Stadler Lab

Images showing in utero animal limb development

About us

We are a developmental genetics laboratory focusing on the molecular mechanisms regulating limb and genitourinary development with several main areas of focus including:

images of animal limb development in utero

Distal limb musculoskeletal development

Our lab aims to understand the molecular and cellular programs mediating the formation of hand and foot musculoskeletal tissues and structures.  Central to these studies is the use of loss- and gain of function alleles of Hoxa13 and Hoxd13 in combination with single cell transcriptomics, genomics, and proteomics to identify gene-regulatory elements mediating digit number, size, and shape.

Color slide of cells

Role of long non coding RNAs (lncRNAs) in articular cartilage homeostasis

We are currently characterizing the several lncRNAs that exhibit a role in mediating articular cartilage homeostasis in the phalangeal joints using Cre-inducible loss- and gain of function alleles, ChIRP-seq, and single cell transcriptomics.

Color microscopic images

Mechanisms causing congenital malformation of the lower urinary tract

Mutations in Hoxa13 cause defects in the growth and closure of the external genitalia (hypospadias) and bladder-ureter integration defects.  We are currently characterizing the developmental function of Hoxa13 in the pathology of these defects. We are also assessing the epigenetic functions the lncRNAs, lncRNA-HIT and Fendrr in the development of these tissues.

color slide of digit/joint formation

Digit organoids (Digitoids)

To gain access to the developing murine digit and joint tissues the Stadler Lab has developed a novel digit organoid system that recapitulates digit and joint development. Using this in vitro system, we are currently investigating the molecular programs mediating digit/joint formation using single cell transcriptomics and tandem mass spectrometry to dissect the molecular programs specifying digit and/or joint development, digit size, number, and identity.


Photo of H. Scott Stadler

H. Scott Stadler, Ph.D.

Professor of Molecular and Medical Genetics, School of Medicine
Professor of Orthopaedics and Rehabilitation, School of Medicine


Lab Alumni

Wendy Knosp, Ph.D.
Health Science Policy Analyst National Institutes of Health Bethesda, Maryland

Carley Shaut, Ph.D.
Technical Director Laboratory of Immunogenetics and Transplantation Oregon Health Science University Portland, Oregon

Crystal Weller, D.V.M.
Banfield Pet Hospital Salem, Oregon

Emily Morgan, M.D.
Dept. of Internal Medicine Oregon Health Science University Portland, Oregon

Siming Shou, Ph.D.
Senior Research Technologist University of Chicago Chicago, Illinois

Susan Nguyen, M.D.
Legacy Health Otolaryngology Portland, Oregon

Virginia Scott Ph.D.
Nursing University of Alabama Birmingham Birmingham, Alabama

Chie Saneyoshi, Ph.D. J.D
University of Tokyo

Diane Forbes, B.S.
Chief Operations Officer NIS Consulting Beaverton, Oregon

Hanqian Carlson, Ph.D. Senior Research Specialist
Oregon Health Science University Portland, Oregon

Wilma Perez B.S. Senior Research Assistant
Oregon Health Science University Portland, OR

Chelsea Thornburg, Ph.D.
AGC Biologics Bothell, Washington


Click here for a complete list of publications in PubMed.

Genetic basis for an evolutionary shift from ancestral preaxial to postaxial limb polarity in non-urodele vertebrates.
Trofka A, Huang BL, Zhu J, Heinz WF, Magidson V, Shibata Y, Shi YB, Tarchini B, Stadler HS, Kabangu M, Al Haj Baddar NW, Voss SR, Mackem S.Curr Biol. 2021 Nov 22;31(22):4923-4934.e5. doi: 10.1016/j.cub.2021.09.010. Epub 2021 Oct

HOXA13 in etiology and oncogenic potential of Barrett's esophagus.
Janmaat VT, Nesteruk K, Spaander MCW, Verhaar AP, Yu B, Silva RA, Phillips WA, Magierowski M, van de Winkel A, Stadler HS, Sandoval-Guzmán T, van der Laan LJW, Kuipers EJ, Smits R, Bruno MJ, Fuhler GM, Clemons NJ, Peppelenbosch MP.Nat Commun. 2021 Jun 7;12(1):3354. doi: 10.1038/s41467-021-23641-8.

Meeting report on the NIDDK/AUA Workshop on Congenital Anomalies of External Genitalia: challenges and opportunities for translational research.
Stadler HS, Peters CA, Sturm RM, Baker LA, Best CJM, Bird VY, Geller F, Hoshizaki DK, Knudsen TB, Norton JM, Romao RLP, Cohn MJ.J Pediatr Urol. 2020 Dec;16(6):791-804. doi: 10.1016/j.jpurol.2020.09.012. Epub 2020 Sep 16.

Encouraging cartilage production.
Stadler HS.Elife. 2020 May 6;9:e57239. doi: 10.7554/eLife.57239.

The formation of the thumb requires direct modulation of Gli3 transcription by Hoxa13.
Bastida MF, Pérez-Gómez R, Trofka A, Zhu J, Rada-Iglesias A, Sheth R, Stadler HS, Mackem S, Ros MA.Proc Natl Acad Sci U S A. 2020 Jan 14;117(2):1090-1096. doi: 10.1073/pnas.1919470117. Epub 2020 Jan 2.

Development and functional characterization of a lncRNA-HIT conditional loss of function allele.
Carlson HL, Stadler HS.Genesis. 2020 Mar;58(3-4):e23351. doi: 10.1002/dvg.23351. Epub 2019 Dec 14.PMID: 31838787

Distal Limb Patterning Requires Modulation of cis-Regulatory Activities by HOX13.
Sheth R, Barozzi I, Langlais D, Osterwalder M, Nemec S, Carlson HL, Stadler HS, Visel A, Drouin J, Kmita M.Cell Rep. 2016 Dec 13;17(11):2913-2926. doi: 10.1016/j.celrep.2016.11.039.

Evolution of Hoxa11 regulation in vertebrates is linked to the pentadactyl state.
Kherdjemil Y, Lalonde RL, Sheth R, Dumouchel A, de Martino G, Pineault KM, Wellik DM, Stadler HS, Akimenko MA, Kmita M.Nature. 2016 Nov 3;539(7627):89-92. doi: 10.1038/nature19813. Epub 2016 Oct 5.

LncRNA-HIT Functions as an Epigenetic Regulator of Chondrogenesis through Its Recruitment of p100/CBP Complexes.
Carlson HL, Quinn JJ, Yang YW, Thornburg CK, Chang HY, Stadler HS.PLoS Genet. 2015 Dec 3;11(12):e1005680. doi: 10.1371/journal.pgen.1005680. eCollection 2015 Dec.

Musculoskeletal integration at the wrist underlies the modular development of limb tendons.
Huang AH, Riordan TJ, Pryce B, Weibel JL, Watson SS, Long F, Lefebvre V, Harfe BD, Stadler HS, Akiyama H, Tufa SF, Keene DR, Schweitzer R.Development. 2015 Jul 15;142(14):2431-41. doi: 10.1242/dev.122374. Epub 2015 Jun 10.

Chemical shift assignments of mouse HOXD13 DNA binding domain bound to duplex DNA.
Turner M, Zhang Y, Carlson HL, Stadler HS, Ames JB.Biomol NMR Assign. 2015 Oct;9(2):267-70. doi: 10.1007/s12104-014-9589-4. Epub 2014 Dec 10.

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