Strein C, Fischer B, Eichelbaum K, Steinmetz LM, Krijgsveld J, Hentze MW. System-wide identification of RNA-binding proteins by interactome capture. Nature Protocols. 8: 491-500. PMID 23411631 DOI: 10.1038/nprot.2013.020  0.48
2013 Wilkening S, Tekkedil MM, Lin G, Fritsch ES, Wei W, Gagneur J, Lazinski DW, Camilli A, Steinmetz LM. Genotyping 1000 yeast strains by next-generation sequencing. Bmc Genomics. 14: 90. PMID 23394869 DOI: 10.1186/1471-2164-14-90  0.48
2013 Wilkening S, Pelechano V, Järvelin AI, Tekkedil MM, Anders S, Benes V, Steinmetz LM. An efficient method for genome-wide polyadenylation site mapping and RNA quantification. Nucleic Acids Research. 41: e65. PMID 23295673 DOI: 10.1093/nar/gks1249  0.96
2013 Lamacchia M, Clayton JR, Wang-Sattler R, Steinmetz LM, Levashina EA, Blandin SA. Silencing of genes and alleles by RNAi in Anopheles gambiae. Methods in Molecular Biology (Clifton, N.J.). 923: 161-76. PMID 22990777 DOI: 10.1007/978-1-62703-026-7_11  0.96
2012 Hobson DJ, Wei W, Steinmetz LM, Svejstrup JQ. RNA polymerase II collision interrupts convergent transcription. Molecular Cell. 48: 365-74. PMID 23041286 DOI: 10.1016/j.molcel.2012.08.027  0.96
2012 Abraham AL, Nagarajan M, Veyrieras JB, Bottin H, Steinmetz LM, Yvert G. Genetic modifiers of chromatin acetylation antagonize the reprogramming of epi-polymorphisms. Plos Genetics. 8: e1002958. PMID 23028365 DOI: 10.1371/journal.pgen.1002958  0.96
2012 Tan-Wong SM, Zaugg JB, Camblong J, Xu Z, Zhang DW, Mischo HE, Ansari AZ, Luscombe NM, Steinmetz LM, Proudfoot NJ. Gene loops enhance transcriptional directionality. Science (New York, N.Y.). 338: 671-5. PMID 23019609 DOI: 10.1126/science.1224350  0.96
2012 Gudipati RK, Xu Z, Lebreton A, Séraphin B, Steinmetz LM, Jacquier A, Libri D. Extensive Degradation of RNA Precursors by the Exosome in Wild-Type Cells Molecular Cell. 48: 409-421. PMID 23000176 DOI: 10.1016/j.molcel.2012.08.018  0.48
2012 Kim T, Xu Z, Clauder-Münster S, Steinmetz LM, Buratowski S. Set3 HDAC mediates effects of overlapping noncoding transcription on gene induction kinetics. Cell. 150: 1158-69. PMID 22959268 DOI: 10.1016/j.cell.2012.08.016  0.48
2012 Pelechano V, Wilkening S, Järvelin AI, Tekkedil MM, Steinmetz LM. Genome-wide polyadenylation site mapping. Methods in Enzymology. 513: 271-96. PMID 22929774 DOI: 10.1016/B978-0-12-391938-0.00012-4  0.48
2012 Bietenhader M, Martos A, Tetaud E, Aiyar RS, Sellem CH, Kucharczyk R, Clauder-Münster S, Giraud MF, Godard F, Salin B, Sagot I, Gagneur J, Déquard-Chablat M, Contamine V, Hermann-Le Denmat S, ... ... Steinmetz LM, et al. Experimental relocation of the mitochondrial ATP9 gene to the nucleus reveals forces underlying mitochondrial genome evolution. Plos Genetics. 8: e1002876. PMID 22916027 DOI: 10.1371/journal.pgen.1002876  0.96
2012 Delhomme N, Padioleau I, Furlong EE, Steinmetz LM. easyRNASeq: a bioconductor package for processing RNA-Seq data. Bioinformatics (Oxford, England). 28: 2532-3. PMID 22847932 DOI: 10.1093/bioinformatics/bts477  0.48
2012 Schmid M, Poulsen MB, Olszewski P, Pelechano V, Saguez C, Gupta I, Steinmetz LM, Moore C, Jensen TH. Rrp6p controls mRNA poly(A) tail length and its decoration with poly(A) binding proteins. Molecular Cell. 47: 267-80. PMID 22683267 DOI: 10.1016/j.molcel.2012.05.005  0.48
2012 Castello A, Fischer B, Eichelbaum K, Horos R, Beckmann BM, Strein C, Davey NE, Humphreys DT, Preiss T, Steinmetz LM, Krijgsveld J, Hentze MW. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Cell. 149: 1393-406. PMID 22658674 DOI: 10.1016/j.cell.2012.04.031  0.48
