Batsal Devkota, PhD

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Batsal Devkota, PhD, is a bioinformatics scientist with the Roberts Individualized Medical Genetics Center and the Division of Human Genetics at Children's Hospital of Philadelphia.

Locations: Main Campus
Appointments and Referrals: 1-800-TRY-CHOP (1-800-879-2467)

Education and Training

Undergraduate Degree

BS in Biochemistry and Molecular Biology - University of New Hampshire, Durham, NH

Graduate Degree

PhD in Computational Biology and Bioinformatics - Georgia Institute of Technology, Atlanta, GA

Titles and Academic Titles

Bioinformatics Scientist

Departments and Services

Publications

Papers

2019

I Helbig, T Lopez-Hernandez, O Shor, P Galer, S Ganesan, M Pendziwiat, B Devkota, et al. A Recurrent Missense Variant in AP2M1 Impairs Clathrin-Mediated Endocytosis and Causes Developmental and Epileptic Encephalopathy. The American Journal of Human Genetics. 2019.

C Wu, B Devkota, P Evans, X Zhao, SW Baker, R Niazi, K Cao, et al. Rapid and accurate interpretation of clinical exomes using Phenoxome: a computational phenotype-driven approach. European Journal of Human Genetics 27 (4), 612. 2019.

2018

S Sheppard, S Biswas, MH Li, V Jayaraman, I Slack, EJ Romasko, B Devkota, et al. Utility and limitations of exome sequencing as a genetic diagnostic tool for children with hearing loss. Genetics in Medicine 20 (12), 1663. 2018.

EJ Romasko, B Devkota, S Biswas, V Jayaraman, R Rajagopalan, et al. Utility and limitations of exome sequencing in the molecular diagnosis of pediatric inherited platelet disorders. American journal of hematology 93 (1), 8-16. 2018.

2016

RC Green, KAB Goddard, GP Jarvik, LM Amendola, PS Appelbaum, B Devkota, et al. Clinical sequencing exploratory research consortium: accelerating evidence-based practice of genomic medicine. . The American Journal of Human Genetics 98 (6), 1051-1066. 2016.

R Rajagopalan, B Devkota, V Jayaraman, S Biswas, NB Spinner, et al. Copy Number Detection in Exome Sequencing Compared to Chromosomal Microarray in a Clinical Setting. Cancer Genetics 209 (6), 300. 2016.

2014

AM Fedick, K Eckert, K Thompson, EJ Forman, B Devkota, NR Treff, et al. Lack of association of KATNAL1 gene sequence variants and azoospermia in humans. Journal of assisted reproduction and genetics 31 (8), 1065-1071. 2014.

NA Gueye, B Devkota, D Taylor, R Pfundt, RT Scott Jr, NR Treff. Uniparental disomy in the human blastocyst is exceedingly rare. Fertility and sterility 101 (1), 232-236. 2014.

2013

NA Gueye, O Bendarsky, B Devkota, R Pfundt, NR Treff, RT Scott. Uniparental disomy (UPD) in the human blastocyst is exceedingly rare. Fertility and Sterility 100 (3), S132. 2013.

EJ Forman, D Taylor, B Devkota, X Tao, NR Treff, RT Scott Targeted deep sequencing of maternal cohesin genes as putative biomarkers for increased risk of embryonic aneuploidy. Fertility and Sterility 100 (3), S53. 2013.

RJ Pepe, EJ Forman, D Taylor, B Devkota, NR Treff, RT Scott. Creation of a DNA bank from patients with infertility: a powerful resource for advancing the biology of reproduction. Fertility and Sterility 100 (3), S484-S485. 2013.

MD Werner, EJ Forman, KH Hong, B Devkota, PA Bergh, RT Scott. Endometrial disruption (EDrpt) does not improve endometrial receptivity in IVF: evaluation of clinical and sustained implantation rates (IR) following the transfer of euploid. Fertility and Sterility 100 (3), S76. 2013.

X Tao, B Devkota, A Lonczak, M Lebiedzinski, RT Scott, NR Treff. Characterization of trophectoderm (TE) biopsy cell number. Fertility and Sterility 100 (3), S196-S197. 2013.

KL Scott, KH Hong, MD Werner, EJ Forman, B Devkota, RT Scott. Patients with three or fewer embryos attain the highest delivery by culturing embryos to the blastocyst stage (blast) and assuring embryonic-endometrial synchrony rather than. Fertility and Sterility 100 (3), S121. 2013.

NR Treff, A Fedick, X Tao, B Devkota, D Taylor, RT Scott Jr. Evaluation of targeted next-generation sequencing–based preimplantation genetic diagnosis of monogenic disease. Fertility and sterility 99 (5), 1377-1384. e6. 2013.

