@article{cooper2026smarcb1,title={SMARCB1 missense mutants disrupt SWI/SNF complex stability and remodeling activity},author={Cooper, Garrett W. and Lee, Brian P. and Kim, Woo Jae and Su, Yifan and Chen, Victor Z. and Salas, Elizabeth and Yang, Xu and Lintner, Robert E. and Piccioni, Federica and Giacomelli, Andrew O. and Howard, Thomas P. and Bagchi, Pritha and Conneely, Karen N. and Root, David E. and Liang, Bo and Gumbart, James C. and Hahn, William C. and Gorkin, David U. and Biegel, Jaclyn A. and Chi, Susan N. and Hong, Andrew L.},journal={Nature Communications},volume={17},number={1},year={2026},month=apr,doi={10.1038/s41467-026-71531-8},}
BAF complexes maintain accessibility at stimulus-responsive chromatin and are required for transcriptional stimulus responses
Alexander O. D. Gulka, Kihoon Alan Kang, Ziben Zhou, and David U. Gorkin
@article{gulka2026baf,title={{BAF} complexes maintain accessibility at stimulus-responsive chromatin and are required for transcriptional stimulus responses},author={Gulka, Alexander O. D. and Kang, Kihoon Alan and Zhou, Ziben and Gorkin, David U.},journal={bioRxiv},year={2026},month=mar,note={Preprint},doi={10.64898/2026.03.19.712964},}
2025
Generation and characterization of a knockout mouse of an enhancer of EBF3
Elizabeth Cordova Hurtado, Janine M. Wotton, Alexander Gulka, Chelsea Burke, Jenny K. Ng, and 8 more authors
@article{cordovahurtado2025ebf3,title={Generation and characterization of a knockout mouse of an enhancer of {EBF3}},author={Cordova Hurtado, Elizabeth and Wotton, Janine M. and Gulka, Alexander and Burke, Chelsea and Ng, Jenny K. and Bah, Ismail and Manuel, Justin and Heins, Hillary and Murray, Stephen A. and Gorkin, David U. and White, Jacqueline K. and Peterson, Kevin A. and Turner, Tychele N.},journal={Biology Open},volume={14},number={11},year={2025},month=nov,doi={10.1242/bio.062070},}
The spectrum of gene intolerance to variation: Insights from a rare disease cohort
Pilar Cacheiro, Giovanni Marengo, David U. Gorkin, Kevin A. Peterson, Yonina Loskove, and 2 more authors
@article{cacheiro2025intolerance,title={The spectrum of gene intolerance to variation: Insights from a rare disease cohort},author={Cacheiro, Pilar and Marengo, Giovanni and Gorkin, David U. and Peterson, Kevin A. and Loskove, Yonina and Murray, Stephen A. and Smedley, Damian},journal={medRxiv},year={2025},month=jan,note={Preprint},doi={10.1101/2025.01.28.25321201},}
Integrative analysis of the 3D genome and epigenome in mouse embryonic tissues
Miao Yu, Nathan R. Zemke, Ziyin Chen, Ivan Juric, Rong Hu, and 15 more authors
@article{yu2025integrative,title={Integrative analysis of the 3D genome and epigenome in mouse embryonic tissues},author={Yu, Miao and Zemke, Nathan R. and Chen, Ziyin and Juric, Ivan and Hu, Rong and Raviram, Ramya and Abnousi, Armen and Fang, Rongxin and Zhang, Yanxiao and Gorkin, David U. and Li, Yang and Zhao, Yuan and Lee, Lindsay and Schmitt, Anthony D. and Qiu, Yunjiang and Dickel, Diane E. and Visel, Axel and Pennacchio, Len A. and Hu, Ming and Ren, Bing},journal={Nature Structural \& Molecular Biology},year={2025},month=mar,}
2024
Removing unwanted variation between samples in Hi-C experiments
Kipper Fletez-Brant, Yunjiang Qiu, David U. Gorkin, Ming Hu, and Kasper D. Hansen
@article{fletezbrant2024hic,title={Removing unwanted variation between samples in {Hi-C} experiments},author={Fletez-Brant, Kipper and Qiu, Yunjiang and Gorkin, David U. and Hu, Ming and Hansen, Kasper D.},journal={Briefings in Bioinformatics},year={2024},month=mar,}
2023
