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- [x] What do we have annotated as "residue extensions"
- [ ] Curators review existing residues on catalytic activities- possibly remove?
See https://github.com/pombase/curation/issues/3729
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The histone H3.1 I used contains a total of 3460 spectra, and the database human_proteome_database.fasta contains 20410 entries.
When I did not use the modified file, the result output 1310 PrSM, the…
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This issue contains monthly updates to an automatically ranked list of PubMed papers as candidates for curation in the Bioregistry. Papers may be relevant in at least three ways:
(1) as a new prefix…
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Warning: scores is null for index 0 in scan 1448
Warning: scores is null for index 0 in scan 1448
Warning: scores is null for index 0 in scan 1479
Warning: scores is null for index 0 in scan …
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Hello,
I identified A and B compartments in my data at three resolutions (10Kb, 100Kb and 1Mb):
'''
fanc compartments -g $CHROMS_PATH -d $DOMAIN_OUTPUT $FILE -x $CHROMS2EXCLUDE
'''
I am a b…
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```Without cell-specific features, another solution could be to use domain adaptation methods where the model trains on a source cell type and uses unsupervised feature extraction methods to predict o…
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Hi there,
Not sure if this is the right forum but since you have another software that is related i figured i should ask here.
I am trying to run HMCan-Diff using this command:
```
$HMCan_DIFF \…
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OBI is looking for very broad/general terms for "histone" and "modified histone"; PRO has a robust histone hierarchy, but it appears to lack those classes. Would PRO be willing/able to create those cl…
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Hi,
Thank you for a really great tool and an exciting dataset! I'm trying to reproduce the analysis done in the Nature Biotech paper (https://www.nature.com/articles/s41587-022-01250-0). I've down…
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Hi,
I have several CUT&RN experiments looking at Histone modifications H3K4me3 (narrow peak) and H3K27me3 (broad peaks) in treated vs untreated cells, and seem to have several instances where the b…