Data availability
============


.. list-table:: ST Dataset Info Table
   :widths: 25 25 50 50 50 50 50
   :header-rows: 1

   * - ST Dataset
     - ST type
     - Abbreviations
     - ST protocol
     - Num. of slices
     - Source
     - Download link
   * - Human Dorsal Lateral Prefrontal Cortex data
     - Sequencing-based
     - DLPFC
     - 10x Visium
     - 12
     - `spatialLIBD <http://spatial.libd.org/spatialLIBD/>`__
     - `link <https://zenodo.org/records/10698880>`__
   * - Mouse Brain Section 2 Sagittal Anterior and Posterior
     - Sequencing-based
     - MB2SA\&P
     - 10x Visium
     - 2
     - `Mouse Brain Serial Section 2 Sagittal Anterior <https://www.10xgenomics.com/resources/datasets/mouse-brain-serial-section-2-sagittal-anterior-1-standard>`__
     - `link <https://zenodo.org/records/10698931>`__
   * - MOSTA Embryo
     - Sequencing-based
     - Embryo
     - Stereo-seq
     - >= 50
     - `MOSTA Resource <https://db.cngb.org/stomics/mosta/resource/>`__
     - `link <https://zenodo.org/records/10698963>`__
   * - Mouse Hypothalamus
     - Imaging-based
     - MHypo
     - MERFISH
     - 5
     - `Datadryad <https://datadryad.org/stash/dataset/doi:10.5061/dryad.8t8s248>`__
     - `link <https://zenodo.org/records/10698909>`__
   * - Mouse Brain
     - Imaging-based
     - MB
     - MERFISH
     - 33
     - `Zenodo Records <https://zenodo.org/records/8167488>`__
     - `link <https://zenodo.org/records/8167488>`__


.. .. list-table:: ST Dataset Info Table
..    :widths: 25 25 50
..    :header-rows: 1

..    * - ST Dataset
..      - ST type
..      - Abbreviations
..      - ST protocol
..      - Spots/Genes
..      - Num. of slices
..      - Source
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.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | ST Dataset                                            | ST type         | Abbreviations| ST protocol  | Spots/Genes  | Num. of slices        | Source                                                          |
.. +=======================================================+=================+==============+==============+==============+=======================+=================================================================+
.. | Human Dorsal Lateral Prefrontal Cortex data           | Sequencing-based| DLPFC        | 10x Visium   | $ \sim $4000/33538 | 12                    | `spatialLIBD <http://spatial.libd.org/spatialLIBD/>`__            |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | Human Breast Cancer Block A Section 1                 | Sequencing-based| HBCA1        | 10x Visium   | $ \sim $4000/36601 | 2                     | `Breast Cancer Block A Section 1 <https://support.10xgenomics.com/spatial-gene-expression/datasets/1.1.0/V1_Breast_Cancer_Block_A_Section_1>`__ |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | Mouse Brain Section 2 Sagittal Anterior and Posterior | Sequencing-based| MB2SA\&B     | 10x Visium   | $ \sim $3000/32285 | 2                     | `Mouse Brain Serial Section 2 Sagittal Anterior <https://www.10xgenomics.com/resources/datasets/mouse-brain-serial-section-2-sagittal-anterior-1-standard>`__ |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | HER2 Positive Breast Tumors                           | Sequencing-based| HER2\+BT     | Spatial Transcriptomics | 177-692/$ \sim $15000 | 8               | `HER2st <https://github.com/almaan/her2st>`__                    |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | Mouse Hippocampus                                     | Sequencing-based| MHPC         | Slide-seq v2 | 41770/23264   | 1                     | `SCP815 <https://singlecell.broadinstitute.org/single_cell/study/SCP815>`__ |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | MOSTA Embryo                                          | Sequencing-based| Embryo       | Stereo-seq    | $ \sim $50000/$ \sim $5000 | 50$+$               | `MOSTA Resource <https://db.cngb.org/stomics/mosta/resource/>`__ |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | Mouse Visual Cortex                                    | Sequencing-based| MVC          | STARmap      | 1207/1020    | 1                     | `STARmap Resources <https://www.STARmapresources.com/data>`__    |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | Mouse Prefrontal Cortex                                | Sequencing-based| MPFC         | STARmap      | $ \sim $1000/166 | 3                     | `BASS Analysis Data <https://github.com/zhengli09/BASS-Analysis/blob/master/data/STARmap_mpfc.RData>`__ |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | Mouse Hypothalamus                                     | Imaging-based   | MHypo        | MERFISH      | $ \sim $5000/155 | 5                     | `Datadryad <https://datadryad.org/stash/dataset/doi:10.5061/dryad.8t8s248>`__ |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+
.. | Mouse Brain                                            | Imaging-based   | MB           | MERFISH      | 2033-7626/254 | 33                    | `Zenodo Records <https://zenodo.org/records/8167488>`__          |
.. +-------------------------------------------------------+-----------------+--------------+--------------+--------------+-----------------------+-----------------------------------------------------------------+