Mapping genetic effects on cell type-specific chromatin accessibility and annotating complex immune trait variants using single nucleus ATAC-seq in peripheral blood
Paola Benaglio, Jacklyn Newsome, Jee Yun Han, Joshua Chiou, Anthony Aylward, and 7 more authors
@article{benaglio2023pbmc,title={Mapping genetic effects on cell type-specific chromatin accessibility and annotating complex immune trait variants using single nucleus {ATAC-seq} in peripheral blood},author={Benaglio, Paola and Newsome, Jacklyn and Han, Jee Yun and Chiou, Joshua and Aylward, Anthony and Corban, Sharlene and Miller, Michael and Okino, Mei-Lin and Kaur, Jaspreet and Preissl, Sebastian and Gorkin, David U. and Gaulton, Kyle J.},journal={PLoS Genetics},year={2023},month=jun,}
The EN-TEx resource of multi-tissue personal epigenomes & variant-impact models
@article{rozowsky2023entex,title={The {EN-TEx} resource of multi-tissue personal epigenomes \& variant-impact models},author={Rozowsky, Joel and others},journal={Cell},year={2023},month=mar,}
2022
Multi-ancestry genetic study of type 2 diabetes highlights the power of diverse populations for discovery and translation
@article{mahajan2022t2d,title={Multi-ancestry genetic study of type 2 diabetes highlights the power of diverse populations for discovery and translation},author={Mahajan, Anubha and others},journal={Nature Genetics},year={2022},month=may,}
Rapid changes in chromatin structure during dedifferentiation of primary hepatocytes in vitro
Mark Seirup, Srirupa Sengupta, Scott Swanson, Brian E. McIntosh, Michael Collins, and 8 more authors
@article{seirup2022hepatocytes,title={Rapid changes in chromatin structure during dedifferentiation of primary hepatocytes in vitro},author={Seirup, Mark and Sengupta, Srirupa and Swanson, Scott and McIntosh, Brian E. and Collins, Michael and Chu, Li-Fang and Cheng, Zhen and Gorkin, David U. and Duffin, Bret and Bolin, Jennifer M. and Argus, Cara and Stewart, Ron and Thomson, James A.},journal={Genomics},year={2022},month=mar,}
2021
An atlas of gene regulatory elements in adult mouse cerebrum
Yang Eric Li, Sebastian Preissl, Xiaomeng Hou, Ziyang Zhang, Kai Zhang, and 23 more authors
@article{li2021cerebrum,title={An atlas of gene regulatory elements in adult mouse cerebrum},author={Li, Yang Eric and Preissl, Sebastian and Hou, Xiaomeng and Zhang, Ziyang and Zhang, Kai and Qiu, Yunjiang and Poirion, Olivier B. and Li, Bin and Chiou, Joshua and Liu, Hanqing and Pinto-Duarte, Antonio and Kubo, Naoki and Yang, Xiaoyu and Fang, Rongxin and Wang, Xinxin and Han, Jee Yun and Lucero, Jacinta and Yan, Yang and Miller, Michael and Kuan, Sebastian and Gorkin, David and Gaulton, Kyle J. and Shen, Yin and Nunn, Michael and Mukamel, Eran A. and Behrens, M. Margarita and Ecker, Joseph R. and Ren, Bing},journal={Nature},volume={598},number={7879},pages={129--136},year={2021},month=oct,doi={10.1038/s41586-021-03604-1},}
Coding and noncoding variants in EBF3 are involved in HADDS and simplex autism
Evin M. Padhi, Tristan J. Hayeck, Zhen Cheng, Sanjukta Chatterjee, Brandon J. Mannion, and 30 more authors
@article{padhi2021ebf3,title={Coding and noncoding variants in {EBF3} are involved in {HADDS} and simplex autism},author={Padhi, Evin M. and Hayeck, Tristan J. and Cheng, Zhen and Chatterjee, Sanjukta and Mannion, Brandon J. and Byrska-Bishop, Marta and Willems, Marjolaine and Pinson, Lucile and Redon, Sylvie and Benech, Caroline and Uguen, Kevin and Audebert-Bellanger, Severine and Le Marechal, Cedric and F{\'e}rec, Claude and Efthymiou, Stephanie and Rahman, Faisal and Maqbool, Shazia and Maroofian, Reza and Houlden, Henry and Musunuri, Rajeeva and Narzisi, Giuseppe and Abhyankar, Avinash and Hunter, Ryan D. and Akiyama, Jennifer and Fries, Lauren E. and Ng, Jenny K. and Mehinovic, Emir and Stong, Nicholas and Allen, Andrew S. and Dickel, Diane E. and Bernier, Raphael A. and Gorkin, David U. and Pennacchio, Len A. and Zody, Michael C. and Turner, Tychele N.},journal={Human Genomics},volume={15},number={1},pages={44},year={2021},month=jul,doi={10.1186/s40246-021-00342-3},}
