Selected Publications

† indicates corresponding author, * indicates equal contribution

Non-coding Class Switch Recombination-related transcription in human normal and pathological immune responses

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Developmental and genetic regulation of the human cortex transcriptome illuminate schizophrenia pathogenesis

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Reproducible RNA-seq analysis using recount2

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Flexible expressed region analysis for RNA-seq with derfinder

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Recent Publications

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† indicates corresponding author, * indicates equal contribution

Developmental effects of maternal smoking during pregnancy on the human frontal cortex transcriptome

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Non-coding Class Switch Recombination-related transcription in human normal and pathological immune responses

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Dissecting transcriptomic signatures of neuronal differentiation and maturation using iPSCs

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Developmental and genetic regulation of the human cortex transcriptome illuminate schizophrenia pathogenesis

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Recent & Upcoming Talks

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Recent Posts

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Posts with the rstats category can also be found at RBloggers, R Weekly and DataCamp Community. Also check the LIBD rstats club where I am a contributor.

Today I attended the special panel discussion event at JHSPH called “Separated: Children Separation at the Border A Health and Human Rights Perspective”. It got my mind racing and here’s an idea. It’s likely (definitely) incomplete, but maybe it’ll get others to think on related ideas. Image source Panel summary The panel was composed by: Colleen Kraft, President, American Academy of Pediatrics Eric Schwartz, President, Refugee International George Escobar, Chief of Program and Services, CASA de Maryland Paul Spiegel, Director, Center for Humanitarian Health I missed the first 30 minutes or so but I still got to listen to most of it.

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This blog post was written by ME Martinez-Sanchez, S Muñoz, M Carrillo, E Azpeitia, D Rosenblueth and originally posted at the CDSB blog.1 In this blog post we will describe the package rGriffin (Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018) that was one of the projects developed during the TIB2018-BCDW. We hope to continue developing Griffin and rGriffin (Martinez-Sanchez, Muñoz, Carrillo, Azpeitia, et al., 2018). If you have ideas, suggestions or bugs, please contact us via rGriffin GitHub repo.

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Today was a big day. I care about many things including diversity in science (STEM) and building a community of R users and developers in Mexico. Both moved forward in two completely separate conferences: one in Mexico: CDSBMexico; and one in Canada: JSM2018. CDSBMexico This was a very important day for me. It was the beginning of the Latin American R/BioConductor Developers Workshop 2018 in Cuernavaca, Mexico. I already wrote a blog post about why I was super excited about CDSBMexico, but briefly it’s because this is something we’ve been wanting to see become a reality for years and have been working towards it.

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Curriculum vitae

Download my cv or view it at GitHub.

Students

Here you can find the students that I've mentored as their advisor and/or are currently working with me.

LIBD

2017-2018

Teaching

LIBD

2016

  1. Biostatistics and Stata instructor at a workshop for Kandahar University Faculty, organized by Johns Hopkins University.
  2. Invited instructor for the Genomeeting 2016 course biostat INMEGEN, Mexico City, Mexico.

JHBSPH

2015-2016

  1. Teaching assistant and guest lecturer for Introduction to R for Public Health Researchers
  2. Teaching assistant for Statistical Methods in Public Health I (140.621)
  3. Lead teaching assistant for Statistical Methods in Public Health II (140.622).
  4. Teaching assistant for the MPH capstone project.

2014-2015

  1. Lead teaching assistant for Statistical Methods in Public Health I (140.621) and II (140.622).
  2. Teaching assistant for the MPH capstone project.

2013-2014

  1. Teaching assistant for Statistical Methods in Public Health I (140.621) and II (140.622).
  2. Teaching assistant for the MPH capstone project. Developed a shiny application that allows students to sign up for a TA session (code) and wrote a report of the number of TA sessions available here.

2012-2013

  1. Teaching assistant for Statistical Methods in Public Health I (140.621), II (140.622), III (140.623), and IV (140.624) courses.

UNAM

PDCB

While working at Winter Genomics I taught two courses for students of the Biomedical Sciences PhD Program (PDCB) from the National Autonomous University of Mexico (UNAM).

  1. Analysis of High-Throughput Sequencing data with Bioconductor Aug-Dec 2010.
  2. Introduction to R and Biostatistics (along with two other teachers).

IBT

While I was at the Institute of Biotechnology (UNAM) working with the Winter Genomics crew I organized two courses. One was a series of various bioinformatics and biology mini-courses and another one involved members of different institutions.

  1. Introduction to R for bench biologists Oct-Nov 2009. This mini-course has quite a bit of material on learning how to make plots with R.
  2. Métodos Estadísticos y Analíticos de Datos Genómicos (Statistical Methods and Analysis of Genomic Data) Jan 2010. This one week course had lectures about Perl, using a Cluster, high-throughput technologies, R and Bioconductor, C, and biology overviews.

LCG

I taught three courses during my undergrad stage at the Undergraduate Program on Genomic Sciences (LCG). Each of these courses has its own website organizing the material. These are:

  1. Intensive course on R/Bioconductor Oct-Nov 2008 (backup)
  2. Principles of Statistics Feb-June 2009 (backup)
  3. Seminar III: R/Bioconductor Aug-Dec 2009 (backup)

Contact

If you have questions about the Bioconductor packages I maintain, please read this post. If you send me an email, I'll simply refer you to the same post.