Zeitlinger Lab Publicaitons

Zeitlinger Lab Publications

 

Original Research Papers

 

Horton CA, Alexandari AM, Hayes MGB, Marklund E, Schaepe JM, Aditham AK, Shah N, Shrikumar A, Afek A, Greenleaf WJ, Gordân R Zeitlinger J, Kundaje A and Fordyce PM.Science. 2023 Sept 22;381(6664):eadd1250. doi: 10.1126/science.add1250. PMID: 37733848
Maven BEJ, Gifford CA, Weilert M, Gonzalez-Teran B, Huttenhain R, Pelonero A, Ivey KN, Samse-Knapp K, Kwong W, Gordon D, McGregor M, Nishino T, Okorie E, Rossman S, Costa MW, Krogan NJ, Zeitlinger J, Srivastava D. Stem Cell Reports. 2023 Nov 14;18(11):2138-2153. doi: 10.1016/j.stemcr.2023.09.014. Epub 2023 Oct 19. PMID: 37863045
Ramalingam V, Yu X, Slaughter BD, Unruh JR, Brennan KJ, Onyshchenko A, Lange JJ, Natarajan M, Buck M, Zeitlinger J. Nat Commun. 2023 Sept 21;14(1):5862. doi: 10.1038/s41467-023-41408-1. PMID: 37735176
Horton CA, Alexandari AM, Hayes MGB, Marklund E, Schaepe JM, Aditham AK, Shah N, Suzuki PH, Shrikumar A, Afek A, Greeleaf WJ, Gordan R, Zeitlinger J, Kundaje A, Fordyce PM. Science. 2023 Sept 22;381(6664)eadd1250. doi: 10.1126/science.add1250. PMID: 37733848

Brennan KJ, Weilert M, Krueger S, Pampari A, Lui HY, Yan AWH, Morrison JA, Hughers TR, Rushlow CA, Kundaje A, Zeitlinger J. Dev Cell. 2023 Aug 3: S1534-5807(23)00347-7. doi: 10.1016/j.devcel.2023.01.001 Online ahead of print. PMID: 37557175
Alexandari AM, Horton CA, Shrikumar A, Shah N, Li E, Weilert M, Pufall MA, Zeitlinger J, Fordyce PM, Kundaje A. bioRxiv. 2023;May 11:2023.05.11.540401. doi: 10.1101/2023.05.11.540401. Preprint. PMID: 37214836

 

Nora EP, Aerts S, Wittkopp PJ, Bussemaker HJ, Bulyk M, Sinha S, Zeitlinger J, Crocker J, Fuxman Bass JI. Cell Syst. 2023 Apr 19:14(4):247-251. doi:10.1016/j.cels.2023.03.005. PMID: 37080160
Raicu AM, Fay JC, Rohner N,Zeitlinger J, Arnosti DN. J Boil Chem. 2023;Jan:299(1):102760. doi: 10.1016/j.jbc.2022.102760. Epub 2022 Nov 30. PMID:36462664
Soffers JHM, Alcantara SG, Li X, Shao W, Seidel CW, Li H, Zeitlinger J, Abmayr SM, Workman JL. PLoS Genet. 2021;17:e1009668. doi: 10.1371/journal.pgen.1009668. PMCID:PMC8648115
Avsec Z, Weilert M, Shrikumar A, Krueger S, Alexandari A, Dalal K, Fropf R, McAnany C, Gagneur J, Kundaje A, Zeitlinger J. Nat Genet. 2021;53:354-366. PMID: 33603233
Ramalingam V, Natarajan M, Johnston J, Zeitlinger J. Mol Syst Biol. 2021;17:e9866. doi: 10.15252/msb.20209866. PMID: 33543829
Tao F, Soffers J, Hu D, Chen S, Gao X, Zhang Y, Zhao C, Smith SE, Unruh JR, Zhang D, Tsuchiya D, Venkatraman A, Zhao M, Li Z, Qian P, Parmely T, He XC, Washburn M, Florens L, Perry JM, Zeitlinger J, Workman J, Li L. Stem Cell Rep. 2020;15:662-676. PMID: 32822591
Vincent BJ, Rice GR, Wong GM, Glassford WJ, Downs KI, Shastay JL, Charles-Obi K, Natarajan M, Gogol M, Zeitlinger J, Rebeiz M. G3 (Bethesda). 2019. doi: 10.1534/g3.119.400788. PMID: 31619460.
Tettey TT, Gao X, Shao W, Story BA, Chitsazan AD, Glaser RL, Seidel CW, Conaway RC, Zeitlinger J, Blanchette M, Conaway JW. Cell Rep. 2019;27:3770-3779 e7. PMID: 31242411
Shao W, Alcantara SG, Zeitlinger J. eLife. 2019;8:e41461. doi: 41410.47554/eLife.41461. PMID: 31021316
Miller DE, Staber C, Zeitlinger J, Hawley RS. G3 (Bethesda). 2018;8:3131-3141. PMID: 30087105
Li Z, Qian P, Shao W, Shi H, He XC, Gogol M, Yu Z, Wang Y, Qi M, Zhu Y, Perry JM, Zhang K, Tao F, Zhou K, Hu D, Han Y, Zhao C, Alexander R, Xu H, Chen S, Peak A, Hall K, Peterson M, Perera A, Haug JS, Parmely T, Li H, Shen B, Zeitlinger J, He C, Li L. Cell Res. 2018. Author Correction: Cell Res 2018:1-14. https://doi.org/10.1038/s41422-018-0072-0. Published online July 2018.;28:904-917.PMID: 30065315
Papagianni A, Fores M, Shao W, He S, Koenecke N, Andreu MJ, Samper N, Paroush Z, Gonzalez-Crespo S, Zeitlinger J, Jimenez G.  Proc Natl Acad Sci U S A.2018;115:1807-1812. PMID: 29432195
De Kumar B, Parker HJ, Paulson A, Parrish ME, Zeitlinger J, Krumlauf R. Dev Biol.2017;432:151-164. PMID: 28982536
De Kumar B, Parker HJ, Paulson A, Parrish ME, Pushel I, Singh NP, Zhang Y, Slaughter BD, Unruh JR, Florens L, Zeitlinger J, Krumlauf R. Genome Res.2017;27:1501-1512. PMID: 28784834

