User profiles for Manavalan Gajapathy

Manavalan Gajapathy

Data scientist-Genomics, The University of Alabama at Birmingham
Verified email at uab.edu
Cited by 52

[HTML][HTML] Ten simple rules for using public biological data for your research

…, A Uno-Antonison, B Wilk, M Gajapathy… - PLOS Computational …, 2023 - journals.plos.org
With an increasing amount of biological data available publicly, there is a need for a guide
on how to successfully download and use this data. The 10 simple rules for using public …

[HTML][HTML] Critical assessment of variant prioritization methods for rare disease diagnosis within the Rare Genomes Project

…, PJ Coenen, F De Paoli, M Floris, M Gajapathy… - medRxiv, 2023 - ncbi.nlm.nih.gov
Background: A major obstacle faced by rare disease families is obtaining a genetic diagnosis.
The average “diagnostic odyssey” lasts over five years, and causal variants are identified …

Genetic factors help explain the variable responses of young children with cystic fibrosis to vitamin D supplements

HCJ Lai, J Song, Q Lu, SG Murali, M Gajapathy… - Clinical Nutrition …, 2022 - Elsevier
Background & aims Children with cystic fibrosis (CF) are susceptible to fat-soluble vitamin
deficiencies unless supplemented, but even large doses of vitamin D may not prevent low 25-…

[HTML][HTML] VarSight: prioritizing clinically reported variants with binary classification algorithms

JM Holt, B Wilk, CL Birch, DM Brown, M Gajapathy… - BMC …, 2019 - Springer
Background When applying genomic medicine to a rare disease patient, the primary goal is
to identify one or more genomic variants that may explain the patient’s phenotypes. Typically…

Molecular characterization of juxtaglomerular cell tumors: evidence of alterations in MAPK-RAS pathway

…, M Aron, F Massicano, BM Wilk, M Gajapathy… - Modern Pathology, 2024 - Elsevier
Juxtaglomerular cell tumor (JGCT) is a rare neoplasm, part of the family of mesenchymal
tumors of the kidney. Although the pathophysiological and clinical correlates of JGCT are well-…

Dynamic behavior of oligomeric inorganic pyrophosphatase explored by quasielastic neutron scattering

X Chu, M Gajapathy, KL Weiss… - The Journal of …, 2012 - ACS Publications
The purpose of this investigation is to determine whether a large oligomeric protein, inorganic
pyrophosphatase (IPPase) from Thermococcus thioreducens with quaternary structural …

Identification of pathogenic structural variants in rare disease patients through genome sequencing

JM Holt, CL Birch, DM Brown, M Gajapathy… - BioRxiv, 2019 - biorxiv.org
Purpose Clinical whole genome sequencing is becoming more common for determining the
molecular diagnosis of rare disease. However, standard clinical practice often focuses on …

[PDF][PDF] Rosalution: Supporting data accessibility, integration, curation, interoperability, and reuse for precision animal modeling

…, D Brown, A Foksinska, M Gajapathy… - Journal of Open …, 2023 - joss.theoj.org
One in ten individuals lives with a rare genetic disease;~ 50% are children. Recent advances
have revolutionized our ability to identify candidate and confirmed causal molecular …

DITTO: An Explainable Machine-Learning Model for Transcript-Specific Variant Pathogenicity Prediction

TKK Mamidi, BM Wilk, M Gajapathy, EA Worthey - 2024 - preprints.org
Accurate diagnosis for the 400 million people with rare diseases is critical for healthcare
decisions, prognosis, understanding disease mechanisms, and identification of treatments. …

QuaC: A Pipeline Implementing Quality Control Best Practices for Genome Sequencing and Exome Sequencing Data

M Gajapathy, BM Wilk, EA Worthey - bioRxiv, 2023 - biorxiv.org
Quality Control (QC) of human genome sequencing and exome sequencing data is necessary
to ensure they are of sufficient quality for downstream analyses. While several QC tools …