L. Collado-Torres
At the Lieber Institute for Brain Development, I lead the R/Bioconductor-powered Team Data Science team. My team aims to better understand the roots and signatures of disease (particularly psychiatric disorders) by zooming in across dimensions of gene activity: from studying gene expression at all feature levels (genes to exons to exon-exon junctions and un-annotated regions of expression), to using different gene expression measurement technologies (bulk RNA-seq, single cell/nuclei RNA-seq to spatial transcriptomics) that provide finer biological resolution and localization of gene expression. I’m interested in both hypothesis-driven projects as well as building general resources such as recount2 that enable us to contextualize our findings across all of the public human gene expression landscape. I use the R programming language for nearly all my work and like to organize my code in R packages that I share mostly through the Bioconductor project, for which I’m part of its Community Advisory Board. From my position at LIBD, I’m able to interact with and collaborate with fantastic biologists, data scientists, researchers at Johns Hopkins University and beyond. Furthermore, I officially help mentor LIBD employees in data science and R tools.
As a quick background, I graduated from the Undergraduate Program on Genomic Sciences from the National Autonomous University of Mexico ( UNAM) in 2009 and worked for two years at Winter Genomics analyzing high-throughput sequencing data. I then got a PhD in 2016 from the Department of Biostatistics at Johns Hopkins Bloomberg School of Public Health thanks to a CONACyT scholarship. I worked with Jeff Leek and Andrew Jaffe in developing derfinder and recount. I then worked ~ 3.5 years as a Staff Scientist in Andrew Jaffe’s lab on a variety of data analysis projects.
Every day I use R and Bioconductor, and on some days I write R packages. Occasionally I blog about them and other tools. I’m a co-founder of the LIBD rstats club and the CDSB community of R and Bioconductor developers in Mexico and Latin America, just like we described at the R Consortium website.
If you want to join my team, please get in touch! ^_^ 💪🏽🇲🇽
Interests
- Genomics
- R programming
- Biostatistics
- Teaching
- Diversity
Education
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PhD in Biostatistics, 2016
Johns Hopkins Bloomberg School of Public Health
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Bachelor in Genomic Sciences (LCG), 2009
National Autonomous University of Mexico (UNAM)
