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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Sea lamprey enlightens the origin of the coupling of retinoic acid signaling to vertebrate hindbrain segmentation
Bedois AMH, Parker HJ, Price AJ, Morrison JA, Bronner ME, Krumlauf R. Nat Commun. 2024;15:1538 doi: 10.1038/s41467-024-45911-x.
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.
An improved germline genome assembly for the sea lamprey Petromyzon marinus illuminates the evolution of germline-specific chromosomes.
Timoshevskaya N, Eskut KI, Timoshevskiy VA, Robb SMC, Holt C, Hess JE, Parker HJ, Baker CF, Miller AK, Saraceno C, Yandell M, Krumlauf R, Narum SR, Lampman RT, Gemmell NJ, Mountcastle J, Haase B, Balacco JR, Formenti G, Pelan S, Sims Y, Howe K, Fedrigo O, Jarvis ED, Smith JJ. Cell Rep. 2023;42:112263.
Analysis of lamprey meis genes reveals that conserved inputs from hox, Meis and Pbx proteins control their expression in the hindbrain and neural tube
Parker HJ, De Kumar B, Pushel I, Bronner ME, Krumlauf R. Dev Biol. 2021:61-76.
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.
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.
The Mediator subunit, Med23 is required for embryonic survival and regulation of canonical WNT signaling during cranial ganglia development
Dash S, Bhatt S, Sandell L, Seidel C, Ahn Y, Krumlauf R, Trainor P. Front Physiol. 2020;11:531933. doi: 531910.533389/fphys.532020.531933.
FAM20B-catalyzed glycosaminoglycans control murine tooth number by restricting FGFR2b signaling
Wu J, Tian Y, Han L, Liu C, Sun T, Li L, Yu Y, Lamichhane B, D'Souza RN, Millar SE, Krumlauf R, Ornitz DM, Feng JQ, Klein O, Zhao H, Zhang F, Linhardt RJ, Wang X. BMC Biol. 2020;18:87. doi.org/10.1186/s12915-12020-00813-12914.
Inter-rhombomeric interactions reveal roles for fibroblast growth factors signaling in segmental regulation of EphA4 expression
Cambronero F, Ariza-McNaughton L, Wiedemann LM, Krumlauf R. Dev Dyn. 2020;249:354-368.
An atlas of anterior hox gene expression in the embryonic sea lamprey head: Hox-code evolution in vertebrates
Parker HJ, Bronner ME, Krumlauf R. Dev Biol. 2019;453:19-33.
A conserved regulatory program initiates lateral plate mesoderm emergence across chordates
Prummel KD, Hess C, Nieuwenhuize S, Parker HJ, Rogers KW, Kozmikova I, Racioppi C, C. BE, Czarkwiani A, Knapp D, Burger S, Chiavacci E, Shah G, Burger A, Huisken J, Yun M, Christiaen L, Kozmik Z, Christiaen L, Muller P, Bronner M, Krumlauf R, Mosimann C. Nat Commun. 2019;10:e3857. doi: 3810.1038/s41467-41019-11561-41467.
Downregulation of FGF Signaling by Spry4 Overexpression Leads to Shape Impairment, Enamel Irregularities, and Delayed Signaling Center Formation in the Mouse Molar
Marangoni P, Charles C, Ahn Y, Seidel K, Jheon A, Ganss B, Krumlauf R, Viriot L, Klein OD. JBMR Plus. 2019;3:e10205. doi: 10210.11002/jbm10204.10205.
A Hox-TALE regulatory circuit for neural crest patterning is conserved across vertebrates
Parker HJ, De Kumar B, Green SA, Prummel KD, Hess C, Kaufman CK, Mosimann C, Wiedemann LM, Bronner ME, Krumlauf R. Nat Commun. 2019;10:1189. doi: 1110.1038/s41467-41019-09197-41468.
Shh plays an inhibitory role in cusp patterning by regulation of Sostdc1
Kim J, Ahn Y, Adasooriya D, Woo EJ, Kim HJ, Hu KS, Krumlauf R, Cho SW. J Dent Res. 2019;98:98-106.
Retinoid-Sensitive Epigenetic Regulation of the Hoxb Cluster Maintains Normal Hematopoiesis and Inhibits Leukemogenesis
Qian P, De Kumar B, He XC, Nolte C, Gogol M, Ahn Y, Chen S, Li Z, Xu H, Perry JM, Hu D, Tao F, Zhao M, Han Y, Hall K, Peak A, Paulson A, Zhao C, Venkatraman A, Box A, Perera A, Haug JS, Parmely T, Li H, Krumlauf R, Li L. Cell Stem Cell.2018;22:740-754 e747.
