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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Population genomics of premature termination codons in cavefish with substantial trait loss
Roback EY, Ferrufino E, Moran RL, Shennard D, Mulliniks C, Gallop J, Weagley J, Miller J, Fily Y, Ornelas-Garcia CP, Rohner N, Kowalko JE, McGaugh SE. Mol Biol Evol. 2025;42.
Genomic evolution of EGF-CFC genes in deuterostomes.
Shylo NA, Trainor PA. [published ahead of print June 2025]. Dev Dyn. 2025.
Leveraging chorionic villus biopsies for the derivation of patient-specific trophoblast stem cells
Varberg KM, Moreno-Irusta A, Novoa A, Musser B, Varberg JM, Goering JP, Saadi I, Iqbal K, Okae H, Arima T, Williams J, 3rd, Pisarska MD, Soares MJ. Commun Biol. 2025;8:964.
A repeatedly evolved mutation in Cryptochrome-1 of subterranean animals alters behavioral and molecular circadian rhythms
Swaminathan A, Kenzior A, McCoin C, Price A, Weaver K, Hintermann A, Morris N, Keene AC, Rohner N. iScience. 2025;28 doi: 10.1101/2024.09.19.613894.
Identification and characterization of short-chain dehydrogenase/reductase 3 (DHRS3) deficiency, a retinoic acid embryopathy of humans
Hashimoto As, Yu J, Williams C, Zueckert-Gaudenz K, Varshosaz P, Zhao R, Pilli N, Liu TY, Russell J, Tooze RS, Twigg SRF, Banka S, Sweeney EW, McGowan SJ, Knight SJL, Taylor JC, Froukh TJ, Palafoll MIV, Martinez-Gil N, Costa-Roger M, Villarreal-Molina MT, Hernandez EL, Jamra RA, Gattermann F, Koch-Hogrebe M, Wieczorek D, Trainor PA, Moise AR, Wilkie AOM, Kane MA. Genet Med Open. 2025;3:103427.
A tool to dissect heterotypic determinants of homotypic protein phase behavior
Kimbrough H, Jensen J, Weber C, Miller T, Maddera LE, Blanck JF, Babu VMP, Redwine WB, Halfmann R. Protein Sci. 2025;34:e70194.
Analysis of FAIMS for the study of affinity-purified protein complexes using the orbitrap ascend tribrid mass spectrometer
Goswami P, Cesare J, Rekowski MJ, Clark Z, Thornton J, Washburn MP. Mol Omics. 2025.
Chromatin remodeling protein BPTF mediates chromatin accessibility at gene promoters in planarian stem cells
Verma P, Allen JM, Sanchez Alvarado A, Duncan EM. BMC Genomics. 2025;26:232.
An atypical basement membrane forms a midline barrier during left-right asymmetric gut development in the chicken embryo
Demler C, Lawlor JC, Yelin R, Llivichuzcha-Loja D, Shaulov L, Kim D, Stewart M, Lee FK, Shylo N, Trainor PA, Schultheiss TM, Kurpios NA. Elife. 2025;12.
Splicing Defects and Cell Death Cause SF3B2-Linked Craniofacial Microsomia.
Rao S, Watt KEN, Maili L, Lamb M, Farrow E, Hassan H, Weaver K, Miller B, Dash S, Cox LL, Gallacher L, Kant SG, Gibson M, Pastinen T, Li D, Bhoj EJK, Zhu H, Zhang J, Zhang YB, Tan TY, Trainor PA, Cox TC. J Dent Res. 2025:220345251325818.
ZNF574 is a Quality Control Factor for Defective Ribosome Biogenesis Intermediates
Akers JF, LaScola M, Bothe A, Suh H, Jung C, Stolp ZD, Ghosh T, Yan LL, Wang Y, Macurak M, Devan A, McKinney MC, Grismer TS, Reyes AV, Ross EJ, Hu T, Xu SL, Ban N, Kostova KK. [published ahead of print May 2025.] Mol Cell. 2025.
Stem and progenitor cell proliferation are independently regulated by cell type-specific cyclinD genes
Lush ME, Tsai YY, Chen S, Munch D, Peloggia J, Sandler JE, Piotrowski T. Nat Commun. 2025;16:5913 doi: 10.1038/s41467-025-60251-0.
Landscape of essential growth and fluconazole-resistance genes in the human fungal pathogen Cryptococcus neoformans
Billmyre RB, Craig CJ, Lyon JW, Reichardt C, Kuhn AM, Eickbush MT, Zanders SE. PLoS Biol. 2025;23:e3003184 doi: 10.1371/journal.pbio.3003184.
