Skip to main content

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.

Filters:

Display results from:

Single-cell reconstruction with spatial context of migrating neural crest cells and their microenvironments during vertebrate head and neck formation

Morrison JA, McLennan R, Teddy JM, Scott AR, Kasemeier-Kulesa JC, Gogol MM, Kulesa PM. Development. 2021;148:dev19468. doi: 19410.11242/dev.199468.

Structural basis of the interaction between SETD2 methyltransferase and hnRNP L paralogs for governing co-transcriptional splicing

Bhattacharya S, Wang S, Reddy D, Shen S, Zhang Y, Zhang N, Li H, Washburn MP, Florens L, Shi Y, Workman JL, Li F. Nat Commun. 2021;12:6452. doi: 6410.1038/s41467-41021-26799-41463.

Elongin functions as a loading factor for Mediator at ATF6alpha-regulated ER stress response genes

He Y, Sato S, Tomomori-Sato C, Chen S, Goode ZH, Conaway JW, Conaway RC. Proc Natl Acad Sci U S A. 2021;118:e2108751118. doi: 10.1073/pnas.2108751118.

Tumor-initiating stem cell shapes its microenvironment into an immunosuppressive barrier and pro-tumorigenic niche

He X, Smith SE, Chen S, Li H, Wu D, Meneses-Giles PI, Wang Y, Hembree M, Yi K, Zhao X, Guo F, Unruh JR, Maddera LE, Yu Z, Scott A, Perera A, Wang Y, Zhao C, Bae K, Box A, Haug JS, Tao F, Hu D, Hansen DM, Qian P, Saha S, Dixon D, Anant S, Zhang D, Lin EH, Sun W, Wiedemann LM, Li L. Cell Rep. 2021;36:109674.doi: 10.1016/j.celrep.2021.109674.

Identification of rare, transient post-mitotic cell states that are induced by injury and required for whole-body regeneration in Schmidtea mediterranea

Benham-Pyle BW, Brewster CE, Kent AM, Mann FG, Jr., Chen S, Scott AR, Box AC, Sánchez Alvarado A. Nat Cell Biol. 2021;23:939-952.

The methyltransferase SETD2 couples transcription and splicing by engaging mRNA processing factors through its SHI domain

Bhattacharya S, Levy MJ, Zhang N, Li H, Florens L, Washburn MP, Workman JL. Nat Commun. 2021;12:1443. doi: 1410.1038/s41467-41021-21663-w.

Multiple Niche Compartments Orchestrate Stepwise Germline Stem Cell Progeny Differentiation

Tu R, Duan B, Song X, Chen S, Scott A, Hall K, Blanck J, DeGraffenreid D, Li H, Perera A, Haug J, Xie T. Curr Biol. 2021;31:827-839 e823.

Genome-Wide Binding Analyses of HOXB1 Revealed a Novel DNA Binding Motif Associated with Gene Repression

Singh NP, De Kumar B, Paulson A, Parrish ME, Scott C, Zhang Y, Florens L, Krumlauf R. [published ahead of print March 4 2021]. Dev Biol. 2021;9.

NOTCH Signaling Controls Ciliary Body Morphogenesis and Secretion by Directly Regulating Nectin Protein Expression

Pang J, Le L, Zhou Y, Tu R, Hou Q, Tsuchiya D, Thomas N, Wang Y, Yu Z, Alexander R, Thexton M, Lewis B, Corbin T, Durnin M, Li H, Ashery-Padan R, Yan D, Xie T. Cell Rep. 2021;34:108603. doi: 108610.101016/j.celrep.102020.108603.

Combined inhibition of RNA polymerase I and mTORC1/2 synergize to combat oral squamous cell carcinoma

Shi S, Luo H, Wang L, Li H, Liang Y, Xia J, Wang Z, Cheng B, Huang L, Liao G, Xu B. Biomed Pharmacother. 2021;133:110906. doi: 110910.111016/j.biopha.112020.110906.

A six-amino-acid motif is a major determinant in functional evolution of HOX1 proteins

Singh NP, De Kumar B, Paulson A, Parrish ME, Zhang Y, Florens L, Conaway JW, Si K, Krumlauf R. Genes Dev. 2020;34:1680-1696.

Comparative transcriptome analysis of wild and lab populations of Astyanax mexicanus uncovers differential effects of environment and morphotype on gene expression

Krishnan J, Persons JL, Peuss R, Hassan H, Kenzior A, Xiong S, Olsen L, Maldonado E, Kowalko JE, Rohner N. J Exp Zool B Mol Dev Evol. 2020;334:530-539.

b-Catenin and Associated Proteins Regulate Lineage Differentiation in Ground State Mouse Embryonic Stem Cells

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.

