Raluca Gordan to Transcription Factors
This is a "connection" page, showing publications Raluca Gordan has written about Transcription Factors.
Connection Strength
3.628
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Zhu W, Zhang Y, Sahay H, Wasserman H, Afek A, Williams J, Shaltz S, Johnson C, Pinheiro K, MacAlpine DM, Weninger KR, Erie DA, Jinks-Robertson S, Gord?n R. DNA mutagenesis driven by transcription factor competition with mismatch repair. Cell. 2025 Oct 02; 188(20):5735-5747.e15.
Score: 0.548
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Martin V, Zhao J, Afek A, Mielko Z, Gord?n R. QBiC-Pred: quantitative predictions of transcription factor binding changes due to sequence variants. Nucleic Acids Res. 2019 07 02; 47(W1):W127-W135.
Score: 0.359
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Shen N, Zhao J, Schipper JL, Zhang Y, Bepler T, Leehr D, Bradley J, Horton J, Lapp H, Gordan R. Divergence in DNA Specificity among Paralogous Transcription Factors Contributes to Their Differential In?Vivo Binding. Cell Syst. 2018 Apr 25; 6(4):470-483.e8.
Score: 0.329
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Schipper JL, Gord?n RM. Transcription Factor-DNA Binding Motifs in Saccharomyces cerevisiae: Tools and Resources. Cold Spring Harb Protoc. 2016 11 01; 2016(11).
Score: 0.299
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Munteanu A, Ohler U, Gord?n R. COUGER--co-factors associated with uniquely-bound genomic regions. Nucleic Acids Res. 2014 Jul; 42(Web Server issue):W461-7.
Score: 0.252
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Mordelet F, Horton J, Hartemink AJ, Engelhardt BE, Gord?n R. Stability selection for regression-based models of transcription factor-DNA binding specificity. Bioinformatics. 2013 Jul 01; 29(13):i117-25.
Score: 0.237
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Gord?n R, Murphy KF, McCord RP, Zhu C, Vedenko A, Bulyk ML. Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights. Genome Biol. 2011 Dec 21; 12(12):R125.
Score: 0.213
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Miller HB, Robinson TJ, Gord?n R, Hartemink AJ, Garcia-Blanco MA. Identification of Tat-SF1 cellular targets by exon array analysis reveals dual roles in transcription and splicing. RNA. 2011 Apr; 17(4):665-74.
Score: 0.201
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Bonnell VA, Zhang Y, Brown AS, Horton J, Josling GA, Chiu TP, Rohs R, Mahony S, Gord?n R, Llin?s M. DNA sequence and chromatin differentiate sequence-specific transcription factor binding in the human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 2024 Sep 23; 52(17):10161-10179.
Score: 0.129
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Horton CA, Alexandari AM, Hayes MGB, Marklund E, Schaepe JM, Aditham AK, Shah N, Suzuki PH, Shrikumar A, Afek A, Greenleaf WJ, Gord?n R, Zeitlinger J, Kundaje A, Fordyce PM. Short tandem repeats bind transcription factors to tune eukaryotic gene expression. Science. 2023 09 22; 381(6664):eadd1250.
Score: 0.120
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Mielko Z, Zhang Y, Sahay H, Liu Y, Schaich MA, Schnable B, Morrison AM, Burdinski D, Adar S, Pufall M, Van Houten B, Gord?n R, Afek A. UV irradiation remodels the specificity landscape of transcription factors. Proc Natl Acad Sci U S A. 2023 03 14; 120(11):e2217422120.
Score: 0.116
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Sun T, Ding CC, Zhang Y, Zhang Y, Lin CC, Wu J, Setayeshpour Y, Coggins S, Shepard C, Macias E, Kim B, Zhou P, Gord?n R, Chi JT. MESH1 knockdown triggers proliferation arrest through TAZ repression. Cell Death Dis. 2022 03 10; 13(3):221.