Interpreting type 1 diabetes risk with genetics and single-cell epigenomics
Joshua Chiou, Ryan J. Geusz, Mei-Lin Okino, Jee Yun Han, Michael Miller, and 11 more authors
@article{chiou2021t1d,title={Interpreting type 1 diabetes risk with genetics and single-cell epigenomics},author={Chiou, Joshua and Geusz, Ryan J. and Okino, Mei-Lin and Han, Jee Yun and Miller, Michael and Melton, Rebecca and Beebe, Elisha and Benaglio, Paola and Huang, Serina and Korgaonkar, Katherine and Heller, Sandra and Kleger, Alexander and Preissl, Sebastian and Gorkin, David U. and Sander, Maike and Gaulton, Kyle J.},journal={Nature},volume={594},number={7863},pages={398--402},year={2021},month=jun,doi={10.1038/s41586-021-03552-w},}
Single-cell chromatin accessibility identifies pancreatic islet cell type- and state-specific regulatory programs of diabetes risk
Joshua Chiou, Chun Zeng, Zhen Cheng, Jee Yun Han, Michael Schlichting, and 15 more authors
@article{chiou2021islets,title={Single-cell chromatin accessibility identifies pancreatic islet cell type- and state-specific regulatory programs of diabetes risk},author={Chiou, Joshua and Zeng, Chun and Cheng, Zhen and Han, Jee Yun and Schlichting, Michael and Miller, Michael and Mendez, Ryan and Huang, Serina and Wang, Jinzhao and Sui, Yinghui and Deogaygay, Allison and Okino, Mei-Lin and Qiu, Yunjiang and Sun, Yang and Kudtarkar, Parul and Fang, Rongxin and Preissl, Sebastian and Sander, Maike and Gorkin, David U. and Gaulton, Kyle J.},journal={Nature Genetics},volume={53},number={4},pages={455--466},year={2021},month=apr,doi={10.1038/s41588-021-00823-0},}
@article{kubo2021ctcf,title={Promoter-proximal {CTCF} binding promotes distal enhancer-dependent gene activation},author={Kubo, Naoki and Ishii, Haruhiko and Xiong, Xiong and Bianco, Simona and Meitinger, Franz and Hu, Rong and Hocker, James D. and Conte, Mattia and Gorkin, David and Yu, Miao and Li, Bin and Dixon, Jesse R. and Hu, Ming and Nicodemi, Mario and Zhao, Hongyu and Ren, Bing},journal={Nature Structural \& Molecular Biology},volume={28},number={2},pages={152--161},year={2021},month=feb,doi={10.1038/s41594-020-00539-5},}
Before 2021
Expanded encyclopaedias of DNA elements in the human and mouse genomes
ENCODE Project Consortium, Jill E. Moore, Michael J. Purcaro, Henry E. Pratt, Charles B. Epstein, and 6 more authors
@article{encode2020,title={Expanded encyclopaedias of {DNA} elements in the human and mouse genomes},author={{ENCODE Project Consortium} and Moore, Jill E. and Purcaro, Michael J. and Pratt, Henry E. and Epstein, Charles B. and Shoresh, Noam and Adrian, Jessika and Kawli, Trupti and Davis, Carrie A. and Dobin, Alexander and others},journal={Nature},volume={583},number={7818},pages={699--710},year={2020},month=jul,doi={10.1038/s41586-020-2493-4},}
Spatiotemporal DNA methylome dynamics of the developing mouse fetus
Yupeng He, Manoj Hariharan, David U. Gorkin, Diane E. Dickel, Chongyuan Luo, and 15 more authors