Changes in regeneration-responsive enhancers shape regenerative capacities in vertebrates

Wang W, Hu CK, Zeng A, Alegre D, Hu D, Gotting K, Ortega Granillo A, Wang Y, Robb S, Schnittker R, Zhang S, Alegre D, Li H, Ross E, Zhang N, Brunet A, Sanchez Alvarado A. Science. 2020;369: eaaz3090. doi: 10.1126/science.aaz3090.

Translation of small downstream ORFs enhances translation of canonical main open reading frames

Wu Q, Wright M, Gogol MM, Bradford WD, Zhang N, Bazzini AA. EMBO J. 2020;39:e104763. doi: 104710../embj.2020104763.

Adaptation to low parasite abundance affects immune investment and immunopathological responses of cavefish

Peuß R, Box AC, Chen S, Wang Y, Tsuchiya D, Persons JL, Kenzior A, Maldonado E, Krishnan J, Scharsack JP, Slaughter BD, Rohner N. Nat Ecol Evol. 2020;4:1416-1430.

The role of Mediator and Little Elongation Complex in transcription termination

Takahashi H, Ranjan A, Chen S, Suzuki H, Shibata M, Hirose T, Hirose H, Sasaki K, Abe R, Chen K, He Y, Zhang Y, Takigawa I, Tsukiyama T, Watanabe M, Fujii S, Iida M, Yamamoto J, Yamaguchi Y, Suzuki Y, Matsumoto M, Nakayama KI, Washburn MP, Saraf A, Florens L, Sato S, Tomomori-Sato C, Conaway RC, Conaway JW, Hatakeyama S. Nat Commun. 2020;11:1063. doi: 10.1038/s41467-020-14849-1.

Drosophila YBX1 homolog YPS promotes ovarian germ line stem cell development by preferentially recognizing 5-methylcytosine RNAs

Zou F, Tu R, Duan B, Yang Z, Ping Z, Song X, Chen S, Price A, Li H, Scott A, Perera A, Li S, Xie T. Proc Natl Acad Sci U S A. 2020;117:3603-3609.

The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.

Shefchek KA, Harris NL, Gargano M, Matentzoglu N, Unni D, Brush M, Keith D, Conlin T, Vasilevsky N, Zhang XA, Balhoff JP, Babb L, Bello SM, Blau H, Bradford Y, Carbon S, Carmody L, Chan LE, Cipriani V, Cuzick A, Rocca MD, Dunn N, Essaid S, Fey P, Grove C, Gourdine JP, Hamosh A, Harris M, Helbig I, Hoatlin M, Joachimiak M, Jupp S, Lett KB, Lewis SE, McNamara C, Pendlington ZM, Pilgrim C, Putman T, Ravanmehr V, Reese J, Riggs E, Robb S, Roncaglia P, Seager J, Segerdell E, Similuk M, Storm AL, Thaxon C, Thessen A, Jacobsen JOB, McMurry JA, Groza T, Kohler S, Smedley D, Robinson PN, Mungall CJ, Haendel MA, Munoz-Torres MC, Osumi-Sutherland D. Nucleic Acids Res. 2020;48:D704-D715.

An atlas of transcription factors expressed in male pupal terminalia of Drosophila melanogaster

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.

Page 2 of 7

Identification and Localization of Cell Types in the Mouse Olfactory Bulb Using Slide-SeqV2

Fang A, Petentler K, Price A, Malloy S, Maddera C, Russell J, Treese M, Li H, Wang Y, McKinney S, Perera A, Yu CR. Methods Mol Biol. 2023;2710:171-183. Published Erratum Methods Mol Biol. 2023;2710:C1. doi: 10.1007/978-1-0716-3425-7_17.

Manipulation of Gene Activity in the Regenerative Model Sea Anemone, Nematostella vectensis

Hill EM, Chen CY, Del Viso F, Ellington LR, He S, Karabulut A, Paulson A, Gibson MC. Methods Mol Biol. 2022;2450:437-465.

Sec66-Dependent Regulation of Yeast Spindle-Pole Body Duplication Through Pom152.

Katta SS, Chen J, Gardner JM, Friederichs JM, Smith SE, Gogol M, Unruh JR, Slaughter BD, Jaspersen SL. Genetics. 2015;201:1479-1495

The Origin and Evolution of G Protein-Coupled Receptor Kinases.

Mushegian A, Gurevich VV, Gurevich EV. PLoS One. 2012;7:e33806.

Computational methods for Gene Orthology inference.

Kristensen DM, Wolf YI, Mushegian AR, Koonin EV. Brief Bioinform. 2011;12:379-391.

Thematic minireview series on computational systems biology.

Mushegian A, Conaway JW. J Biol Chem. 2011;286:23621-23622.

Newsletter & Alerts