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Galip G. Yardimci, Ph.D. - Publications

Affiliations: 
2014 Computational Biology and Bioinformatics Duke University, Durham, NC 
Area:
Bioinformatics, Computer Science, Statistics
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15 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
2023 Agarwal V, Inoue F, Schubach M, Martin BK, Dash PM, Zhang Z, Sohota A, Noble WS, Yardimci GG, Kircher M, Shendure J, Ahituv N. Massively parallel characterization of transcriptional regulatory elements in three diverse human cell types. Biorxiv : the Preprint Server For Biology. PMID 36945371 DOI: 10.1101/2023.03.05.531189  0.351
2020 Kim HJ, Yardımcı GG, Bonora G, Ramani V, Liu J, Qiu R, Lee C, Hesson J, Ware CB, Shendure J, Duan Z, Noble WS. Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data. Plos Computational Biology. 16: e1008173. PMID 32946435 DOI: 10.1371/Journal.Pcbi.1008173  0.378
2019 Bertero A, Fields PA, Ramani V, Bonora G, Yardimci GG, Reinecke H, Pabon L, Noble WS, Shendure J, Murry CE. Dynamics of genome reorganization during human cardiogenesis reveal an RBM20-dependent splicing factory. Nature Communications. 10: 1538. PMID 30948719 DOI: 10.1038/S41467-019-09483-5  0.44
2019 Yardımcı GG, Ozadam H, Sauria MEG, Ursu O, Yan KK, Yang T, Chakraborty A, Kaul A, Lajoie BR, Song F, Zhan Y, Ay F, Gerstein M, Kundaje A, Li Q, et al. Measuring the reproducibility and quality of Hi-C data. Genome Biology. 20: 57. PMID 30890172 DOI: 10.1186/S13059-019-1658-7  0.365
2018 Dixon JR, Xu J, Dileep V, Zhan Y, Song F, Le VT, Yardımcı GG, Chakraborty A, Bann DV, Wang Y, Clark R, Zhang L, Yang H, Liu T, Iyyanki S, et al. Integrative detection and analysis of structural variation in cancer genomes. Nature Genetics. PMID 30202056 DOI: 10.1038/S41588-018-0195-8  0.363
2018 Lin D, Bonora G, Yardımcı GG, Noble WS. Computational methods for analyzing and modeling genome structure and organization. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. e1435. PMID 30022617 DOI: 10.1002/Wsbm.1435  0.313
2018 Ursu O, Boley N, Taranova M, Wang YXR, Yardimci GG, Noble WS, Kundaje A. GenomeDISCO: A concordance score for chromosome conformation capture experiments using random walks on contact map graphs. Bioinformatics (Oxford, England). PMID 29554289 DOI: 10.1093/Bioinformatics/Bty164  0.313
2017 Yang T, Zhang F, Yardimci GG, Song F, Hardison RC, Noble WS, Yue F, Li Q. HiCRep: assessing the reproducibility of Hi-C data using a stratum- adjusted correlation coefficient. Genome Research. PMID 28855260 DOI: 10.1101/Gr.220640.117  0.336
2017 Yardımcı GG, Noble WS. Software tools for visualizing Hi-C data. Genome Biology. 18: 26. PMID 28159004 DOI: 10.1186/S13059-017-1161-Y  0.309
2015 Yardımcı GG, Noble WS. Predictive model of 3D domain formation via CTCF-mediated extrusion. Proceedings of the National Academy of Sciences of the United States of America. 112: 14404-5. PMID 26567152 DOI: 10.1073/Pnas.1519849112  0.388
2015 Moreno-Risueno MA, Sozzani R, Yardımcı GG, Petricka JJ, Vernoux T, Blilou I, Alonso J, Winter CM, Ohler U, Scheres B, Benfey PN. Transcriptional control of tissue formation throughout root development. Science (New York, N.Y.). 350: 426-30. PMID 26494755 DOI: 10.1126/Science.Aad1171  0.482
2012 Tewari AK, Yardimci GG, Shibata Y, Sheffield NC, Song L, Taylor BS, Georgiev SG, Coetzee GA, Ohler U, Furey TS, Crawford GE, Febbo PG. Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity. Genome Biology. 13: R88. PMID 23034120 DOI: 10.1186/Gb-2012-13-10-R88  0.534
2012 Natarajan A, Yardimci GG, Sheffield NC, Crawford GE, Ohler U. Predicting cell-type-specific gene expression from regions of open chromatin. Genome Research. 22: 1711-22. PMID 22955983 DOI: 10.1101/Gr.135129.111  0.541
2012 Tewari A, Yardimci G, Shibata Y, Sheffield N, Song L, Taylor B, Coetzee G, Furey T, Crawford G, Febbo P. Abstract A12: Chromatin accessibility reveals insight into androgen receptor activation and transcriptional specificity Cancer Research. 72: A12-A12. DOI: 10.1158/1538-7445.Prca2012-A12  0.421
2012 Tewari AK, Yardimci GG, Crawford GE, Febbo PG. Abstract 2923: Androgen receptor activation changes chromatin structure and transcriptional activation Cancer Research. 72: 2923-2923. DOI: 10.1158/1538-7445.Am2012-2923  0.46
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