@article{he2020methylome,title={Spatiotemporal {DNA} methylome dynamics of the developing mouse fetus},author={He, Yupeng and Hariharan, Manoj and Gorkin, David U. and Dickel, Diane E. and Luo, Chongyuan and Castanon, Rosa G. and Nery, Joseph R. and Lee, Ah Young and Zhao, Yuan and Huang, Hui and Williams, Brian A. and Trout, Diane and Amrhein, Henry and Fang, Rongxin and Chen, Huaming and Li, Bin and Visel, Axel and Pennacchio, Len A. and Ren, Bing and Ecker, Joseph R.},journal={Nature},volume={583},number={7818},pages={752--759},year={2020},month=jul,doi={10.1038/s41586-020-2119-x},}
An atlas of dynamic chromatin landscapes in mouse fetal development
David U. Gorkin, Iros Barozzi, Yuan Zhao, Yanxiao Zhang, Hui Huang, and 38 more authors
@article{gorkin2020atlas,title={An atlas of dynamic chromatin landscapes in mouse fetal development},author={Gorkin, David U. and Barozzi, Iros and Zhao, Yuan and Zhang, Yanxiao and Huang, Hui and Lee, Ah Young and Li, Bin and Chiou, Joshua and Wildberg, Andre and Ding, Bo and Zhang, Bin and Wang, Mengchi and Strattan, J. Seth and Davidson, Jean M. and Qiu, Yunjiang and Afzal, Veena and Akiyama, Jennifer A. and Plajzer-Frick, Ingrid and Novak, Catherine S. and Kato, Momoe and Garvin, Tyler H. and Pham, Quan T. and Harrington, Anne N. and Mannion, Brandon J. and Lee, Elizabeth A. and Fukuda-Yuzawa, Yoko and He, Yupeng and Preissl, Sebastian and Chee, Sora and Han, Jee Yun and Williams, Brian A. and Trout, Diane and Amrhein, Henry and Yang, Hongbo and Cherry, J. Michael and Wang, Wei and Gaulton, Kyle and Ecker, Joseph R. and Shen, Yin and Dickel, Diane E. and Visel, Axel and Pennacchio, Len A. and Ren, Bing},journal={Nature},volume={583},number={7818},pages={744--751},year={2020},month=jul,doi={10.1038/s41586-020-2093-3},}
Common DNA sequence variation influences 3-dimensional conformation of the human genome
David U. Gorkin, Yunjiang Qiu, Ming Hu, Kipper Fletez-Brant, Tao Liu, and 8 more authors
@article{gorkin20193d,title={Common {DNA} sequence variation influences 3-dimensional conformation of the human genome},author={Gorkin, David U. and Qiu, Yunjiang and Hu, Ming and Fletez-Brant, Kipper and Liu, Tao and Schmitt, Anthony D. and Noor, Abrar and Chiou, Joshua and Gaulton, Kyle J. and Sebat, Jonathan and Li, Yun and Hansen, Kasper D. and Ren, Bing},journal={Genome Biology},volume={20},number={1},pages={255},year={2019},month=nov,doi={10.1186/s13059-019-1855-4},}
Pancreatic islet chromatin accessibility and conformation reveals distal enhancer networks of type 2 diabetes risk
William W. Greenwald, Joshua Chiou, Jian Yan, Yunjiang Qiu, Nan Dai, and 17 more authors
@article{greenwald2019islet,title={Pancreatic islet chromatin accessibility and conformation reveals distal enhancer networks of type 2 diabetes risk},author={Greenwald, William W. and Chiou, Joshua and Yan, Jian and Qiu, Yunjiang and Dai, Nan and Wang, Allen and Nariai, Naoki and Aylward, Anthony and Han, Jee Yun and Kadakia, Nikita and Regue, Laura and Okino, Mei-Lin and Drees, Frauke and Kramer, Danielle and Vinckier, Nicholas and Minichiello, Liliana and Gorkin, David and Avruch, Joseph and Frazer, Kelly A. and Sander, Maike and Ren, Bing and Gaulton, Kyle J.},journal={Nature Communications},volume={10},number={1},pages={2078},year={2019},month=may,doi={10.1038/s41467-019-09975-4},}
Multi-platform discovery of haplotype-resolved structural variation in human genomes
Mark J. P. Chaisson, Ashley D. Sanders, Xuefang Zhao, Ankit Malhotra, David Porubsky, and 6 more authors
@article{chaisson2019sv,title={Multi-platform discovery of haplotype-resolved structural variation in human genomes},author={Chaisson, Mark J. P. and Sanders, Ashley D. and Zhao, Xuefang and Malhotra, Ankit and Porubsky, David and Rausch, Tobias and Gardner, Eugene J. and Rodriguez, Oscar L. and Guo, Li and Collins, Ryan L. and others},journal={Nature Communications},volume={10},number={1},pages={1784},year={2019},month=apr,doi={10.1038/s41467-018-08148-z},}
