Kleinman Lab
Analysis, tools, and software for functional genomics to understand cancer and brain development
McGill University
Pinned Repositories
braindex
A web portal for exploring scRNAseq data in the developing brain, including our in-house atlas of the E10-P6 forebrain and brainstem
chromswitch
An R/Bioconductor package for detecting chromatin state switches
chromswitch-analysis
Code and data to accompany the chromswitch paper, "chromswitch: A flexible method for detecting chromatin state switches" (Jessa and Kleinman, Bioinformatics, 2018)
CoRAL
cytobox
A toolbox for analysis and highly-customizable visualization of single cell data
G34-gliomas
Cell-of-origin analysis for "Histone H3.3G34-mutant interneuron progenitors co-opt PDGFRA for gliomagenesis" (Chen*, Deshmukh*, Jessa*, Hadjadj*, et al, Cell, 2020)
HGG-oncohistones
Analysis for "K27M in canonical and noncanonical H3 variants occurs in distinct oligodendroglial cell lineages in brain midline gliomas" (Jessa et al, Nature Genetics, 2022)
NB-FOXR2
Analysis for "FOXR2 targets LHX6+/DLX+ neural lineages to drive CNS neuroblastoma" (Jessa*, De Cola*, Chandarana*, et al, Cancer Research, 2024)
sandbox
A sandbox to test our workflow
scCoAnnotate
Pipeline for consensus prediction of cell types in single-cell RNA sequencing data.
Kleinman Lab's Repositories
fungenomics/HGG-oncohistones
Analysis for "K27M in canonical and noncanonical H3 variants occurs in distinct oligodendroglial cell lineages in brain midline gliomas" (Jessa et al, Nature Genetics, 2022)
fungenomics/cytobox
A toolbox for analysis and highly-customizable visualization of single cell data
fungenomics/scCoAnnotate
Pipeline for consensus prediction of cell types in single-cell RNA sequencing data.
fungenomics/CoRAL
fungenomics/NB-FOXR2
Analysis for "FOXR2 targets LHX6+/DLX+ neural lineages to drive CNS neuroblastoma" (Jessa*, De Cola*, Chandarana*, et al, Cancer Research, 2024)
fungenomics/braindex
A web portal for exploring scRNAseq data in the developing brain, including our in-house atlas of the E10-P6 forebrain and brainstem
fungenomics/chromswitch
An R/Bioconductor package for detecting chromatin state switches
fungenomics/chromswitch-analysis
Code and data to accompany the chromswitch paper, "chromswitch: A flexible method for detecting chromatin state switches" (Jessa and Kleinman, Bioinformatics, 2018)
fungenomics/G34-gliomas
Cell-of-origin analysis for "Histone H3.3G34-mutant interneuron progenitors co-opt PDGFRA for gliomagenesis" (Chen*, Deshmukh*, Jessa*, Hadjadj*, et al, Cell, 2020)
fungenomics/Parameterized_report
Parameterized report and interactive plot introduction and demo
fungenomics/sandbox
A sandbox to test our workflow