2012 Heise F, Chung HR, Weber JM, Xu Z, Klein-Hitpass L, Steinmetz LM, Vingron M, Ehrenhofer-Murray AE. Genome-wide H4 K16 acetylation by SAS-I is deposited independently of transcription and histone exchange. Nucleic Acids Research. 40: 65-74. PMID 21908408 DOI: 10.1093/nar/gkr649  0.48
2011 David L, Clauder-Münster S, Steinmetz LM. Genome-wide transcriptome analysis in yeast using high-density tiling arrays. Methods in Molecular Biology (Clifton, N.J.). 759: 107-23. PMID 21863484 DOI: 10.1007/978-1-61779-173-4_7  0.48
2011 Couplan E, Aiyar RS, Kucharczyk R, Kabala A, Ezkurdia N, Gagneur J, St Onge RP, Salin B, Soubigou F, Le Cann M, Steinmetz LM, di Rago JP, Blondel M. A yeast-based assay identifies drugs active against human mitochondrial disorders. Proceedings of the National Academy of Sciences of the United States of America. 108: 11989-94. PMID 21715656 DOI: 10.1073/pnas.1101478108  0.48
2011 Marvin MC, Clauder-Münster S, Walker SC, Sarkeshik A, Yates JR, Steinmetz LM, Engelke DR. Accumulation of noncoding RNA due to an RNase P defect in Saccharomyces cerevisiae. Rna (New York, N.Y.). 17: 1441-50. PMID 21665995 DOI: 10.1261/rna.2737511  0.48
2011 Wei W, Pelechano V, Järvelin AI, Steinmetz LM. Functional consequences of bidirectional promoters. Trends in Genetics : Tig. 27: 267-76. PMID 21601935 DOI: 10.1016/j.tig.2011.04.002  0.48
2011 Mancera E, Bourgon R, Huber W, Steinmetz LM. Genome-wide survey of post-meiotic segregation during yeast recombination. Genome Biology. 12: R36. PMID 21481229 DOI: 10.1186/gb-2011-12-4-r36  0.48
2011 Xu Z, Wei W, Gagneur J, Clauder-Münster S, Smolik M, Huber W, Steinmetz LM. Antisense expression increases gene expression variability and locus interdependency. Molecular Systems Biology. 7: 468. PMID 21326235 DOI: 10.1038/msb.2011.1  0.96
2011 Mischo HE, Gómez-González B, Grzechnik P, Rondón AG, Wei W, Steinmetz L, Aguilera A, Proudfoot NJ. Yeast Sen1 helicase protects the genome from transcription-associated instability Molecular Cell. 41: 21-32. PMID 21211720 DOI: 10.1016/j.molcel.2010.12.007  0.96
2011 Lardenois A, Liu Y, Walther T, Chalmel F, Evrard B, Granovskaia M, Chu A, Davis RW, Steinmetz LM, Primig M. Execution of the meiotic noncoding RNA expression program and the onset of gametogenesis in yeast require the conserved exosome subunit Rrp6. Proceedings of the National Academy of Sciences of the United States of America. 108: 1058-63. PMID 21149693 DOI: 10.1073/pnas.1016459108  0.96
2010 Nishant KT, Wei W, Mancera E, Argueso JL, Schlattl A, Delhomme N, Ma X, Bustamante CD, Korbel JO, Gu Z, Steinmetz LM, Alani E. The baker's yeast diploid genome is remarkably stable in vegetative growth and meiosis. Plos Genetics. 6: e1001109. PMID 20838597 DOI: 10.1371/journal.pgen.1001109  0.96
2010 Guan W, Jiang H, Guo X, Mancera E, Xu L, Li Y, Steinmetz L, Li Y, Gu Z. Antagonistic changes in sensitivity to antifungal drugs by mutations of an important ABC transporter gene in a fungal pathogen. Plos One. 5: e11309. PMID 20593017 DOI: 10.1371/journal.pone.0011309  0.96
2010 Nagarajan M, Veyrieras JB, de Dieuleveult M, Bottin H, Fehrmann S, Abraham AL, Croze S, Steinmetz LM, Gidrol X, Yvert G. Natural single-nucleosome epi-polymorphisms in yeast. Plos Genetics. 6: e1000913. PMID 20421933 DOI: 10.1371/journal.pgen.1000913  0.96
2010 Zheng W, Zhao H, Mancera E, Steinmetz LM, Snyder M. Genetic analysis of variation in transcription factor binding in yeast. Nature. 464: 1187-91. PMID 20237471 DOI: 10.1038/nature08934  0.96
2010 Granovskaia MV, Jensen LJ, Ritchie ME, Toedling J, Ning Y, Bork P, Huber W, Steinmetz LM. High-resolution transcription atlas of the mitotic cell cycle in budding yeast. Genome Biology. 11: R24. PMID 20193063 DOI: 10.1186/gb-2010-11-3-r24  0.96
