Erik Ferlanti

Erik Ferlanti

Senior Bioinformatics Software Engineer

Life Sciences Computing


Erik is an experienced software engineer specializing in developing tools for bioinformatics research. He joined TACC in May of 2016 as a Senior Bioinformatics Software Engineer in the Life Sciences Computing Group where he works on portal / science gateway development, building tools for cloud computing, and helping researchers design genomics workflows in a high performance computing environment. Prior to joining TACC, Erik earned a B.S. in Aerospace Engineering from the University of Maryland and a M.S. in Computer Science from Johns Hopkins University. He also spent many years working at The Institute for Genomic Research (TIGR) / J. Craig Venter Institute (JCVI) where he worked on developing laboratory information systems, building pipelines for analyzing next-generation sequencing data, high-throughput tools used in functional genomics research of pathogens, and developing an information portal for Arabidopsis thaliana genomics data.


Areas of Research

Cloud computing

Container technologies

Performance optimization

Portals/Science gateways

Next-generation sequencing technologies

Current Projects

CyVerse/Atomosphere

DARPA - SD2E: Synergistic Discovery and Design Environment

Bioinformatics

Scientific Software Development

University of Texas Research Cyberinfrastructure (UTRC)

The Arabidopsis Information Portal


Selected Publications

Waese J., Fan J., Pasha A., Yu H., Fucile G., Shi R., Cumming M., Kelley L., Sternberg M., Krishnakumar V., Ferlanti E., Miller J., Town C., Stuerzlinger W., Provart N.J. (2017). ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology. Plant Cell, tpc.00073.2017.

Krishnakumar V., Contrino S., Cheng C.Y., Belyaeva I., Ferlanti E.S., Miller J.R., Vaughn M.W., Micklem G., Town C.D., Chan A.P. (2017). ThaleMine: A Warehouse for Arabidopsis Data Integration and Discovery. Plant and Cell Physiology, 58(1), e4–e4.

Hanlon, M.R., Vaughn, M., Mock, S., Dooley, R., Moreira, W., Stubbs, J., … Ferlanti, E. (2015). Araport: an application platform for data discovery. Concurrency and Computation: Practice and Experience, 27(16), 4412–4422.

Krishnakumar V., Hanlon M.R., Contrino S., Ferlanti E.S., Karamycheva S., Kim M., Rosen B.D., Cheng C.Y., Moreira W., Mock S.A., Stubbs J., Sullivan J.M., Krampis K., Miller J.R., Micklem G., Vaughn M., Town C.D. (2014). Araport: the Arabidopsis information portal. Nucleic Acids Research, 43(D1), D1003–D1009.

Gilchrist C.A., Ali I.K., Kabir M., Alam F., Scherbakova S., Ferlanti E., Weedall G.D., Hall N., Haque R., Petri W.A. Jr., Caler E. (2012). A Multilocus Sequence Typing System (MLST) reveals a high level of diversity and a genetic component to Entamoeba histolytica virulence. BMC Microbiology, 12:151.

Braisted J.C., Kuntumalla S., Vogel C., Marcotte E.M., Rodrigues A.R., Wang R., Huang S.T., Ferlanti E.S., Saeed A.I., Fleischmann R.D., Peterson S.N., Pieper R. (2008). The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MS/MS proteomics results. BMC Bioinformatics, 9:529.

Ferlanti E.S., Ryan J.F., Makalowska I., Baxevanis A.D. (1999). WebBLAST 2.0: an integrated solution for organizing and analyzing sequence data. Bioinformatics, 15(5):422-3.

Makalowska I., Ferlanti E.S., Baxevanis A.D., Landsman D. (1999). Histone Sequence Database: sequences, structures, post-translational modifications and genetic loci. Nucleic Acids Research, 27(1):323-4.

Banerjee-Basu S., Ferlanti E.S., Ryan J.F., Baxevanis A.D. (1999). The Homeodomain Resource: sequences, structures and genomic information. Nucleic Acids Research, 27(1):336-7.


Education

M.S. Computer Science,
John Hopkins University

B.S. Aerospace Engineering,
University of Maryland at College Park