N6-methyladenine DNA Modification in Glioblastoma
Qi Xie, Tao P. Wu, Ryan C. Gimple, Zhen Li, Briana C. Prager, and 24 more authors
@article{xie2018m6a,title={{N6}-methyladenine {DNA} Modification in Glioblastoma},author={Xie, Qi and Wu, Tao P. and Gimple, Ryan C. and Li, Zhen and Prager, Briana C. and Wu, Qiulian and Yu, Yang and Wang, Pengcheng and Wang, Yinsheng and Gorkin, David U. and Zhang, Chun and Dowiak, Andrew V. and Lin, Kaimo and Zeng, Chun and Sui, Yinghui and Kim, Leo J. Y. and Miller, Tyler E. and Jiang, Li and Lee-Poturalski, Christopher and Huang, Zhi and Fang, Xiaoguang and Zhai, Kui and Mack, Stephen C. and Sander, Maike and Bao, Shideng and Kerstetter-Fogle, Amber E. and Sloan, Andrew E. and Xiao, Andrew Z. and Rich, Jeremy N.},journal={Cell},volume={175},number={5},pages={1228--1243.e20},year={2018},month=nov,doi={10.1016/j.cell.2018.10.006},}
Single-nucleus analysis of accessible chromatin in developing mouse forebrain reveals cell-type-specific transcriptional regulation
Sebastian Preissl, Rongxin Fang, Hui Huang, Yuan Zhao, Ramya Raviram, and 10 more authors
@article{preissl2018snatac,title={Single-nucleus analysis of accessible chromatin in developing mouse forebrain reveals cell-type-specific transcriptional regulation},author={Preissl, Sebastian and Fang, Rongxin and Huang, Hui and Zhao, Yuan and Raviram, Ramya and Gorkin, David U. and Zhang, Yanxiao and Sos, Brandon C. and Afzal, Veena and Dickel, Diane E. and Kuan, Sebastian and Visel, Axel and Pennacchio, Len A. and Zhang, Kun and Ren, Bing},journal={Nature Neuroscience},volume={21},number={3},pages={432--439},year={2018},month=mar,doi={10.1038/s41593-018-0079-3},}
Improved regulatory element prediction based on tissue-specific local epigenomic signatures
Yupeng He, David U. Gorkin, Diane E. Dickel, Joseph R. Nery, Rosa G. Castanon, and 6 more authors
Proceedings of the National Academy of Sciences, Feb 2017
@article{he2017regelement,title={Improved regulatory element prediction based on tissue-specific local epigenomic signatures},author={He, Yupeng and Gorkin, David U. and Dickel, Diane E. and Nery, Joseph R. and Castanon, Rosa G. and Lee, Ah Young and Shen, Yin and Visel, Axel and Pennacchio, Len A. and Ren, Bing and Ecker, Joseph R.},journal={Proceedings of the National Academy of Sciences},volume={114},number={9},pages={E1633--E1640},year={2017},month=feb,doi={10.1073/pnas.1618353114},}
Genome-wide compendium and functional assessment of in vivo heart enhancers
Diane E. Dickel, Iros Barozzi, Yiwen Zhu, Yoko Fukuda-Yuzawa, Marco Osterwalder, and 16 more authors
@article{dickel2016heart,title={Genome-wide compendium and functional assessment of in vivo heart enhancers},author={Dickel, Diane E. and Barozzi, Iros and Zhu, Yiwen and Fukuda-Yuzawa, Yoko and Osterwalder, Marco and Mannion, Brandon J. and May, Dalit and Spurrell, Cailyn H. and Plajzer-Frick, Ingrid and Pickle, Chad S. and Lee, Elizabeth and Garvin, Tyler H. and Kato, Momoe and Akiyama, Jennifer A. and Afzal, Veena and Lee, Ah Young and Gorkin, David U. and Ren, Bing and Rubin, Edward M. and Visel, Axel and Pennacchio, Len A.},journal={Nature Communications},volume={7},pages={12923},year={2016},month=oct,doi={10.1038/ncomms12923},}
Chromatin Domains: The Unit of Chromosome Organization