2009 Blandin SA, Wang-Sattler R, Lamacchia M, Gagneur J, Lycett G, Ning Y, Levashina EA, Steinmetz LM. Dissecting the genetic basis of resistance to malaria parasites in Anopheles gambiae. Science (New York, N.Y.). 326: 147-50. PMID 19797663 DOI: 10.1126/science.1175241  0.96
2009 Camblong J, Beyrouthy N, Guffanti E, Schlaepfer G, Steinmetz LM, Stutz F. Trans-acting antisense RNAs mediate transcriptional gene cosuppression in S. cerevisiae. Genes & Development. 23: 1534-45. PMID 19571181 DOI: 10.1101/gad.522509  0.96
2009 Gagneur J, Sinha H, Perocchi F, Bourgon R, Huber W, Steinmetz LM. Genome-wide allele- and strand-specific expression profiling. Molecular Systems Biology. 5: 274. PMID 19536197 DOI: 10.1038/msb.2009.31  0.96
2009 Bourgon R, Mancera E, Brozzi A, Steinmetz LM, Huber W. Array-based genotyping in S.cerevisiae using semi-supervised clustering. Bioinformatics (Oxford, England). 25: 1056-62. PMID 19237444 DOI: 10.1093/bioinformatics/btp104  0.96
2009 Neil H, Malabat C, D'Aubenton-Carafa Y, Xu Z, Steinmetz LM, Jacquier A. Widespread bidirectional promoters are the major source of cryptic transcripts in yeast Nature. 457: 1038-1042. PMID 19169244 DOI: 10.1038/nature07747  0.96
2009 Xu Z, Wei W, Gagneur J, Perocchi F, Clauder-Münster S, Camblong J, Guffanti E, Stutz F, Huber W, Steinmetz LM. Bidirectional promoters generate pervasive transcription in yeast. Nature. 457: 1033-7. PMID 19169243 DOI: 10.1038/nature07728  0.96
2008 Aiyar RS, Gagneur J, Steinmetz LM. Identification of mitochondrial disease genes through integrative analysis of multiple datasets. Methods (San Diego, Calif.). 46: 248-55. PMID 18930150 DOI: 10.1016/j.ymeth.2008.10.002  0.96
2008 Sinha H, David L, Pascon RC, Clauder-Münster S, Krishnakumar S, Nguyen M, Shi G, Dean J, Davis RW, Oefner PJ, McCusker JH, Steinmetz LM. Sequential elimination of major-effect contributors identifies additional quantitative trait loci conditioning high-temperature growth in yeast. Genetics. 180: 1661-70. PMID 18780730 DOI: 10.1534/genetics.108.092932  0.96
2008 Mancera E, Bourgon R, Brozzi A, Huber W, Steinmetz LM. High-resolution mapping of meiotic crossovers and non-crossovers in yeast. Nature. 454: 479-85. PMID 18615017 DOI: 10.1038/nature07135  0.96
2008 Perocchi F, Mancera E, Steinmetz LM. Systematic screens for human disease genes, from yeast to human and back. Molecular Biosystems. 4: 18-29. PMID 18075670 DOI: 10.1039/b709494a  0.96
2007 Wang-Sattler R, Blandin S, Ning Y, Blass C, Dolo G, Touré YT, delle Torre A, Lanzaro GC, Steinmetz LM, Kafatos FC, Zheng L. Mosaic genome architecture of the Anopheles gambiae species complex. Plos One. 2: e1249. PMID 18043756 DOI: 10.1371/journal.pone.0001249  0.96
2007 Perocchi F, Xu Z, Clauder-Münster S, Steinmetz LM. Antisense artifacts in transcriptome microarray experiments are resolved by actinomycin D. Nucleic Acids Research. 35: e128. PMID 17897965 DOI: 10.1093/nar/gkm683  0.96
2007 Wei W, McCusker JH, Hyman RW, Jones T, Ning Y, Cao Z, Gu Z, Bruno D, Miranda M, Nguyen M, Wilhelmy J, Komp C, Tamse R, Wang X, Jia P, ... ... Steinmetz LM, et al. Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789. Proceedings of the National Academy of Sciences of the United States of America. 104: 12825-30. PMID 17652520 DOI: 10.1073/pnas.0701291104  0.96
2006 Perocchi F, Jensen LJ, Gagneur J, Ahting U, von Mering C, Bork P, Prokisch H, Steinmetz LM. Assessing systems properties of yeast mitochondria through an interaction map of the organelle. Plos Genetics. 2: e170. PMID 17054397 DOI: 10.1371/journal.pgen.0020170  0.96
2006 Huber W, Toedling J, Steinmetz LM. Transcript mapping with high-density oligonucleotide tiling arrays. Bioinformatics (Oxford, England). 22: 1963-70. PMID 16787969 DOI: 10.1093/bioinformatics/btl289  0.96
