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@DiseaseNeuroGenomics Center for Disease Neurogenomics @ Mount Sinai

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    33 repositories

    • PsychAD

      Public
      SCSS
      •0•1•0•0•Updated Jul 17, 2026Jul 17, 2026

    • variancePartition

      Public
      Quantify and interpret divers of variation in multilevel gene expression experiments
      R
      •17•16•0•0•Updated Jul 14, 2026Jul 14, 2026

    • nps_ad

      Public
      R code for analysis of NPS/AD data
      R
      •1•0•0•0•Updated Jul 6, 2026Jul 6, 2026

    • crumblr

      Public
      Count ratio uncertainty modeling base linear regression
      R
      •2•7•0•0•Updated Jul 6, 2026Jul 6, 2026

    • phecoder

      Public
      Semantic ICD code ranking for efficient Phecode curation
      Jupyter Notebook
      •
      Apache License 2.0
      •0•1•0•0•Updated Jun 11, 2026Jun 11, 2026

    • dreamscape

      Public
      Dreamscape ecosystem
      CSS
      •1•0•0•0•Updated Jun 8, 2026Jun 8, 2026

    • scMyeloidAD

      Public
      Plasticity of Human Microglia and Brain Perivascular Macrophages in Aging and Alzheimer’s Disease
      Python
      •
      MIT License
      •3•4•0•0•Updated Jun 4, 2026Jun 4, 2026

    • AMP-PD

      Public
      Jupyter Notebook
      •0•1•0•0•Updated May 28, 2026May 28, 2026

    • dreamlet

      Public
      Perform differential expression analysis on cohort-scale single cell datasets using linear mixed models
      HTML
      •6•23•0•0•Updated May 22, 2026May 22, 2026

    • molecular_profiling

      Public
      Code for Molecular Profiling manuscript
      R
      •
      MIT License
      •0•0•0•0•Updated May 20, 2026May 20, 2026

    • Somatic-Mosaicism-in-AD

      Public
      Scripts related to somatic mutation analysis in ageing and Alzheimer's disease
      R
      •0•0•0•0•Updated Apr 4, 2026Apr 4, 2026

    • DLPFC_Lifespan_Atlas

      Public
      Jupyter Notebook
      •1•1•0•0•Updated Jan 7, 2026Jan 7, 2026

    • CellPainting

      Public
      Analysis of Cell Painting morphological data
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Sep 12, 2025Sep 12, 2025

    • PsychADxD

      Public
      PsychAD Cross-Disorder Capstone - Single-cell atlas of transcriptomic vulnerability across multiple neuropsychiatric and neurodegenerative diseases
      Jupyter Notebook
      •1•5•0•0•Updated Sep 5, 2025Sep 5, 2025

    • remaCor

      Public
      remaCor: Random effects meta-analysis for correlated test statistics
      R
      •2•1•0•0•Updated Aug 7, 2025Aug 7, 2025

    • GenomicDataStream

      Public
      Read genomic data files (VCF, BCF, BGEN, PGEN, BED, H5AD, HDF5, DelayedArray) into R/Rcpp in chunks
      C
      •2•0•0•0•Updated Jul 1, 2025Jul 1, 2025

    • perceiver

      Public
      Network model to predict gene expression and cell properties from masked-out scRNA data
      Python
      •
      MIT License
      •0•1•0•0•Updated Jun 26, 2025Jun 26, 2025

    • MyeloidAD

      Public
      Code repository for analysis of RNA-seq data from myeloid cells from AD
      Apache License 2.0
      •0•2•0•0•Updated May 29, 2025May 29, 2025

    • diseaseneurogenomics.github.io

      Public
      Website
      0•0•0•0•Updated Jan 31, 2025Jan 31, 2025

    • antagonist

      Public
      Gene target prioritization and computational drug repurposing
      R
      •
      Artistic License 2.0
      •2•1•0•0•Updated Jan 14, 2025Jan 14, 2025

    • snMultiome

      Public
      Analysis scripts for snMultiome project
      R
      •5•16•0•0•Updated Dec 12, 2024Dec 12, 2024

    • PsychAD_snTWAS

      Public
      Repository for data associated with the psychAD snTWAS paper. Synapse information located at https://www.synapse.org/Synapse:syn63181047/files/
      1•0•0•0•Updated Sep 16, 2024Sep 16, 2024

    • psychAD_SciData

      Public
      Plot figures from the psychAD paper
      Jupyter Notebook
      •
      MIT License
      •1•0•0•0•Updated Jun 12, 2024Jun 12, 2024

    • AMP-PD_SciData

      Public
      AMP-PD Scientifc Data Figures
      R
      •
      MIT License
      •1•3•0•0•Updated May 30, 2024May 30, 2024

    • vae

      Public
      scVI-based VAE to encode cells into lower dimensional latent space, and to predict cell properties
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Apr 28, 2024Apr 28, 2024

    • PheMED

      Public
      Phenotypic Measurement of Effective Dilution in GWAS and TWAS.
      Jupyter Notebook
      •2•1•0•0•Updated Mar 25, 2024Mar 25, 2024

    • zenith

      Public
      Gene set analysis following differential expression using linear (mixed) modeling with dream
      R
      •2•0•0•0•Updated Mar 8, 2024Mar 8, 2024

    • living_brain

      Public
      Comparison between living and post-mortem mRNA expression data
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Aug 11, 2023Aug 11, 2023

    • TRABAJO

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Jun 27, 2023Jun 27, 2023

    • decorate

      Public
      Differential Epigenetic Correlation Test
      R
      •2•1•0•0•Updated May 17, 2023May 17, 2023
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