Score: 0.108
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Liu M, Boot A, Ng AWT, Gord?n R, Rozen SG. Mutational processes in cancer preferentially affect binding of particular transcription factors. Sci Rep. 2021 02 08; 11(1):3339.
Score: 0.100
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Afek A, Shi H, Rangadurai A, Sahay H, Senitzki A, Xhani S, Fang M, Salinas R, Mielko Z, Pufall MA, Poon GMK, Haran TE, Schumacher MA, Al-Hashimi HM, Gord?n R. DNA mismatches reveal conformational penalties in protein-DNA recognition. Nature. 2020 11; 587(7833):291-296.
Score: 0.098
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Sparks EE, Drapek C, Gaudinier A, Li S, Ansariola M, Shen N, Hennacy JH, Zhang J, Turco G, Petricka JJ, Foret J, Hartemink AJ, Gord?n R, Megraw M, Brady SM, Benfey PN. Establishment of Expression in the SHORTROOT-SCARECROW Transcriptional Cascade through Opposing Activities of Both Activators and Repressors. Dev Cell. 2016 12 05; 39(5):585-596.
Score: 0.075
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Barrera LA, Vedenko A, Kurland JV, Rogers JM, Gisselbrecht SS, Rossin EJ, Woodard J, Mariani L, Kock KH, Inukai S, Siggers T, Shokri L, Gord?n R, Sahni N, Cotsapas C, Hao T, Yi S, Kellis M, Daly MJ, Vidal M, Hill DE, Bulyk ML. Survey of variation in human transcription factors reveals prevalent DNA binding changes. Science. 2016 Mar 25; 351(6280):1450-1454.
Score: 0.072
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Zhou T, Shen N, Yang L, Abe N, Horton J, Mann RS, Bussemaker HJ, Gord?n R, Rohs R. Quantitative modeling of transcription factor binding specificities using DNA shape. Proc Natl Acad Sci U S A. 2015 Apr 14; 112(15):4654-9.
Score: 0.067
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Afek A, Schipper JL, Horton J, Gord?n R, Lukatsky DB. Protein-DNA binding in the absence of specific base-pair recognition. Proc Natl Acad Sci U S A. 2014 Dec 02; 111(48):17140-5.
Score: 0.065
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Slattery M, Zhou T, Yang L, Dantas Machado AC, Gord?n R, Rohs R. Absence of a simple code: how transcription factors read the genome. Trends Biochem Sci. 2014 Sep; 39(9):381-99.
Score: 0.064
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Yang L, Zhou T, Dror I, Mathelier A, Wasserman WW, Gord?n R, Rohs R. TFBSshape: a motif database for DNA shape features of transcription factor binding sites. Nucleic Acids Res. 2014 Jan; 42(Database issue):D148-55.
Score: 0.061
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Gord?n R, Pyne S, Bulyk ML. Identification of cell cycle-regulated, putative hyphal genes in Candida albicans. Pac Symp Biocomput. 2012; 299-310.
Score: 0.053
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Barrera J, Song L, Gamache JE, Garrett ME, Safi A, Yun Y, Premasinghe I, Sprague D, Chipman D, Li J, Fradin H, Soldano K, Gord?n R, Ashley-Koch AE, Crawford GE, Chiba-Falek O. Sex dependent glial-specific changes in the chromatin accessibility landscape in late-onset Alzheimer's disease brains. Mol Neurodegener. 2021 08 24; 16(1):58.
Score: 0.026
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Medina EM, Turner JJ, Gord?n R, Skotheim JM, Buchler NE. Punctuated evolution and transitional hybrid network in an ancestral cell cycle of fungi. Elife. 2016 05 10; 5.
Score: 0.018
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Afek A, Cohen H, Barber-Zucker S, Gord?n R, Lukatsky DB. Nonconsensus Protein Binding to Repetitive DNA Sequence Elements Significantly Affects Eukaryotic Genomes. PLoS Comput Biol. 2015 Aug; 11(8):e1004429.
Score: 0.017