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Matthew Slattery, Ph.D. - Publications

Affiliations: 
2013- Biomedical Sciences University of Minnesota, Twin Cities, Minneapolis, MN 
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34 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
2020 Zraly CB, Zakkar A, Perez JH, Ng J, White KP, Slattery M, Dingwall AK. The Drosophila MLR COMPASS complex is essential for programming cis-regulatory information and maintaining epigenetic memory during development. Nucleic Acids Research. PMID 32052053 DOI: 10.1093/nar/gkaa082  0.4
2018 Newcomb S, Voutev R, Jory A, Delker RK, Slattery M, Mann RS. cis-regulatory architecture of a short-range EGFR organizing center in the Drosophila melanogaster leg. Plos Genetics. 14: e1007568. PMID 30142157 DOI: 10.1371/journal.pgen.1007568  0.96
2015 Zhang Y, Lee JK, Toso EA, Lee JS, Choi SH, Slattery M, Aihara H, Kyba M. DNA-binding sequence specificity of DUX4. Skeletal Muscle. 6: 8. PMID 26823969 DOI: 10.1186/s13395-016-0080-z  0.96
2015 Bieli D, Kanca O, Requena D, Hamaratoglu F, Gohl D, Schedl P, Affolter M, Slattery M, Müller M, Estella C. Establishment of a Developmental Compartment Requires Interactions between Three Synergistic Cis-regulatory Modules. Plos Genetics. 11: e1005376. PMID 26468882 DOI: 10.1371/journal.pgen.1005376  0.96
2015 Abe N, Dror I, Yang L, Slattery M, Zhou T, Bussemaker HJ, Rohs R, Mann RS. Deconvolving the recognition of DNA shape from sequence. Cell. 161: 307-18. PMID 25843630 DOI: 10.1016/j.cell.2015.02.008  0.96
2014 Rhee DY, Cho DY, Zhai B, Slattery M, Ma L, Mintseris J, Wong CY, White KP, Celniker SE, Przytycka TM, Gygi SP, Obar RA, Artavanis-Tsakonas S. Transcription factor networks in Drosophila melanogaster. Cell Reports. 8: 2031-43. PMID 25242320 DOI: 10.1016/j.celrep.2014.08.038  0.96
2014 Boyle AP, Araya CL, Brdlik C, Cayting P, Cheng C, Cheng Y, Gardner K, Hillier LW, Janette J, Jiang L, Kasper D, Kawli T, Kheradpour P, Kundaje A, Li JJ, ... ... Slattery M, et al. Comparative analysis of regulatory information and circuits across distant species. Nature. 512: 453-6. PMID 25164757 DOI: 10.1038/nature13668  0.96
2014 Riley TR, Slattery M, Abe N, Rastogi C, Liu D, Mann RS, Bussemaker HJ. SELEX-seq: a method for characterizing the complete repertoire of binding site preferences for transcription factor complexes. Methods in Molecular Biology (Clifton, N.J.). 1196: 255-78. PMID 25151169 DOI: 10.1007/978-1-4939-1242-1_16  0.96
2014 Slattery M, Zhou T, Yang L, Dantas Machado AC, Gordân R, Rohs R. Absence of a simple code: how transcription factors read the genome. Trends in Biochemical Sciences. 39: 381-99. PMID 25129887 DOI: 10.1016/j.tibs.2014.07.002  0.96
2014 Oh H, Slattery M, Ma L, White KP, Mann RS, Irvine KD. Yorkie promotes transcription by recruiting a histone methyltransferase complex. Cell Reports. 8: 449-59. PMID 25017066 DOI: 10.1016/j.celrep.2014.06.017  0.96
2014 Slattery M, Ma L, Spokony RF, Arthur RK, Kheradpour P, Kundaje A, Nègre N, Crofts A, Ptashkin R, Zieba J, Ostapenko A, Suchy S, Victorsen A, Jameel N, Grundstad AJ, et al. Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster. Genome Research. 24: 1224-35. PMID 24985916 DOI: 10.1101/gr.168807.113  0.96
2014 Arthur RK, Ma L, Slattery M, Spokony RF, Ostapenko A, Nègre N, White KP. Evolution of H3K27me3-marked chromatin is linked to gene expression evolution and to patterns of gene duplication and diversification. Genome Research. 24: 1115-24. PMID 24985914 DOI: 10.1101/gr.162008.113  0.96
2013 Slattery M, Voutev R, Ma L, Nègre N, White KP, Mann RS. Divergent transcriptional regulatory logic at the intersection of tissue growth and developmental patterning. Plos Genetics. 9: e1003753. PMID 24039600 DOI: 10.1371/journal.pgen.1003753  0.96
2013 Hattori T, Taft JM, Swist KM, Luo H, Witt H, Slattery M, Koide A, Ruthenburg AJ, Krajewski K, Strahl BD, White KP, Farnham PJ, Zhao Y, Koide S. Recombinant antibodies to histone post-translational modifications. Nature Methods. 10: 992-5. PMID 23955773 DOI: 10.1038/nmeth.2605  0.96
2013 Slattery M, White KP. Enhanced dissection of the regulatory genome. Nature Methods. 10: 710-2. PMID 23900252 DOI: 10.1038/nmeth.2577  0.96
2013 Oh H, Slattery M, Ma L, Crofts A, White KP, Mann RS, Irvine KD. Genome-wide association of Yorkie with chromatin and chromatin-remodeling complexes. Cell Reports. 3: 309-18. PMID 23395637 DOI: 10.1016/j.celrep.2013.01.008  0.96