Pascual J, Jacobs J, Sansores-Garcia L, Natarajan M, Zeitlinger J, Aerts S, Halder G, Hamaratoglu F. Dev Cell.2017;42:667-680.e4. PMID: 28950103

 

Shao W, Zeitlinger J. Nat Genet.2017;49:1045-1051. PMID: 28504701
Koenecke N, Johnston J, He Q, Meier S, Zeitlinger J. Genome Res. 2017;27:64-74. PMID: 27979994
Koenecke N, Johnston J, Gaertner B, Natarajan M, Zeitlinger J. Genome Biol. 2016;17:196. PMID: 27678375
Sun Y, Nien CY, Chen K, Liu HY, Johnston J, Zeitlinger J, Rushlow C. Genome Res. 2015;25:1703-14. PMID: 26335633
He Q, Johnston J, Zeitlinger J. Nat Biotechnol. 2015;33:395-401. PMID: 25751057
Wang YL, Duttke SH, Chen K, Johnston J, Kassavetis GA, Zeitlinger J, Kadonaga JT. Genes Dev. 2014;28:1550-1555. PMID: 24958592
Ikmi A, Gaertner B, Seidel C, Srivastava M, Zeitlinger J, Gibson MC. Mol Biol Evol. 2014;31:1375-1390. PMID: 24509725

Bardet AF, Steinmann J, Bafna S, Knoblich JA, Zeitlinger J, Stark A. Bioinformatics. 2013;29:2705-2713. PMID: 23980024

 

Chen K, Johnston J, Shao W, Meier S, Staber C, Zeitlinger J. eLife. 2013;2:e00861. doi: 00810.07554/eLife.00861. PMID: 23951546
Gaertner B, Johnston J, Chen K, Wallaschek N, Paulson A, Garruss AS, Gaudenz K, De Kumar B, Krumlauf R, Zeitlinger J. Cell Rep. 2012;2:1670-1683. PMID: 23260668
Bardet AF, He Q, Zeitlinger J, Stark A. Nat Protoc. 2012;7:45-61. PMID: 22179591

He Q, Bardet AF, Patton B, Purvis J, Johnston J, Paulson A, Gogol M, Stark A, Zeitlinger J. Nat Genet. 2011;43:414-420. PMID: 21478888

Hendrix DA, Hong JW, Zeitlinger J, Rokhsar DS, Levine MS. Proc Natl Acad Sci U S A.2008;105:7762-7767. PMID: 18505835

 


Reviews, Commentaries, Chapters or Books

 

Zeitlinger J. Curr Opin Syst Biol. 2020;23:22-31. PMID: 33134611

Arnosti DN, Fay JC, Zeitlinger J. A report on the "Evolution and Core Processes in Gene Regulation" meeting in St. Louis, June 25-28, 2015. BioEssays. 2015;37:1042-1044. PMID: 26354485

Gaertner B, Zeitlinger J. Development. 2014;141:1179-1183. PMID: 24595285

Lagha M, Bothma JP, Esposito E, Ng S, Stefanik L, Tsui C, Johnston J, Chen K, Gilmour DS, Zeitlinger J, Levine MS. Cell. 2013;153:976-987. PMID: 23706736

Zeitlinger J, Stark A. Dev Biol. 2010;339:230-239. PMID: 20045679