Srikar Chamala, PhD

Associate Professor of Clinical Pathology

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Publications

  • Sync for Genes Phase 5: Computable artifacts for sharing dynamically annotated FHIR-formatted genomic variants Learn Health Syst. 2023 Oct; 7(4):e10385. . View in PubMed
  • Transcriptional Profile of Human Pancreatic Acinar Ductal Metaplasia Gastro Hep Adv. 2023; 2(4):532-543. . View in PubMed
  • Introducing HL7 FHIR Genomics Operations: a developer-friendly approach to genomics-EHR integration J Am Med Inform Assoc. 2023 02 16; 30(3):485-493. . View in PubMed
  • Automated HL7v2 LRI informatics framework for streamlining genomics-EHR data integration J Pathol Inform. 2023; 14:100330. . View in PubMed
  • Development and application of a computable genotype model in the GA4GH Variation Representation Specification Pac Symp Biocomput. 2023; 28:383-394. . View in PubMed
  • A genomic data archive from the Network for Pancreatic Organ donors with Diabetes Sci Data. 2023 05 26; 10(1):323. . View in PubMed
  • Maintaining informatics training learning outcomes with a COVID-19 era shift to a fully online flipped course J Pathol Inform. 2022 Dec 01; 100162. . View in PubMed
  • Pharmacological inhibition and reversal of pancreatic acinar ductal metaplasia Cell Death Discov. 2022 Sep 02; 8(1):378. . View in PubMed
  • HUMAN STUDY COMT and DRD3 haplotype-associated pain intensity and acute care utilization in adult sickle cell disease Exp Biol Med (Maywood). 2022 09; 247(17):1601-1608. . View in PubMed
  • The vaginal microbiome is associated with endometrial cancer grade and histology Cancer Res Commun. 2022 06; 2(6):447-455. . View in PubMed
  • Analysis of AVPR1A, thermal and pressure pain thresholds, and stress in sickle cell disease Front Pain Res (Lausanne). 2022; 3:1060245. . View in PubMed
  • Wrong Tissue in Block Am J Clin Pathol. 2021 Sep 08; 156(4):700-707. . View in PubMed
  • The Hologic Aptima SARS-CoV-2 assay enables high ratio pooling saving reagents and improving turnaround time J Clin Lab Anal. 2021 Sep; 35(9):e23888. . View in PubMed
  • vcf2fhir: a utility to convert VCF files into HL7 FHIR format for genomics-EHR integration BMC Bioinformatics. 2021 Mar 02; 22(1):104. . View in PubMed
  • Building a precision oncology workforce by multidisciplinary and case-based learning BMC Med Educ. 2021 Jan 26; 21(1):75. . View in PubMed
  • Digital Pathology in Cameroon JCO Glob Oncol. 2021 08; 7:1380-1389. . View in PubMed
  • Genetic Composition and Autoantibody Titers Model the Probability of Detecting C-Peptide Following Type 1 Diabetes Diagnosis Diabetes. 2021 04; 70(4):932-943. . View in PubMed
  • Integrative analyses of TEDDY Omics data reveal lipid metabolism abnormalities, increased intracellular ROS and heightened inflammation prior to autoimmunity for type 1 diabetes Genome Biol. 2021 01 21; 22(1):39. . View in PubMed
  • Pathology Informatics and Robotics Strategies for Improving Efficiency of COVID-19 Pooled Testing Acad Pathol. 2021 Jan-Dec; 8:23742895211020485. . View in PubMed
  • Reverse Plasticity Underlies Rapid Evolution by Clonal Selection within Populations of Fibroblasts Propagated on a Novel Soft Substrate Mol Biol Evol. 2021 07 29; 38(8):3279-3293. . View in PubMed
  • An Assessment of Ovarian Cancer Histotypes Across the African Diaspora Front Oncol. 2021; 11:732443. . View in PubMed
  • Enrichment of the erythrocyte miR-451a in brain extracellular vesicles following impairment of the blood-brain barrier Neurosci Lett. 2021 04 23; 751:135829. . View in PubMed
  • Informatics driven quality improvement in the modern histology lab JAMIA Open. 2020 Dec; 3(4):530-535. . View in PubMed