Pre-oviposition development of the brown anole (Anolis sagrei)
Weberling A, Shylo NA, Kircher BK, Wilson H, McClain M, Marchini M, Starr KB, Sanger TJ, Hollfelder F, Trainor PA. Dev Dyn. 2025.
Torque-driven superparamagnetic microbots
Morozov KI, Zusmanovich D, Rubinstein B, Leshansky A. Physics of Fluids. 2025;37:012017.
Reproductive Adaptation of Astyanax mexicanus Under Nutrient Limitation
Xia F, Santacruz A, Wu D, Bertho S, Fritz E, Morales-Sosa P, McKinney S, Nowotarski SH, Rohner N. Dev Biol. 2025.
Differentially expressed miRNAs offer new perspective into cave adaptation of Astyanax mexicanus
Biswas T, Hassan H, Rohner N. Ann N Y Acad Sci. 2025.
Investigating the Aggregation and Prionogenic Properties of Human Cancer-Related Proteins.
Goncharoff D, Du Z, Venkatesan S, Cho B, Zhao J, Alasady MJ, Huey D, Ma H, Rosenthal J, Turenitsa A, Feldman C, Halfmann R, Mendillo ML, Li L. Mol Cell Biol. 2025:1-15.
Complete sequencing of ape genomes
Yoo D, Rhie A, Hebbar P, Antonacci F, Logsdon GA, Solar SJ, Antipov D, Pickett BD, Safonova Y, Montinaro F, Luo Y, Malukiewicz J, Storer JM, Lin J, Sequeira AN, Mangan RJ, Hickey G, Monfort Anez G, Balachandran P, Bankevich A, Beck CR, Biddanda A, Borchers M, Bouffard GG, Brannan E, Brooks SY, Carbone L, Carrel L, Chan AP, Crawford J, Diekhans M, Engelbrecht E, Feschotte C, Formenti G, Garcia GH, de Gennaro L, Gilbert D, Green RE, Guarracino A, Gupta I, Haddad D, Han J, Harris RS, Hartley GA, Harvey WT, Hiller M, Hoekzema K, Houck ML, Jeong H, Kamali K, Kellis M, Kille B, Lee C, Lee Y, Lees W, Lewis AP, Li Q, Loftus M, Loh YHE, Loucks H, Ma J, Mao Y, Martinez JFI, Masterson P, McCoy RC, McGrath B, McKinney S, Meyer BS, Miga KH, Mohanty SK, Munson KM, Pal K, Pennell M, Pevzner PA, Porubsky D, Potapova T, Ringeling FR, Rocha JL, Ryder OA, Sacco S, Saha S, Sasaki T, Schatz MC, Schork NJ, Shanks C, Smeds L, Son DR, Steiner C, Sweeten AP, Tassia MG, Thibaud-Nissen F, Torres-Gonzalez E, Trivedi M, Wei W, Wertz J, Yang M, Zhang P, Zhang S, Zhang Y, Zhang Z, Zhao SA, Zhu Y, Jarvis ED, Gerton JL, Rivas-Gonzalez I, Paten B, Szpiech ZA, Huber CD, Lenz TL, Konkel MK, Yi SV, Canzar S, Watson CT, Sudmant PH, Molloy E, Garrison E, Lowe CB, Ventura M, O'Neill RJ, Koren S, Makova KD, Phillippy AM, Eichler EE. Nature 2025.
Highly Optimized Simulation of Atomic Resolution Cell-Like Protein Environment
Tytarenko AM, Singh A, Ambati VK, Copeland MM, Kundrotas PJ, Halfmann R, Kasyanov PO, Feinberg EA, Vakser IA. J Phys Chem B. 2025;129:3183-3190.
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From conservation to adaptation: Understanding the Synaptonemal Complex's evolutionary dynamics.
Williams S, Hawley RS. Curr Opin Genet Dev. 2025;93:102349.
Signalling by co-operative higher-order assembly formation: linking evidence at molecular and cellular levels
Kobe B, Nanson JD, Hoad M, Blumenthal A, Gambin Y, Sierecki E, Stacey KJ, Ve T, Halfmann R. Biochem J. 2025;482:275-294.
The Society for Craniofacial Genetics and Developmental Biology 47th Annual Meeting
Trainor PA, Cox TC, Clouthier DE, Fantauzzo KA, Harris MP, Jeong J, Stottmann RW, Merrill AE. Am J Med Genet A. 2025:e64059.
NCR peptides in plant-bacterial symbiosis: applications and importance
Guerra-Garcia FJ, Sankari S. Trends Microbiol. 2025;33:147-150.
