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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A transcriptomics-based RNAi screen for regulators of meiosis and early stages of oocyte development in Drosophila melanogaster
Hughes SE, Price A, Briggs S, Staber C, James M, Anderson M, Hawley RS. G3 (Bethesda). 2024 doi: 10.1093/g3journal/jkae028.
Topological structures and syntenic conservation in sea anemone genomes
Zimmermann B, Montenegro JD, Robb SMC, Fropf WJ, Weilguny L, He S, Chen S, Lovegrove-Walsh J, Hill EM, Chen CY, Ragkousi K, Praher D, Fredman D, Schultz D, Moran Y, Simakov O, Genikhovich G, Gibson MC, Technau U. Nat Commun. 2023;14:8270.
3D spheroid culturing of Astyanax mexicanus liver-derived cell lines recapitulates distinct transcriptomic and metabolic states of in vivo tissue environment.
Biswas T, Rajendran N, Hassan H, Li H, Zhao C, Rohner N. [published ahead for print January 9 2024]. J Exp Zool B Mol Dev Evol. 2024.
Metabolic reprogramming underlies cavefish muscular endurance despite loss of muscle mass and contractility
Olsen L, Levy M, Medley JK, Hassan H, Miller B, Alexander R, Wilcock E, Yi K, Florens L, Weaver K, McKinney SA, Peuss R, Persons J, Kenzior A, Maldonado E, Delventhal K, Gluesenkamp A, Mager E, Coughlin D, Rohner N. Proc Natl Acad Sci U S A. 2023;120:e2204427120.
The Swi-Snf chromatin remodeling complex mediates gene repression through metabolic control
Church MC, Price A, Li H, Workman JL. Nucleic Acids Res. 2023;51:10278-10291.
Pathologic polyglutamine aggregation begins with a self-poisoning polymer crystal
Kandola T, Venkatesan S, Zhang J, Lerbakken B, Schulze AV, Blanck JF, Wu J, Unruh J, Berry P, Lange JJ, Box A, Cook M, Sagui C, Halfmann R. eLife 2023;12:RP86939. doi: 10.7554/eLife.86939.
Cavefish mount a rapid and sustained regenerative response following skeletal muscle injury.
Olsen L, Hassan H, Xia F, Keaton S, Rohner N. Zool Res. 2023;44:776-778.
Morphological changes and two Nodal paralogs drive left-right asymmetry in the squamate veiled chameleon (C. calyptratus).
Shylo NA, Smith SE, Price AJ, Guo F, McClain M, Trainor PA. Front Cell Dev Biol. 2023;11:1132166 doi: 10.3389/fcell.2023.1132166.
Shared retinoic acid responsive enhancers coordinately regulate nascent transcription ofHoxb coding and non-coding RNAs in the developing mouse neural tube
Afzal Z, Lange JJ, Nolte C, McKinney S, Wood C, Paulson A, De Kumar B, Unruh J, Slaughter BD, Krumlauf R. Development. 2023;150 doi: 10.1242/dev.201259.
Circadian rhythm disruption linked to skeletal muscle dysfunction in the Mexican Cavefish
Olsen L, Krishnan J, Banks C, Hassan H, Rohner N. Curr Biol. 2023;33:R255-R256.
A molecular cell biology toolkit for the study of meiosis in the silkworm Bombyx mori.
Xiang Y, Tsuchiya D, Guo F, Gardner J, McCroskey S, Price A, Tromer EC, Walters JR, Lake CM, Hawley RS. G3 (Bethesda). 2023:jkad058. doi: 010.1093/g1093journal/jkad1058. doi: 10.1093/g3journal/jkad058.
Elevated levels of the methyltransferase SETD2 causes transcription and alternative splicing changes resulting in oncogenic phenotypes
Bhattacharya S, Reddy D, Zhang N, Li H, Workman J. Front Cell Dev Biol. 2022;10:945668 doi: 10.3389/fcell.2022.945668.
New dimensions of the virus world discovered through metagenomics
Kristensen DM, Mushegian AR, Dolja VV, Koonin EV. Trends Microbiol. 2010;18:11-19.
Liver-derived cell lines from cavefish Astyanax mexicanus as an in vitro model for studying metabolic adaptation
Krishnan J, Wang Y, Kenzior O, Hassan H, Olsen L, Tsuchiya D, Kenzior A, Peuss R, Xiong S, Wang Y, Zhao C, Rohner N. Sci Rep. 2022;12:10115. doi: 10110.11038/s41598-10022-14507-10110.
Lack of VMP1 Impairs Hepatic Lipoprotein Secretion and Promotes Nonalcoholic Steatohepatitis
Jiang X, Fulte S, Deng F, Chen S, Xie Y, Chao X, He XC, Zhang Y, Li T, Li F, McCoin C, Morris EM, Thyfault J, Liu W, Li L, Davidson NO, Ding WX, Ni HM. Lack of VMP1 Impairs Hepatic Lipoprotein Secretion and Promotes Nonalcoholic Steatohepatitis. [Published ahead of print April 23 2022]. J Hepatol. 2022.
Enhanced lipogenesis through Ppary helps cavefish adapt to food scarcity
Xiong S, Wang W, Kenzior A, Olsen L, Krishnan J, Persons J, Medley K, Peuss R, Wang Y, Chen S, Zhang N, Thomas N, Miles JM, Sánchez Alvarado A, Rohner N. [published ahead of print April 8 2022].Curr Biol. 2022.
H3K36 methylation and DNA-binding both promote Ioc4 recruitment and Isw1b remodeler function
Li J, Bergmann L, Rafael de Almeida A, Webb KM, Gogol MM, Voigt P, Liu Y, Liang H, Smolle MM. Nucleic Acids Res. 2022;50:2549-2565.
Single-cell transcriptome analysis reveals three sequential phases of gene expression during zebrafish sensory hair cell regeneration
Baek S, Tran NTT, Diaz DC, Tsai YY, Acedo JN, Lush ME, Piotrowski T. [published ahead of print 3-28-2022]. Dev Cell. 2022;57:1-21. doi: 10.1016/j.devcel.2022.1003.1001.
PCR amplicons to determine human centromeric array copy number reveal wide-spread size variation and instability in cancer
de Lima LG, Howe E, Singh VP, Potapova T, Li H, Xu B, Castle J, Crozier S, Harrison CJ, Clifford SC, Miga KH, Ryan SL, Gerton JL. Cell Genom. 2021;1:
100064.
doi: 10.1016/j.xgen.2021.100064.The SAGA core module is critical during Drosophila oogenesis and is broadly recruited to promoters
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.
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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.
Using fluorescent reporters in conjunction with cytometry and statistics to assess nuclear accumulation of ribosomal proteins
Kim DH, Box AC, Li H, Gerton JL. Methods Mol Biol.2017;1515:217-226.
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.
Grand challenges in bioinformatics and computational biology.
Mushegian A. Front Genet. 2011;2:60.
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.
