Uma Chandran, MSIS, PhD Research Associate Professor, DBMI Training Program Core Faculty Director, Cancer Bioinformatics Services Director, Genomics Analysis Core

Genomics Cores Cancer Bionformatics Services (CBS) For the UPMC Hillman Cancer Center Started in 2004 Cancer Center Support Grant (CCSG) – rated exceptional 2 Master’s level analysts Co-authors on 40 + publications Genomics Analysis Core 2 analysts 24 projects in since 2016 4 publications Partnered with HSLS and high performance computing facilities including PSC and CRC

Objectives Genomics Data analysis Microarray, NGS from all platforms and applications, integrative analysis, TCGA, GEO Infrastructure Hardware and software, storage solutions NGS Support for DBMI’s data science portfolio – PACURE, BD2K Genomics analysis, integrating genotype with phenotype

Projects Cancer Bioinformatics Services Genomics Analysis Core Melanoma: correlative analysis with immune markers in dendritic cell vaccine Lung Cancer : somatic variant analysis in brain mets Head and Neck Cancer: somatic variant analysis and RNA Seq analysis of tumor specimens Cholangiocarcinoma: somatic variant analysis Mesothelioma: integrative RNA seq and Exome seq variant analysis Breast: microarray analysis of LSD1 and LSD2 KO, Genomics Analysis Core Transcriptome during monkey gonadal development – RNA and miR Seq Variants with severity of diseases in pediatric sepsis – WES Seq De Novo transcriptome of opossum kidney – RNA Seq Differences between lizard and salamander tail regeneration – RNA Seq Influenza vaccine study – RNA Seq HIV mutational analysis Chromatin changes in B-cells following transplantation – ATAC Seq Infrastructure Pittsburgh Genome Resource Repository (PGRR) Support for BD4BH, PACURE

Grant funding, Collaborators, Challenges Grants NCI – Cancer Center Support Grant School of Medicine – Genomics Analysis Core NCI - Skin SPORE USAID – Urvi Parikh NIH and NCI - R01 to Drs Wang, Pollack, Plant, Locker, Carcillo, Weisz Other sources of grant funding for Stabile, Ferris, Dacic Collaborators University of Pittsburgh faculty who use core’s services Graduate students from DBMI, Graduate School of Public Health, undergraduate joint program in Computer Science and Biology, UPCI summer academy students Challenges Request for services is growing and we are at capacity Training, staffing