2012 Jory A, Estella C, Giorgianni MW, Slattery M, Laverty TR, Rubin GM, Mann RS. A survey of 6,300 genomic fragments for cis-regulatory activity in the imaginal discs of Drosophila melanogaster. Cell Reports. 2: 1014-24. PMID 23063361 DOI: 10.1016/j.celrep.2012.09.010  0.96
2012 Slattery M, Nègre N, White KP. Interpreting the regulatory genome: the genomics of transcription factor function in Drosophila melanogaster. Briefings in Functional Genomics. 11: 336-46. PMID 23023663 DOI: 10.1093/bfgp/els034  0.96
2012 Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, DeSalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, ... ... Slattery M, et al. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Research. 22: 1813-31. PMID 22955991 DOI: 10.1101/gr.136184.111  0.96
2012 Lelli KM, Slattery M, Mann RS. Disentangling the many layers of eukaryotic transcriptional regulation. Annual Review of Genetics. 46: 43-68. PMID 22934649 DOI: 10.1146/annurev-genet-110711-155437  0.96
2012 Nagaraj R, Gururaja-Rao S, Jones KT, Slattery M, Negre N, Braas D, Christofk H, White KP, Mann R, Banerjee U. Control of mitochondrial structure and function by the Yorkie/YAP oncogenic pathway. Genes & Development. 26: 2027-37. PMID 22925885 DOI: 10.1101/gad.183061.111  0.96
2012 Chen Y, Negre N, Li Q, Mieczkowska JO, Slattery M, Liu T, Zhang Y, Kim TK, He HH, Zieba J, Ruan Y, Bickel PJ, Myers RM, Wold BJ, White KP, et al. Systematic evaluation of factors influencing ChIP-seq fidelity. Nature Methods. 9: 609-14. PMID 22522655 DOI: 10.1038/nmeth.1985  0.96
2012 Gao W, Brown C, Grossman RL, Ma L, Slattery M, White KP, Yu PS. Discovering geometric patterns in genomic data 2012 Acm Conference On Bioinformatics, Computational Biology and Biomedicine, Bcb 2012. 147-154. DOI: 10.1145/2382936.2382955  0.96
2011 Slattery M, Riley T, Liu P, Abe N, Gomez-Alcala P, Dror I, Zhou T, Rohs R, Honig B, Bussemaker HJ, Mann RS. Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins. Cell. 147: 1270-82. PMID 22153072 DOI: 10.1016/j.cell.2011.10.053  0.96
2011 Slattery M, Ma L, Négre N, White KP, Mann RS. Genome-wide tissue-specific occupancy of the Hox protein Ultrabithorax and Hox cofactor Homothorax in Drosophila. Plos One. 6: e14686. PMID 21483663 DOI: 10.1371/journal.pone.0014686  0.96
2009 Peng HW, Slattery M, Mann RS. Transcription factor choice in the Hippo signaling pathway: homothorax and yorkie regulation of the microRNA bantam in the progenitor domain of the Drosophila eye imaginal disc. Genes & Development. 23: 2307-19. PMID 19762509 DOI: 10.1101/gad.1820009  0.96
2008 Affolter M, Slattery M, Mann RS. A lexicon for homeodomain-DNA recognition. Cell. 133: 1133-5. PMID 18585344 DOI: 10.1016/j.cell.2008.06.008  0.96
2008 Slattery MG, Liko D, Heideman W. Protein kinase A, TOR, and glucose transport control the response to nutrient repletion in Saccharomyces cerevisiae. Eukaryotic Cell. 7: 358-67. PMID 18156291 DOI: 10.1128/EC.00334-07  0.96
2007 Liko D, Slattery MG, Heideman W. Stb3 binds to ribosomal RNA processing element motifs that control transcriptional responses to growth in Saccharomyces cerevisiae. The Journal of Biological Chemistry. 282: 26623-8. PMID 17616518 DOI: 10.1074/jbc.M704762200  0.96
2007 Slattery MG, Heideman W. Coordinated regulation of growth genes in Saccharomyces cerevisiae. Cell Cycle (Georgetown, Tex.). 6: 1210-9. PMID 17495542  0.96
2006 Liko D, Slattery MG, Phillips CL, Heideman W. Using the yeast gene deletion collection to customize gene expression. Biotechniques. 40: 728, 730, 732 passim. PMID 16774115 DOI: 10.2144/000112192  0.96
2006 Slattery MG, Liko D, Heideman W. The function and properties of the Azf1 transcriptional regulator change with growth conditions in Saccharomyces cerevisiae. Eukaryotic Cell. 5: 313-20. PMID 16467472 DOI: 10.1128/EC.5.2.313-320.2006  0.96
2003 Laabs TL, Markwardt DD, Slattery MG, Newcomb LL, Stillman DJ, Heideman W. ACE2 is required for daughter cell-specific G1 delay in Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America. 100: 10275-80. PMID 12937340 DOI: 10.1073/pnas.1833999100  0.96
2003 Newcomb LL, Diderich JA, Slattery MG, Heideman W. Glucose regulation of Saccharomyces cerevisiae cell cycle genes. Eukaryotic Cell. 2: 143-9. PMID 12582131 DOI: 10.1128/EC.2.1.143-149.2003  0.96
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