The constant deluge of genome sequencing data means that annotating, classifying, and comparing proteins or proteomes can seam like an endless task. Furthermore, discovering and accessing such data is fundamental to biologists. There are, however, databa
unixbioinformaticsuniprotpfamprotein-annotation UpdatedMar 17, 2023 C Snakemake pipeline for searching genomic sequences for those that encode proteins containing domains of choice snakemakeproteinshmmerprotein-sequenceprotein-domainspfamsignalp UpdatedSep 14, 2024 ...
unix bioinformatics uniprot pfam protein-annotation Updated Mar 17, 2023 C ecolell / pfamserver Star 3 Code Issues Pull requests PFAM's micro service to assist to Mistic2. bioinformatics proteins pdb protein-structure pfam multiple-sequence-alignment protein-sequence-analysis Updated Feb 15, 2023 ...
With the ever increasing rate of deposition of new proteins of all qualities into the underlying repositories, it is essential that Pfam continues to grow in order to maintain its coverage. We have used a number of strategies to improve the annotation provided by Pfam, and these include both ...
Pfam-A families have permanent accession numbers and form a library of HMMs available for searching and automatic annotation of new protein sequences. Proteins: 28:405–420, 1997. 1997 Wiley-Liss, Inc. 展开 关键词: classification clustering protein domains genome annotation hidden Markov model ...
We have also identified many novel family memberships in known proteins, including new kazal, Fibronectin type III, and response regulator receiver domains. Pfam-A families have permanent accession numbers and form a library of HMMs available for searching and automatic annotation of new protein ...
Pfam-A families have permanent accession numbers and form a library of HMMs available for searching and automatic annotation of new protein sequences. Proteins: 28:405–420, 1997. 1997 Wiley-Liss, Inc. 展开 关键词: classification clustering protein domains genome annotation hidden Markov model ...
Motivation: In order to enhance genome annotation, the fully automatic fold recognition method GenTHREADER has been improved and benchmarked. The previous ... McGuffin Liam J.,DT Jones - 《Bioinformatics》 被引量: 780发表: 2003年 The ProDom database of protein domain families The ProDom data...
I'm trying to run eggnog-mapper in a computing cluster that I've never used before have eggnog-mapper v2.1.10 stuck forever in the pfam annotation step. I've used v2.1.9 in another cluster with the same settings and had no issue with it. This is the .out file: # emapper-2.1....
It is a worthy goal to completely characterize all human proteins in terms of their domains. Here, using the Pfam database, we asked how far we have progressed in this endeavour. Ninety per cent of proteins in the human proteome matched at least one of 5494 manually curated Pfam-A families...