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[results]about MotifSimilarityQvalue, OrthologousIdentity and Annotation in results #587

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SYSUMSD opened this issue Oct 17, 2024 · 1 comment
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@SYSUMSD
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SYSUMSD commented Oct 17, 2024

Hi, I have created a chicken TF reference database and completed the pySCENIC analysis in my chicken data.
But I find a problem in my result from pyscenic ctx program output file:

微信图片_20241017174536
This is the result of TF ABL1, and it shows that this TF has 100+ motifs without MotifSimilarityQvalue, OrthologousIdentity and Annotation information.

But when I check this gene in motifs-v10-nr.chicken-m0.00001-o0.0.tbl witch is downloaded from https://resources.aertslab.org/cistarget/motif_collections/v10nr_clust_public/snapshots/ , this gene only has 1 record:

transfac_pro__M08187 M08187 V$ABL1_01: ABL1 transfac_pro 2021.2 ABL1 0.0 NaN NaN 0.823582 ENSG00000097007 H. sapiens gene is orthologous to ENSG00000097007 in H. s...

This record showes this gene has only 1 motif.
Why are there more motifs annoted by pyscenic ctx program than tbl file?

My chicke TF database is created using motif information from (https://resources.aertslab.org/cistarget/motif_collections/v10nr_clust_public/singletons/)

@SYSUMSD SYSUMSD added the question Further information is requested label Oct 17, 2024
@SYSUMSD
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SYSUMSD commented Oct 17, 2024

The second problem is why dose the records from pyscenic ctx program have the records without MotifSimilarityQvalue, OrthologousIdentity and Annotation information? How were these records created?

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