@article{dixon2016domains,title={Chromatin Domains: The Unit of Chromosome Organization},author={Dixon, Jesse R. and Gorkin, David U. and Ren, Bing},journal={Molecular Cell},volume={62},number={5},pages={668--680},year={2016},month=jun,doi={10.1016/j.molcel.2016.05.018},note={Review},}
CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function
Ya Guo, Quan Xu, Daniele Canzio, Jia Shou, Jinhuan Li, and 14 more authors
@article{guo2015ctcfinversion,title={{CRISPR} Inversion of {CTCF} Sites Alters Genome Topology and Enhancer/Promoter Function},author={Guo, Ya and Xu, Quan and Canzio, Daniele and Shou, Jia and Li, Jinhuan and Gorkin, David U. and Jung, Inkyung and Wu, Haipeng and Zhai, Yanan and Tang, Yuanxiao and Lu, Yichao and Wu, Yonghu and Jia, Zhilian and Li, Wei and Zhang, Michael Q. and Ren, Bing and Krainer, Adrian R. and Maniatis, Tom and Wu, Qiang},journal={Cell},volume={162},number={4},pages={900--910},year={2015},month=aug,doi={10.1016/j.cell.2015.07.038},}
Genomic analysis reveals distinct mechanisms and functional classes of SOX10-regulated genes in melanocytes
Temesgen D. Fufa, Melissa L. Harris, Dawn E. Watkins-Chow, Dennis Levy, David U. Gorkin, and 9 more authors
@article{fufa2015sox10,title={Genomic analysis reveals distinct mechanisms and functional classes of {SOX10}-regulated genes in melanocytes},author={Fufa, Temesgen D. and Harris, Melissa L. and Watkins-Chow, Dawn E. and Levy, Dennis and Gorkin, David U. and Gildea, Derek E. and Song, Lingyun and Safi, Alexias and Crawford, Gregory E. and Sviderskaya, Elena V. and Bennett, Dorothy C. and McCallion, Andrew S. and Loftus, Stacie K. and Pavan, William J.},journal={Human Molecular Genetics},volume={24},number={19},pages={5433--5450},year={2015},month=oct,doi={10.1093/hmg/ddv267},}
A method to predict the impact of regulatory variants from DNA sequence
Dongwon Lee, David U. Gorkin, Maggie Baker, Benjamin J. Strober, Alessandro L. Asoni, and 2 more authors
@article{lee2015regvariants,title={A method to predict the impact of regulatory variants from {DNA} sequence},author={Lee, Dongwon and Gorkin, David U. and Baker, Maggie and Strober, Benjamin J. and Asoni, Alessandro L. and McCallion, Andrew S. and Beer, Michael A.},journal={Nature Genetics},volume={47},number={8},pages={955--961},year={2015},month=aug,doi={10.1038/ng.3331},}
The 3D genome in transcriptional regulation and pluripotency
@article{gorkin20143d,title={The {3D} genome in transcriptional regulation and pluripotency},author={Gorkin, David U. and Leung, Danny and Ren, Bing},journal={Cell Stem Cell},volume={14},number={6},pages={762--775},year={2014},month=jun,doi={10.1016/j.stem.2014.05.017},note={Review},}
Genetics: Closing the distance on obesity culprits
@article{gorkin2014obesity,title={Genetics: Closing the distance on obesity culprits},author={Gorkin, David U. and Ren, Bing},journal={Nature},volume={507},number={7492},pages={309--310},year={2014},month=mar,doi={10.1038/nature13212},note={News \& Views},}
A polymorphism in IRF4 affects human pigmentation through a tyrosinase-dependent MITF/TFAP2A pathway
Christian Praetorius, Christine Grill, Simon N. Stacey, Alexander M. Metcalf, David U. Gorkin, and 28 more authors
@article{praetorius2013irf4,title={A polymorphism in {IRF4} affects human pigmentation through a tyrosinase-dependent {MITF/TFAP2A} pathway},author={Praetorius, Christian and Grill, Christine and Stacey, Simon N. and Metcalf, Alexander M. and Gorkin, David U. and Robinson, Kathleen C. and Van Otterloo, Eric and Kim, Rachel S. and Bergsteinsdottir, Kristin and Ogmundsdottir, Margret H. and Magnusdottir, Erna and Mishra, Prashant J. and Davis, Sean R. and Guo, Theresa and Zaidi, M. Raza and Helgason, Agnar S. and Sigurdsson, Martin I. and Meltzer, Paul S. and Merlino, Glenn and Petit, V{\'e}ronique and Larue, Lionel and Loftus, Stacie K. and Adams, David R. and Sobhiafshar, Ursula and Emre, N. C. Tolga and Pavan, William J. and Cornell, Robert and Smith, Alison G. and McCallion, Andrew S. and Fisher, David E. and Stefansson, Kari and Sturm, Richard A. and Steingrimsson, Eirikur},journal={Cell},volume={155},number={5},pages={1022--1033},year={2013},month=nov,doi={10.1016/j.cell.2013.10.022},}