A Fedick, J Su, C Jalas, L Northrop, B Devkota, J Ekstein, NR Treff. High-throughput carrier screening using TaqMan allelic discrimination. PloS one 8 (3), e59722. 2013.

2012

T Caulfield, B Devkota. Motion of transfer RNA from the A/T state into the A-site using docking and simulations. Proteins: Structure, Function, and Bioinformatics 80 (11), 2489-2500. 2012.

S Cummings, B Devkota, D Taylor, TA Molinaro. Among patients of similar ages, a low serum anti-mullerian hormone (AMH) does not predict a higher incidence of aneuploidy in embryos tested with comprehensive chromosomal. Fertility and Sterility 98 (3), S256-S257. 2012.

EJ Forman, J Su, D Taylor, B Devkota, N Treff, R Scott. Oocyte vitrification does not result in a decrement in mitochondrial DNA (mtDNA) copy number in resulting embryos: a paired randomized controlled trial (RCT). Fertility and Sterility 98 (3), S89. 2012.

SM Shastri, M Werner, B Devkota, DM Taylor, N Treff, R Scott. Comparison of clinical outcomes between genetically similar groups of in vitro fertilization patients. Fertility and Sterility 98 (3), S26. 2012.

MD Werner, K Hong, L Duffy, E Forman, B Devkota, R Scott. Variation within the normal range in fragile X mental retardation 1 (FMR1) gene CGG repeat number is not predictive of ovarian responsiveness during IVF. Fertility and Sterility 98 (3), S104. 2012.

A Fedick, X Tao, B Devkota, D Taylor, RT Scott, NR Treff. Development and validation of next-generation sequencing (NGS) based PGD. Fertility and Sterility 98 (3), S54. 2012.

KH Hong, B Devkota, E Forman, O Bendarsky, N Treff, R Scott. FMR1 gene CGG repeat number variation within the normal range is not predictive of embryonic aneuploidy rate (AR) in IVF. Fertility and Sterility 98 (3), S207. 2012.

R Henderson, A Sali, ML Baker, B Carragher, B Devkota, KH Downing, et al. Outcome of the first electron microscopy validation task force meeting. Structure 20 (2), 205-214. 2012.

2011

SC Harvey, AS Petrov, B Devkota, MB Boz. Computational approaches to modeling viral structure and assembly. Methods in enzymology 487, 513-543. 2011.

TR Caulfield, B Devkota, GC Rollins. Examinations of tRNA Range of Motion Using Simulations of Cryo-EM Microscopy and X-Ray Data. Journal of Biophysics, 219515. 2011.

2010

CL Lawson, ML Baker, C Best, C Bi, M Dougherty, P Feng, G van Ginkel, B Devkota, et al. EMDataBank. org: unified data resource for CryoEM. Nucleic acids research 39 (suppl_1), D456-D464. 2010.

2009

DJ Taylor, B Devkota, AD Huang, M Topf, E Narayanan, A Sali, et al. Comprehensive molecular structure of the eukaryotic ribosome. Structure 17 (12), 1591-1604. 2009.

B Devkota, AS Petrov, S Lemieux, MB Boz, L Tang, A Schneemann, et al. Structural and electrostatic characterization of pariacoto virus: implications for viral assembly. Biopolymers: Original Research on Biomolecules 91 (7), 530-538. 2009.

SC Harvey, AS Petrov, B Devkota, MB Boz. Viral assembly: a molecular modeling perspective Physical Chemistry Chemical Physics 11 (45), 10553-10564. 2009.

2008

RKZ Tan, AS Petrov, B Devkota, SC Harvey. 15 Coarse-Grained Models for Nucleic Acids and Large Nucleoprotein Assemblies. Coarse-Graining of Condensed Phase and Biomolecular Systems, 225. 2008.

RKZ Tan, B Devkota, SC Harvey. YUP. SCX: coaxing atomic models into medium resolution electron density maps. Journal of structural biology 163 (2), 163-174. 2008.

B Devkota. Structural studies of ribonucleoprotein complexes using molecular modeling. Georgia Institute of Technology. 2008.

2007

B Devkota, W Li, J Frank, SC Harvey. Real-space refinement of ribosome crystal structure into the cryo-EM maps using YAMMP. BIOPHYSICAL JOURNAL, 564A-564A. 2007.

2005

CR Locker, B Devkota, RKZ Tan, SC Harvey. Molecular modeling studies of viral genome packaging in bacteriophage and nodaviruses BIOPHYSICAL JOURNAL 88 (1), 197A-197A. 2005.

B Devkota, L Tang, JE Johnson, SC Harvey. Three dimensional model of the packaged RNA genome in Pariacoto virus. BIOPHYSICAL JOURNAL 88 (1), 230A-230A. 2005.