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Add initial notebooks and pages for ASAP data.
Modify anndata_utils to use any column in cell_metadata. Add SEA-AD taxonomy page. Add ASAP gene list. Updated release notes.
1 parent 35aa736 commit a227822

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‎_static/SEAAD-taxonomy/20250331/class.html‎

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<html>
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<head><title>SEAAD-taxonmy: cell type classes</title></head>
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<link rel="stylesheet" type="text/css" href="../../simple_style.css"/>
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<body>
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<table border="1" class="dataframe mystyle">
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<thead>
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<tr style="text-align: right;">
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<th>class</th>
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</thead>
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<tbody>
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<td><div id="CS20230508_CLAS_0001"></div><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="subclass.html#CS20230508_SUBC_0001">[+]</a></div></td>
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<td><div id="CS20230508_CLAS_0002"></div><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="subclass.html#CS20230508_SUBC_0010">[+]</a></div></td>
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</tr>
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<td><div id="CS20230508_CLAS_0003"></div><div class="circle" style="background-color:#808080"></div><div class="celltext">Non-neuronal and Non-neural</div><div class="celltext"><a href="subclass.html#CS20230508_SUBC_0019">[+]</a></div></td>
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</tbody>
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</table>
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</body>
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</html>.
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‎_static/SEAAD-taxonomy/20250331/subclass.html‎

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<html>
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<head><title>SEAAD-taxonmy: cell type subclasses</title></head>
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<link rel="stylesheet" type="text/css" href="../../simple_style.css"/>
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<body>
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<table border="1" class="dataframe mystyle">
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<thead>
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<tr style="text-align: right;">
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<th>class</th>
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<th>subclass</th>
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</tr>
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</thead>
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<tbody>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0009"></div><div class="circle" style="background-color:#F641A8"></div><div class="celltext">Chandelier</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0066">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0002"></div><div class="circle" style="background-color:#DA808C"></div><div class="celltext">Lamp5</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0002">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0001"></div><div class="circle" style="background-color:#935F50"></div><div class="celltext">Lamp5 Lhx6</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0001">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0003"></div><div class="circle" style="background-color:#71238C"></div><div class="celltext">Pax6</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0008">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0008"></div><div class="circle" style="background-color:#D93137"></div><div class="celltext">Pvalb</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0053">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0004"></div><div class="circle" style="background-color:#DF70FF"></div><div class="celltext">Sncg</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0012">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0007"></div><div class="circle" style="background-color:#FF9900"></div><div class="celltext">Sst</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0036">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0006"></div><div class="circle" style="background-color:#B1B10C"></div><div class="celltext">Sst Chodl</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0035">[+]</a></div></td>
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<td><div class="circle" style="background-color:#F05A28"></div><div class="celltext">Neuronal: GABAergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0001">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0005"></div><div class="circle" style="background-color:#A45FBF"></div><div class="celltext">Vip</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0019">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0010"></div><div class="circle" style="background-color:#B1EC30"></div><div class="celltext">L2/3 IT</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0068">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0011"></div><div class="circle" style="background-color:#00E5E5"></div><div class="celltext">L4 IT</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0079">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0015"></div><div class="circle" style="background-color:#0D5B78"></div><div class="celltext">L5 ET</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0090">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0012"></div><div class="circle" style="background-color:#50B2AD"></div><div class="celltext">L5 IT</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0082">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0018"></div><div class="circle" style="background-color:#3E9E64"></div><div class="celltext">L5/6 NP</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0105">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0016"></div><div class="circle" style="background-color:#2D8CB8"></div><div class="celltext">L6 CT</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0092">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0013"></div><div class="circle" style="background-color:#A19922"></div><div class="celltext">L6 IT</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0077">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0014"></div><div class="circle" style="background-color:#5100FF"></div><div class="celltext">L6 IT Car3</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0102">[+]</a></div></td>
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<td><div class="circle" style="background-color:#00ADF8"></div><div class="celltext">Neuronal: Glutamatergic</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0002">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0017"></div><div class="circle" style="background-color:#7044AA"></div><div class="celltext">L6b</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0096">[+]</a></div></td>
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<td><div class="circle" style="background-color:#808080"></div><div class="celltext">Non-neuronal and Non-neural</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0003">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0019"></div><div class="circle" style="background-color:#665C47"></div><div class="celltext">Astrocyte</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0110">[+]</a></div></td>
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<td><div class="circle" style="background-color:#808080"></div><div class="celltext">Non-neuronal and Non-neural</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0003">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0022"></div><div class="circle" style="background-color:#8D6C62"></div><div class="celltext">Endothelial</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0125">[+]</a></div></td>
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<td><div class="circle" style="background-color:#808080"></div><div class="celltext">Non-neuronal and Non-neural</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0003">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0024"></div><div class="circle" style="background-color:#94AF97"></div><div class="celltext">Microglia-PVM</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0132">[+]</a></div></td>
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<td><div class="circle" style="background-color:#808080"></div><div class="celltext">Non-neuronal and Non-neural</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0003">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0020"></div><div class="circle" style="background-color:#374A45"></div><div class="celltext">OPC</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0116">[+]</a></div></td>
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<td><div class="circle" style="background-color:#808080"></div><div class="celltext">Non-neuronal and Non-neural</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0003">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0021"></div><div class="circle" style="background-color:#53776C"></div><div class="celltext">Oligodendrocyte</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0120">[+]</a></div></td>
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<td><div class="circle" style="background-color:#808080"></div><div class="celltext">Non-neuronal and Non-neural</div><div class="celltext"><a href="class.html#CS20230508_CLAS_0003">[-]</a></div></td>
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<td><div id="CS20230508_SUBC_0023"></div><div class="circle" style="background-color:#697255"></div><div class="celltext">VLMC</div><div class="celltext"><a href="supertype.html#CS20230508_SUPT_0128">[+]</a></div></td>
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</html>.
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