The Gorkin Laboratory

@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},
}

@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{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},
}

@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},
}

@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},
}

@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},
}

@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},
}