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sekalylab's Projects

cellranger-atac icon cellranger-atac

Preprocessing pipeline for single-cell ATAC-seq with 10X Genomics kits

citn12_apd1 icon citn12_apd1

Systems immunology characterization of anti-PD1 immunotherapy in the context of HIV-1 infection.

dream icon dream

R script for preprocessing of the DREAM respiratory viral challenge

joana icon joana

R code to reproduce the transcriptomic analysis of the Dias/Koup project

mdsc icon mdsc

R code to reproduce figures of Vaccari M et al. 2009 Front Immunol

mrnaseq.variant icon mrnaseq.variant

Variant (SNP, indel) calling based on RNA-Seq following GATK workflow and adapted to CWRU SLURM cluster

p162 icon p162

ALVAC-SIV alum in RM macaques (Vaccari M. et al., 2016)

p168 icon p168

ALVAC-SIV/gp120 vs NYVAC-SIV/gp120

rv144 icon rv144

R code to generate the figure of RV144 transcriptomic study

study36 icon study36

Study36 - ALVAC-HIV vaccine in NHPs

v43 icon v43

R code to reproduce figures in Vaccari M. et al., 2018

vb012 icon vb012

R code for the transcriptomic analysis of the VB012 study

vb013 icon vb013

Repo for the R code used for the RNA-Seq analysis in Bissa M. et al 2023 Nat Commun

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