  • Optimizing COVID-19 testing capabilities and clinical management using pathology informatics JAMIA Open. 2020 Dec; 3(4):523-529. . View in PubMed
  • Histological validation of a type 1 diabetes clinical diagnostic model for classification of diabetes Diabet Med. 2020 12; 37(12):2160-2168. . View in PubMed
  • Disparities in Pancreatic Ductal Adenocarcinoma-The Significance of Hispanic Ethnicity, Subgroup Analysis, and Treatment Facility on Clinical Outcomes Cancer Med. 2020 06; 9(12):4069-4082. . View in PubMed
  • Informatics Training for Pathology Practice and Research in the Digital Era Acad Pathol. 2020 Jan-Dec; 7:2374289520911179. . View in PubMed
  • The avocado genome informs deep angiosperm phylogeny, highlights introgressive hybridization, and reveals pathogen-influenced gene space adaptation Proc Natl Acad Sci U S A. 2019 08 20; 116(34):17081-17089. . View in PubMed
  • Endometrial Thickness as Measured by Transvaginal Ultrasound and the Corresponding Histopathologic Diagnosis in Women With Postmenopausal Bleeding Int J Gynecol Pathol. 2017 Jul; 36(4):348-355. . View in PubMed
  • Deep reticulation and incomplete lineage sorting obscure the diploid phylogeny of rain-lilies and allies (Amaryllidaceae tribe Hippeastreae) Mol Phylogenet Evol. 2017 06; 111:231-247. . View in PubMed
  • The mammalian LINC complex regulates genome transcriptional responses to substrate rigidity Sci Rep. 2016 12 01; 6:38063. . View in PubMed
  • A Consensus Genetic Map for Pinus taeda and Pinus elliottii and Extent of Linkage Disequilibrium in Two Genotype-Phenotype Discovery Populations of Pinus taeda G3 (Bethesda). 2015 Jun 11; 5(8):1685-94. . View in PubMed
  • MarkerMiner 10: A new application for phylogenetic marker development using angiosperm transcriptomes. Appl Plant Sci. 2015 Apr; 3(4). . View in PubMed
  • Genome-wide identification of evolutionarily conserved alternative splicing events in flowering plants Front Bioeng Biotechnol. 2015; 3:33. . View in PubMed
  • Primers for low-copy nuclear genes in Metrosideros and cross-amplification in Myrtaceae Appl Plant Sci. 2014 Oct; 2(10). . View in PubMed
  • Assembly and validation of the genome of the nonmodel basal angiosperm Amborella Science. 2013 Dec 20; 342(6165):1516-7. . View in PubMed
  • Validation of reference transcripts in strawberry (Fragaria spp). Mol Genet Genomics. 2013 Dec; 288(12):671-81. . View in PubMed
  • Primers for low-copy nuclear genes in the Hawaiian endemic Clermontia (Campanulaceae) and cross-amplification in Lobelioideae Appl Plant Sci. 2013 Jun; 1(6). . View in PubMed
  • Potential use of low-copy nuclear genes in DNA barcoding: a comparison with plastid genes in two Hawaiian plant radiations BMC Evol Biol. 2013 Feb 09; 13:35. . View in PubMed
  • Rapid, repeated, and clustered loss of duplicate genes in allopolyploid plant populations of independent origin Curr Biol. 2012 Feb 07; 22(3):248-52. . View in PubMed
  • Next-generation sequencing and genome evolution in allopolyploids Am J Bot. 2012 Feb; 99(2):372-82. . View in PubMed
  • A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure Genome Biol. 2011; 12(5):R48. . View in PubMed
  • Characterization of duplicate gene evolution in the recent natural allopolyploid Tragopogon miscellus by next-generation sequencing and Sequenom iPLEX MassARRAY genotyping Mol Ecol. 2010 Mar; 19 Suppl 1:132-46. . View in PubMed
  • Evolutionary selective pressure on three mitochondrial SNPs is consistent with their influence on metabolic efficiency in Pima Indians Int J Bioinform Res Appl. 2007; 3(4):504-22. . View in PubMed