Example datasets
================

By courtesy of the original authors, we provide here the following preprocessed
data files used in our paper:

.. list-table::
   :widths: 15 15 5 5 32 3 25
   :header-rows: 1

   * - Dataset
     - Protocol
     - Species
     - Organ
     - Publication
     - Source
     - Processed files
   * - Chen-2019
     - SNARE-seq
     - Mouse
     - Cortex
     - `High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell <https://doi.org/10.1038/s41587-019-0290-0>`__
     - `GEO <https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126074>`__
     - | `Chen-2019-RNA.h5ad <http://download.gao-lab.org/GLUE/dataset/Chen-2019-RNA.h5ad>`__,
       | `Chen-2019-ATAC.h5ad <http://download.gao-lab.org/GLUE/dataset/Chen-2019-ATAC.h5ad>`__
   * - Ma-2020
     - SHARE-seq
     - Mouse
     - Skin
     - `Chromatin potential identified by shared single-cell profiling of RNA and chromatin <https://doi.org/10.1016/j.cell.2020.09.056>`__
     - `GEO <https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE140203>`__
     - | `Ma-2020-RNA.h5ad <http://download.gao-lab.org/GLUE/dataset/Ma-2020-RNA.h5ad>`__,
       | `Ma-2020-ATAC.h5ad <http://download.gao-lab.org/GLUE/dataset/Ma-2020-ATAC.h5ad>`__
   * - 10x-Multiome-Pbmc10k
     - 10x Multiome
     - Human
     - PBMC
     -
     - `10x Demo <https://support.10xgenomics.com/single-cell-multiome-atac-gex/datasets/1.0.0/pbmc_granulocyte_sorted_10k>`__
     - | `10x-Multiome-Pbmc10k-RNA.h5ad <http://download.gao-lab.org/GLUE/dataset/10x-Multiome-Pbmc10k-RNA.h5ad>`__,
       | `10x-Multiome-Pbmc10k-ATAC.h5ad <http://download.gao-lab.org/GLUE/dataset/10x-Multiome-Pbmc10k-ATAC.h5ad>`__
   * - Saunders-2018
     - Drop-seq
     - Mouse
     - Cortex
     - `Molecular diversity and specializations among the cells of the adult mouse brain <https://doi.org/10.1016/j.cell.2018.07.028>`__
     - `dropviz <http://dropviz.org/>`__
     - `Saunders-2018.h5ad <http://download.gao-lab.org/GLUE/dataset/Saunders-2018.h5ad>`__
   * - Luo-2017
     - snmC-seq
     - Mouse
     - Cortex
     - `Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex <https://doi.org/10.1126/science.aan3351>`__
     - `annoj <https://brainome.ucsd.edu/annoj/brain_single_nuclei/>`__
     - `Luo-2017.h5ad <http://download.gao-lab.org/GLUE/dataset/Luo-2017.h5ad>`__
   * - 10x-ATAC-Brain5k
     - 10x ATAC
     - Mouse
     - Cortex
     -
     - `10x Demo <https://support.10xgenomics.com/single-cell-atac/datasets/1.1.0/atac_v1_adult_brain_fresh_5k>`__
     - `10x-ATAC-Brain5k.h5ad <http://download.gao-lab.org/GLUE/dataset/10x-ATAC-Brain5k.h5ad>`__
   * - Cao-2020
     - sci-RNA-seq3
     - Human
     - 15 organs
     - `A human cell atlas of fetal gene expression <https://doi.org/10.1126/science.aba7721>`__
     - `GEO <https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE156793>`__
     - `Cao-2020.h5ad <http://download.gao-lab.org/GLUE/dataset/Cao-2020.h5ad>`__
   * - Domcke-2020
     - sci-ATAC-seq3
     - Human
     - 15 organs
     - `A human cell atlas of fetal chromatin accessibility <https://doi.org/10.1126/science.aba7612>`__
     - `GEO <https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE149683>`__
     - `Domcke-2020.h5ad <http://download.gao-lab.org/GLUE/dataset/Domcke-2020.h5ad>`__
   * - Muto-2021
     - | snRNA-seq,
       | scATAC-seq
     - Human
     - Kidney
     - `Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney <https://doi.org/10.1038/s41467-021-22368-w>`__
     - `GEO <https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE151302>`__
     - | `Muto-2021-RNA.h5ad <http://download.gao-lab.org/GLUE/dataset/Muto-2021-RNA.h5ad>`__,
       | `Muto-2021-ATAC.h5ad <http://download.gao-lab.org/GLUE/dataset/Muto-2021-ATAC.h5ad>`__
   * - Yao-2021
     - | 10x RNA v3,
       | snATAC-seq
     - Mouse
     - MOp
     - `A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex <https://doi.org/10.1038/s41586-021-03500-8>`__
     - `NeMO <https://assets.nemoarchive .org/dat-ch1nqb7>`__
     - | `Yao-2021-RNA.h5ad <http://download.gao-lab.org/GLUE/dataset/Yao-2021-RNA.h5ad>`__,
       | `Yao-2021-ATAC.h5ad <http://download.gao-lab.org/GLUE/dataset/Yao-2021-ATAC.h5ad>`__