Publications
Publications
Supporting the scientific spirit of transparency, the Stowers Institute for Medical Research makes the data underlying its scientific publications freely accessible to the scientific community. Access to original, unprocessed data allows other scientists to validate and extend findings made by Stowers researchers.
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FGF signaling facilitates post-injury recovery of mouse hematopoietic system.
Zhao M, Ross JT, Itkin T, Perry JM, Venkatraman A, Haug JS, Hembree MJ, Deng CX, Lapidot T, He XC, Li L. Blood. 2012;120:1831-1842.
A computational pipeline for comparative ChIP-seq analyses.
Bardet AF, He Q, Zeitlinger J, Stark A. Nat Protoc. 2012;7:45-61.
Cooperation between both Wnt/ß-catenin and PTEN/PI3K/Akt signaling promotes primitive hematopoietic stem cell self-renewal and expansion.
Perry JM, He XC, Sugimura R, Grindley JC, Haug JS, Ding S, Li L. Genes Dev. 2011;25:1928-1942.
High conservation of transcription factor binding and evidence for combinatorial regulation across six Drosophila species.
He Q, Bardet AF, Patton B, Purvis J, Johnston J, Paulson A, Gogol M, Stark A, Zeitlinger J. Nat Genet. 2011;43:414-420.
Kit-Shp2-Kit signaling acts to maintain a functional hematopoietic stem and progenitor cell pool.
Zhu HH, Ji K, Alderson N, He Z, Li S, Liu W, Zhang DE, Li L, Feng GS. Blood. 2011;117:5350-5361.
Abnormal Wnt signaling and stem cell activation in reactive lymphoid tissue and low-grade marginal zone lymphoma.
Zhang D, O'Neil M F, Cunningham MT, Fan F, Olyaee M, Li L. Leuk Lymphoma. 2010;51:906-910.
Phosphoinositide 3-kinase signaling mediates beta-catenin activation in intestinal epithelial stem and progenitor cells in colitis.
Lee G, Goretsky T, Managlia E, Dirisina R, Singh AP, Brown JB, May R, Yang GY, Ragheb JW, Evers BM, Weber CR, Turner JR, He XC, Katzman RB, Li L, Barrett TA. Gastroenterology. 2010;139:869-881, 881 e861-869.
Mesalamine inhibits epithelial beta-catenin activation in chronic ulcerative colitis.
Brown JB, Lee G, Managlia E, Grimm GR, Dirisina R, Goretsky T, Cheresh P, Blatner NR, Khazaie K, Yang GY, Li L, Barrett TA. Gastroenterology. 2010;138:595-605, 605 e591-593.
Promoter elements associated with RNA Pol II stalling in the Drosophila embryo
Hendrix DA, Hong JW, Zeitlinger J, Rokhsar DS, Levine MS. Proc Natl Acad Sci U S A.2008;105:7762-7767.
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Emerging questions in transcriptional regulation : What are the sequence rules driving gene regulation?
Nora EP, Aerts S, Wittkopp PJ, Bussemaker HJ, Bulyk M, Sinha S, Zeitlinger J, Crocker J, Fuxman Bass JI. Cell Syst. 2023;14:247-251.
Off the deep end: What can deep learning do for the gene expression field?
Raicu AM, Fay JC, Rohner N, Zeitlinger J, Arnosti DN. J Biol Chem. 2023;299:102760.
Seven myths of how transcription factors read the cis-regulatory code
Zeitlinger J. Curr Opin Syst Biol. 2020;23:22-31.
Cori meets Dobzhansky: Evolution and Gene Expression in St. Louis.
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.
Osteoblast ablation burns out functional stem cells.
Zhao M, Li L. Blood. 2015;125:2590-2591.
A high-throughput platform for stem cell niche co-cultures and downstream gene expression analysis.
Gracz AD, Williamson IA, Roche KC, Johnston MJ, Wang F, Wang Y, Attayek PJ, Balowski J, Liu XF, Laurenza RJ, Gaynor LT, Sims CE, Galanko JA, Li L, Allbritton NL, Magness ST. Nat Cell Biol. 2015;17:340-349.
Homing and migration assays of hematopoietic stem/progenitor cells.
He XC, Li Z, Sugimura R, Ross J, Zhao M, Li L. Methods Mol Biol. 2014;1185:279-284.
RNA polymerase II pausing during development.
Gaertner B, Zeitlinger J. Development. 2014;141:1179-1183.
Paused Pol II coordinates tissue morphogenesis in the Drosophila embryo.
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.
To be or not to be a stem cell: dissection of cellular and molecular components of haematopoietic stem cell niches.
Perry JM, Li L. EMBO J. 2012;31:1060-1061.
MAPing the role of Kras mutations in hyperplastic polyps.
Barrett T, Li L. Gastroenterology. 2011;141:799-801.
Bone Metastasis Targets The Endosteal Hematopoietic Stem Cell Niche.
Sugimura R, Li L. IBMS BoneKEy. 2011;8:381-384.
Book review of Evolution, Development, and the Predictable Genome by David L. Stern.
Zeitlinger J. Am J Hum Biol. 2011;43:414-420.
Noncanonical Wnt signaling in vertebrate development, stem cells, and diseases.
Sugimura R, Li L. Birth Defects Res C Embryo Today. 2010;90:243-256.
Fountain of Youth: aged blood-forming stem cells could be rejuvenated by young microenvironment.
Yin T, Li L. Cell Res. 2010;20:504-505.
Shifting in balance between osteogenesis and adipogenesis substantially influences hematopoiesis.
Sugimura R, Li L. J Mol Cell Biol. 2010;2:61-62.
Functional assays for hematopoietic stem cell self-renewal.
Perry JM, Li L. Methods Mol Biol. 2010;636:45-54.
Developmental gene regulation in the era of genomics.
Zeitlinger J, Stark A. Dev Biol. 2010;339:230-239.
HSC mobilization: new incites and insights.
Ross J, Li L. Blood. 2009;114:1283-1284.
Visualize eHPCs in different zones.
Yin T, Xie Y, Li L. Blood. 2009;114:230-231.