2006 Gagneur J, David L, Steinmetz LM. Capturing cellular machines by systematic screens of protein complexes. Trends in Microbiology. 14: 336-9. PMID 16782340 DOI: 10.1016/j.tim.2006.06.002  0.96
2006 David L, Huber W, Granovskaia M, Toedling J, Palm CJ, Bofkin L, Jones T, Davis RW, Steinmetz LM. A high-resolution map of transcription in the yeast genome Proceedings of the National Academy of Sciences of the United States of America. 103: 5320-5325. PMID 16569694 DOI: 10.1073/pnas.0601091103  0.96
2006 Sinha H, Nicholson BP, Steinmetz LM, McCusker JH. Complex genetic interactions in a quantitative trait locus. Plos Genetics. 2: e13. PMID 16462944 DOI: 10.1371/journal.pgen.0020013  0.96
2005 Jensen LJ, Steinmetz LM. Re-analysis of data and its integration. Febs Letters. 579: 1802-7. PMID 15763555 DOI: 10.1016/j.febslet.2005.02.006  0.96
2005 Gu Z, David L, Petrov D, Jones T, Davis RW, Steinmetz LM. Elevated evolutionary rates in the laboratory strain of Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America. 102: 1092-7. PMID 15647350 DOI: 10.1073/pnas.0409159102  0.96
2004 Prokisch H, Scharfe C, Camp DG, Xiao W, David L, Andreoli C, Monroe ME, Moore RJ, Gritsenko MA, Kozany C, Hixson KK, Mottaz HM, Zischka H, Ueffing M, Herman ZS, ... ... Steinmetz LM, et al. Integrative analysis of the mitochondrial proteome in yeast. Plos Biology. 2: e160. PMID 15208715 DOI: 10.1371/journal.pbio.0020160  0.96
2004 Steinmetz LM, Davis RW. Maximizing the potential of functional genomics. Nature Reviews. Genetics. 5: 190-201. PMID 14970821 DOI: 10.1038/nrg1293  0.96
2003 Gu Z, Steinmetz LM, Gu X, Scharfe C, Davis RW, Li WH. Role of duplicate genes in genetic robustness against null mutations. Nature. 421: 63-6. PMID 12511954 DOI: 10.1038/nature01198  0.96
2002 Steinmetz LM, Deutschbauer AM. Gene function on a genomic scale. Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences. 782: 151-63. PMID 12458004 DOI: 10.1016/S1570-0232(02)00549-4  0.96
2002 Steinmetz LM, Scharfe C, Deutschbauer AM, Mokranjac D, Herman ZS, Jones T, Chu AM, Giaever G, Prokisch H, Oefner PJ, Davis RW. Systematic screen for human disease genes in yeast. Nature Genetics. 31: 400-4. PMID 12134146 DOI: 10.1038/ng929  0.96
2002 Fraser HB, Hirsh AE, Steinmetz LM, Scharfe C, Feldman MW. Evolutionary rate in the protein interaction network. Science (New York, N.Y.). 296: 750-2. PMID 11976460 DOI: 10.1126/science.1068696  0.96
2002 Steinmetz LM, Sinha H, Richards DR, Spiegelman JI, Oefner PJ, McCusker JH, Davis RW. Dissecting the architecture of a quantitative trait locus in yeast. Nature. 416: 326-30. PMID 11907579 DOI: 10.1038/416326a  0.96
2001 Cho RJ, Huang M, Campbell MJ, Dong H, Steinmetz L, Sapinoso L, Hampton G, Elledge SJ, Davis RW, Lockhart DJ. Transcriptional regulation and function during the human cell cycle. Nature Genetics. 27: 48-54. PMID 11137997 DOI: 10.1038/83751  0.96
2000 Steinmetz LM, Davis RW. High-density arrays and insights into genome function. Biotechnology & Genetic Engineering Reviews. 17: 109-46. PMID 11255664  0.96
2000 Steinmetz LM, Mindrinos M, Oefner PJ. Combining genome sequences and new technologies for dissecting the genetics of complex phenotypes. Trends in Plant Science. 5: 397-401. PMID 10973096 DOI: 10.1016/S1360-1385(00)01724-6  0.96
1998 Cho RJ, Campbell MJ, Winzeler EA, Steinmetz L, Conway A, Wodicka L, Wolfsberg TG, Gabrielian AE, Landsman D, Lockhart DJ, Davis RW. A genome-wide transcriptional analysis of the mitotic cell cycle. Molecular Cell. 2: 65-73. PMID 9702192  0.96
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