scREAD A Single-cell RNA-Seq Database for Alzheimer's Disease

Dataset

NOTE: Processed data from Synapse was not available.

scREAD data ID Description Gene expression matrix (.txt.gz) Cell type label (.txt.gz) Processed Seurat object (.rds) Raw data (.fst)
AD00101 H-H-Prefrontal cortex-Male syn18485175;syn21125841 NA NA NA
AD00102 H-AD.late-Prefrontal cortex-Male_001 syn18485175 NA NA NA
AD00103 H-AD.late-Prefrontal cortex-Female_001 syn18485175 NA NA NA
AD00104 H-AD.early-Prefrontal cortex-Male_001 syn18485175 NA NA NA
AD00105 H-AD.early-Prefrontal cortex-Female_001 syn18485175 NA NA NA
AD00106 H-H-Prefrontal cortex-Female syn18485175;syn21125841 NA NA NA
AD00107 H-AD-Prefrontal cortex-Male_001 syn21125841 NA NA NA
AD00108 H-AD-Prefrontal cortex-Male_002 syn21125841 NA NA NA
AD00109 H-AD-Prefrontal cortex-Female_001 syn21125841 NA NA NA
AD00110 H-AD-Prefrontal cortex-Female_002 syn21125841 NA NA NA
AD00201 H-H-Entorhinal Cortex-Male Download Download Download Download
AD00202 H-H-Entorhinal Cortex-Female Download Download Download Download
AD00203 H-AD-Entorhinal Cortex-Male_001 Download Download Download Download
AD00204 H-AD-Entorhinal Cortex-Female_001 Download Download Download Download
AD00205 H-AD.Braak 2-Entorhinal cortex -Male_001 Download Download Download Download
AD00206 H-AD.Braak 6-Entorhinal cortex -Male_001 Download Download Download Download
AD00301 M-H-Cortex-Male-7m Download Download Download Download
AD00302 M-H-Cortex-Male-15m Download Download Download Download
AD00303 M-AD-Cortex-Male-7m_001 Download Download Download Download
AD00304 M-AD-Cortex-Male-7m_002 Download Download Download Download
AD00305 M-AD-Cortex-Male-7m_003 Download Download Download Download
AD00306 M-AD-Cortex-Male-7m_004 Download Download Download Download
AD00307 M-AD-Cortex-Male-15m_001 Download Download Download Download
AD00308 M-AD-Cortex-Male-15m_002 Download Download Download Download
AD00309 M-AD-Cortex-Male-15m_003 Download Download Download Download
AD00401 M-H-Cerebral cortex-Female-15m Download Download Download Download
AD00402 M-AD-Cerebral cortex-Female-15m_001 Download Download Download Download
AD00403 M-AD-Cerebral cortex-Female-15m_002 Download Download Download Download
AD00404 M-AD-Cerebral cortex-Male-15m_001 Download Download Download Download
AD00405 M-AD-Cerebral cortex-Male-15m_002 Download Download Download Download
AD00501 M-H-Cerebellum-Male-7m Download Download Download Download
AD00502 M-AD-Cerebellum-Male-7m_001 Download Download Download Download
AD00601 M-H-Prefrontal cortex-Male-7m Download Download Download Download
AD00602 M-H-Prefrontal cortex-Male-15m Download Download Download Download
AD00603 M-AD-Prefrontal cortex-Male-7m_001 Download Download Download Download
AD00604 M-AD-Prefrontal cortex-Male-15m_001 Download Download Download Download
AD00702 M-H-Hippocampus-Male-7m Download Download Download Download
AD00703 M-H-Hippocampus-Male-15m Download Download Download Download
AD00704 M-H-Hippocampus-Female-7m Download Download Download Download
AD00705 M-H-Hippocampus-Female-20m Download Download Download Download
AD00708 M-AD-Hippocampus-Male-7m_001 Download Download Download Download
AD00709 M-AD-Hippocampus-Male-7m_002 Download Download Download Download
AD00710 M-AD-Hippocampus-Male-7m_003 Download Download Download Download
AD00711 M-AD-Hippocampus-Male-15m_001 Download Download Download Download
AD00712 M-AD-Hippocampus-Male-15m_002 Download Download Download Download
AD00713 M-AD-Hippocampus-Male-15m_003 Download Download Download Download
AD00714 M-AD-Hippocampus-Male-15m_006 Download Download Download Download
AD00715 M-AD-Hippocampus-Male-15m_007 Download Download Download Download
AD00716 M-AD-Hippocampus-Male-15m_008 Download Download Download Download
AD00717 M-AD-Hippocampus-Male-20m_002 Download Download Download Download
AD00718 M-AD-Hippocampus-Female-7m_001 Download Download Download Download
AD00719 M-AD-Hippocampus-Female-20m_001 Download Download Download Download
AD00801 H-H-Superior frontal gyrus-Male Download Download Download Download
AD00802 H-AD.Braak 2-Superior frontal gyrus-Male_001 Download Download Download Download
AD00803 H-AD.Braak 6-Superior frontal gyrus-Male_001 Download Download Download Download
AD00901 M-H-cortex_and_hippocampus-Female-7m_001 Download Download Download Download
AD00902 M-H-cortex_and_hippocampus-Female-7m_002 Download Download Download Download
AD00903 M-AD-cortex_and_hippocampus-Female-7m_001 Download Download Download Download
AD00904 M-AD-cortex_and_hippocampus-Female-7m_002 Download Download Download Download
AD01001 M-H-subventricular_zone_and_hippocampus-Female-7m_001 Download Download Download Download
AD01002 M-H-subventricular_zone_and_hippocampus-Female-7m_002 Download Download Download Download
AD01003 M-AD-subventricular_zone_and_hippocampus-Female-7m_001 Download Download Download Download
AD01004 M-AD-subventricular_zone_and_hippocampus-Female-7m_002 Download Download Download Download
AD01101 H-H-Prefrontal_cortex-Male_BA9 Download Download Download Download
AD01102 H-H-Prefrontal_cortex-Female_BA9 Download Download Download Download
AD01103 H-AD-Prefrontal_cortex_BA9-Male_001 Download Download Download Download
AD01104 H-AD-Prefrontal_cortex_BA9-Female_001 Download Download Download Download
AD01201 H-H-Superior_parietal_lobe-Male Download Download Download Download
AD01202 H-H-Superior_parietal_lobe-Female Download Download Download Download
AD01203 H-AD-Superior_parietal_lobe-Male_001 Download Download Download Download
AD01204 H-AD-Superior_parietal_lobe-Female_001 Download Download Download Download
AD01205 H-AD-Superior_parietal_lobe-Male_002 Download Download Download Download
AD01206 H-AD-Superior_parietal_lobe-Female_002 Download Download Download Download

Source code

Code tutorials

Please check the following GitHub link for full tutorials, including:

  1. Calculating overlapping DEGs from the same cell type across datasets
  2. Running scREAD backend analysis workflow locally

https://github.com/OSU-BMBL/scread-protocol

More methods details about the pipeline can be found in What is the scREAD overall pipeline?

scREAD is developed by BMBL, it is free and open to all users and there is no login requirement. | 2022