Integration of ChIP-seq and machine learning reveals enhancers and a predictive regulatory sequence vocabulary in melanocytes
David U. Gorkin, Dongwon Lee, Xylena Reed, Christopher Fletez-Brant, Seneca L. Bessling, and 4 more authors
@article{gorkin2012chipseq,title={Integration of {ChIP-seq} and machine learning reveals enhancers and a predictive regulatory sequence vocabulary in melanocytes},author={Gorkin, David U. and Lee, Dongwon and Reed, Xylena and Fletez-Brant, Christopher and Bessling, Seneca L. and Loftus, Stacie K. and Beer, Michael A. and Pavan, William J. and McCallion, Andrew S.},journal={Genome Research},volume={22},number={11},pages={2290--2301},year={2012},month=nov,doi={10.1101/gr.139360.112},}
SOX10 directly modulates ERBB3 transcription via an intronic neural crest enhancer
Megana K. Prasad, Xylena Reed, David U. Gorkin, Julia C. Cronin, Anthony R. McAdow, and 9 more authors
@article{prasad2011erbb3,title={{SOX10} directly modulates {ERBB3} transcription via an intronic neural crest enhancer},author={Prasad, Megana K. and Reed, Xylena and Gorkin, David U. and Cronin, Julia C. and McAdow, Anthony R. and Chain, Kelly and Hodonsky, Chani J. and Jones, Elizabeth A. and Svaren, John and Antonellis, Anthony and Johnson, Stephen L. and Loftus, Stacie K. and Pavan, William J. and McCallion, Andrew S.},journal={BMC Developmental Biology},volume={11},pages={40},year={2011},month=jun,doi={10.1186/1471-213X-11-40},}
Knock in of the AKT1 E17K mutation in human breast epithelial cells does not recapitulate oncogenic PIK3CA mutations
Josh Lauring, David P. Cosgrove, Simona Fontana, John P. Gustin, Hiroyuki Konishi, and 12 more authors
@article{lauring2010akt1,title={Knock in of the {AKT1 E17K} mutation in human breast epithelial cells does not recapitulate oncogenic {PIK3CA} mutations},author={Lauring, Josh and Cosgrove, David P. and Fontana, Simona and Gustin, John P. and Konishi, Hiroyuki and Abukhdeir, Abde M. and Garay, Joseph P. and Mohseni, Morassa and Wang, Grace M. and Higgins, Michaela J. and Gorkin, David and Reis, Maria and Vogelstein, Bert and Polyak, Kornelia and Cowherd, Michele and Buckhaults, Phillip J. and Park, Ben Ho},journal={Oncogene},volume={29},number={16},pages={2337--2345},year={2010},month=apr,doi={10.1038/onc.2009.516},}
Oligodendroglial and pan-neural crest expression of Cre recombinase directed by Sox10 enhancer
Z. Elizabeth Stine, Jimmy L. Huynh, Stacie K. Loftus, David U. Gorkin, Amirali H. Salmasi, and 7 more authors
@article{stine2009sox10,title={Oligodendroglial and pan-neural crest expression of {Cre} recombinase directed by {Sox10} enhancer},author={Stine, Z. Elizabeth and Huynh, Jimmy L. and Loftus, Stacie K. and Gorkin, David U. and Salmasi, Amirali H. and Novak, Thomas and Purves, Todd and Miller, Ronald A. and Antonellis, Anthony and Gearhart, John P. and Pavan, William J. and McCallion, Andrew S.},journal={Genesis},volume={47},number={11},pages={765--770},year={2009},month=nov,doi={10.1002/dvg.20559},}
Author corrections and errata are excluded by design. To flag a missing publication, please email Dr. Gorkin.