The sea lamprey germline genome provides insights into programmed genome rearrangement and vertebrate evolution
Smith JJ, Timoshevskaya N, Ye C, Holt C, Keinath MC, Parker HJ, Cook ME, Hess JE, Narum SR, Lamanna F, Kaessmann H, Timoshevskiy VA, Waterbury CKM, Saraceno C, Wiedemann LM, Robb SMC, Baker C, Eichler EE, Hockman D, Sauka-Spengler T, Yandell M, Krumlauf R, Elgar G, Amemiya CT. Nat Genet. 2018;50:270-277. Publisher Correction: Nat Genet.2018;50:768.
Hoxa1 targets signaling pathways during neural differentiation of ES cells and mouse embryogenesis
De Kumar B, Parker HJ, Paulson A, Parrish ME, Zeitlinger J, Krumlauf R. Dev Biol.2017;432:151-164.
Modulating Wnt signaling rescues palate morphogenesis in Pax9 mutant mice
Li C, Lan Y, Krumlauf R, Jiang R. J Dent Res.2017;96:1273-1281.
IRF6 and SPRY4 Signaling Interact in Periderm Development
Kousa YA, Roushangar R, Patel N, Walter A, Marangoni P, Krumlauf R, Klein OD, Schutte BC. J Dent Res.2017;96:1306-1313.
HOXA1 and TALE proteins display cross-regulatory interactions and form a combinatorial binding code on HOXA1 targets
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.
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Diversification and Functional Evolution of HOX Proteins
Singh NP, Krumlauf R. Front Cell Dev Biol. 2022;10:798812. doi: 798810.793389/fcell.792022.798812.
Transcriptional regulation and implications for controlling Hox gene expression
Afzal Z, Krumlauf R. J Dev Biol. 2022;10:4. doi: 10.3390/jdb10010004.
Retinoic Acid signaling in vertebrate hindbrain segmentation:evolution and diversification
Bedois AMH, Parker HJ, Krumlauf R. Diversity. 2021;13:398.
Segmentation and patterning of the vertebrate hindbrain
Krumlauf R, Wilkinson DG. Development. 2021;148,dev186460. doi:10.1242/dev.186460.
A Hox gene regulatory network for hindbrain segmentation
Parker HJ, Krumlauf R. Curr Top Dev Biol. 2020;139:169-203.
Hox genes: Downstream "effectors" of retinoic acid signaling in vertebrate embryogenesis
Nolte C, De Kumar B, Krumlauf R. Genesis. 2019:e23306. doi: 10.1002/dvg.23306.
Hox genes, clusters and collinearity
Krumlauf R. Int J Dev Biol. 2018;62:659-663.
Coupling the roles of Hox genes to regulatory networks patterning cranial neural crest
Parker HJ, Pushel I, Krumlauf R.. Dev Biol. 2018;444 Suppl 1:S67-S78.
Segmental arithmetic: summing up the Hox gene regulatory network for hindbrain development in chordates
Parker HJ, Krumlauf R. Wiley Interdiscip Rev Dev Biol.2017;6.
The vertebrate Hox gene regulatory network for hindbrain segmentation: Evolution and diversification: Coupling of a Hox gene regulatory network to hindbrain segmentation is an ancient trait originating at the base of vertebrates.
Parker HJ, Bronner ME, Krumlauf R. Bioessays. 2016;38:526-538.
Hox Genes and the Hindbrain: A Study in Segments
Krumlauf R. Curr Top Dev Biol. 2016;116:581-596.
HOXs and lincRNAs: Two sides of the same coin
De Kumar B, Krumlauf R. Sci Adv. 2016;2:e1501402.
Hox Complex Analysis Through BAC Recombineering.
Parrish M, Ahn Y, Nolte C, De Kumar B, Krumlauf R. Methods Mol Biol. 2014;1196:59-87.
Hox Genes Expression.
Nolte C, Ahn Y, Krumlauf R. Reference Module in Biomedical Sciences Elsevier; 2014.
Evolutionary Developmental Biology: Hox Gene Evolution.
Nolte C, Ahn Y, Krumlauf R. eLS Encyclopedia of Life Sciences: John Wiley & Sons, Inc.; 2012.
Gene expression and development. Special introduction.
Krumlauf R, Levine M. Dev Biol. 2010;339:224.
Hox genes and segmentation of the vertebrate hindbrain.
Tumpel S, Wiedemann LM, Krumlauf R. Curr Top Dev Biol. 2009/08/05 ed; 2009;88:103-137.
Hox Genes and Segmentation of the Hindbrain and Axial Skeleton
Alexander T, Nolte C, Krumlauf R. Annu Rev Cell Dev Biol. 2009;25:431-456.
Hox genes expression
Parrish M, Nolte C, Krumlauf R. In: L Squire, ed. New Encyclopedia of Neuroscience. 4th ed: Academic Press; 2009:1221-1231.
Expression of Hox Genes in the Nervous System of Vertebrates
Nolte C, Krumlauf R. In: S Papageorgiou, ed. Hox Gene Expression. Austin, TX: Landes Bioscience & Springer; 2006;Epub Open Access:14-41.
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