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Hi,
Hope that seqkit can extract transrcipt/cdna/gene/protein sequences from references fasta and gff/gtf file. gffread can do this but it can not handle large chromosomes correctly.
Best,
Kun
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Both are readouts, have been removed from SGD
* **PTHR ID & PTN node:**
GO:0006624 | vacuolar protein processing | IBA with S000006157 , PTN001121786
GO:0006624 | vacuolar protein processin…
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Until now, we have only used our framework for ChEBI, but in principle, it should also be applicable to other data sets and prediction tasks. One such task is the prediction of protein functions as sp…
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Hi Zhaohan,
FusionDTI is a fantastic work. I am currently attempting to test it for drug-protein interaction prediction, but I am uncertain how to obtain the Uniprot IDs for all the protein sequen…
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Hello, I apologize for the disturbance. Thank you for creating such excellent software. However, while using TEsorter, I found that it only annotates parts of proteins within domains. If I want to obt…
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Hi, guys:
I have two fundamental question on colocalization.
1. Below is the **Figure 1** of the original coloc paper. So, only P-value is considered for the bayesian test, not BETA and Varia…
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Thanks for providing the AF3 source!
To test AlphaFold3 using the example 7BBV provided by AlphaFold3 server, I used the following JSON file as input:
```
{
"name": "7BBV",
"modelSeeds": …
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When I was studying Protein Deep Learning, I encountered a new problem. When I ran to this part
information = {}
count = 1
failures=[]
for code,tm,numr,wt_val,mut_val in zip(codes,tms,resnum,wt,…
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We need to do some symmetry operations on the asymmetric unit. An asymmetric unit is the smallest unique set of atomic coordinates needed to describe the repeating unit of a crystal. If we have a het…
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Using it to pull sequence lengths, noticed 2 of my acession codes resulted in wrong seq lengths (Q14749 and P51580). When I used GetSequence it mangages to pull the right seq lengths.