Chris Stoeckert's Home Page

Christian J. Stoeckert, Jr., Ph.D.
Research Professor, Dept. of Genetics
Institute for Biomedical Informatics
see also my Penn School of Medicine home page

Curriculum vitae


"Transforming and Unifiying Research with Biomedical Ontologies: TURBO-charging clinical data at Penn", Clinical Terminologies Shock & Awe meeting, Buffalo, NY.
"Annotation of Samples in LabVantage Using the Ontology for Biobanking", LabVantage CTEC 2016, Orlando, FL.
"The Ontology for Biobanking" (pptx), Clinical and Translational Science Ontology Workshop, Charleston, South Carolina.
"Integration and alignment of ontologies for cancer metadata collection based on the Ontology for Biomedical Investigations (OBI)" (pptx), The Role of Ontology in Big Cancer Data, Rockville, MD.
"Standardized Metadata for Human Pathogen/Vector Genomic Sequences", International Conference on Biomedical Ontology 2014 Panel on Ontology, Genomics and Big Data in Biology, Houston, TX.
"Issues in Infectious Disease Genomics," (pdf) FGED Society meeting, Toronto, Oct. 2012.
"Strategies for data mining biomedical networks," Center for Bioinformatics and Computational Biology, University of Maryland. Feb., 2012.
"Reproducible HTS research: MINSEQE and more," (ppt) CHOP/Penn NGS Symposium,June 17, 2011.
"Integrative Tools for Protozoan Parasite Research," (ppt) NCBO webinar, April 6, 2011.
"Bioinformatics: Making sense of functional genomics data," (ppt) Golden Helix Symposia, Dec. 3, 2010, Athens, Greece.
"The MGED Society: Facilitating Data Sharing and Integration with Standards," Webinar for the CTSA Omics Data Standards Working group. (ppt). March 4, 2010.
"Network models for understanding pancreatic islets," Vanderbilt University, Nashville, TN
"Comparative genomics, expression profiles, and study annotations: Data integration approaches to fighting malaria and diabetes"(pdf) Dec. 10, 2008. Computational Biology seminar series at SRI International
"Annotation-based meta-analysis of microarray experiments" (ppt) Feb 26, 2008, Yale Biostatistics Seminar Series.
"Predicting functions in Plasmodium and other Apicomplexa" (pdf) Dec. 10, 2007. Graduate Seminars in parasitology (U. Penn School of Veterinary Medicine).
"Computational modeling of malarial parasite protein interactions reveals function on a genome-wide scale" (ppt) Oct. 18, 2006 PICASso "Successes of Computational Biology", Princeton.
"Standards and the GUS database system for funtional genomics" (ppt) March 7, 2006 Distinguished Lecture ITC-IRST, Trento, Italy.
"Cracking the promoter code: Identifying regulatory modules for tissue-specific transcripts" (ppt) Nov. 15, 2005 University of Nebraska Medical Center
"Computational Analysis of Tissue Specificity: Decoding Promoters" (ppt) Nov. 17, 2004 Department of Physiology Seminar Series, University of Kentucky
"GUS: A Functional Genomics Data Management System" (ppt) ASM Conference on Functional Genomics and Bioinformatics Approaches to Infectious Disease Research October 8, 2004 Portland, Oregon.
"Annotating microarray data with the MGED Ontology." (ppt) NCI Center for Bioinformatics. April 15, 2004, Bethesda, MD.
"RADical microarray data: standards, databases, and analyses." (ppt) Yale Microarray Data Analysis Workshop. Dec. 5, 2003. New Haven, CT.
Lectures for the Greater Philadelphia Bioinformatic Alliance Workshop. "Development and differentiation: The Princeton stem cell data set." and "Differential expression and false discovery rate." Oct. 13-15, 2003. Philadelphia, PA.
"Generating useful information in toxicogenomics: Focused efforts: Microarray standards." (ppt)The National Academies. Feb 6, 2003. Washington D.C.
"The MGED Ontology: A framework for describing functional genomics experiments." (ppt) Standards and Ontologies for Functional Genomics, 17th to 20th November, 2002, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
"Sharing Microarray Knowledge" (ppt) Chips to Hits. Oct. 28, 2002. Philadelphia, PA
"Integrated Data Systems for Genomic Analysis" (ppt) Genomics and Bioinformatics for the Advancement of Clinical Sciences, Oct. 14, 2002, Thomas Jefferson University, Philadelphia, PA


CBIL: Computational Biology and Informatics Laboratory (My lab).
IBI: Institute for Biomedical Informatics.
Genetics Department (My home department).
FGED: Functional Genomics Data Society
OBI Ontology for Biomedical Investigations