User: Aimin Li

gravatar for Aimin Li
Aimin Li30
Reputation:
30
Status:
New User
Location:
Xi'an
Last seen:
1 year, 10 months ago
Joined:
5 years, 5 months ago
Email:
e*********@163.com

Posts by Aimin Li

<prev • 5 results • page 1 of 1 • next >
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TransFac Match usage and TFBS annotation
... Hi, there I ran TransFac Match (Version: 2016. Jan) command as what its README said (https://portal.biobase-international.com/build_t/idb/1.0/html/bkldoc/source/bkl/tools/match/match_from_commandline.html) in path/to/bin folder in Linux 64 bit OS: ./match ../data/matrix.dat ../data/default.se ...
tfbs match transfac written 22 months ago by Aimin Li30
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Answer: A: Can we extract full-length trascripts from gencode gtf
... Sorry, I just got it: - full length protein-coding ->  the protein-coding transcripts that have no "cds_start_NF" or "cds_end_NF" tag - partial length protein-coding: ->  all the rest (they have either a "cds_start_NF" or "cds_end_NF" tag or both!) ...
written 5.4 years ago by Aimin Li30
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Can we extract full-length trascripts from gencode gtf
... Hello, all We can see that GENCODE released statistics and GTF annotation as follows: (1)  Statistics: (extracted gencode V19  from :  http://www.gencodegenes.org/stats.html  ) Protein-coding transcripts  81814    - full length protein-coding: 57005    - partial length protein-coding: 24809 (2 ...
gencode full-length written 5.4 years ago by Aimin Li30
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How to get mouse multiple sequence alignments in fasta format
... There are compressed multiple alignments of 59 assemblies to the mouse genome (mm10/GRCm38, Dec. 2011) Readme and directory: http://hgdownload-test.sdsc.edu/goldenPath/mm10/multiz60way/ MAF files: http://hgdownload-test.sdsc.edu/goldenPath/mm10/multiz60way/maf/ We have thousands of mouse transcript ...
maf mouse written 5.4 years ago by Aimin Li30
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how to feed de novo assembled transcripts to PhyloCSF
... We have human de novo assembled transcripts. Those transcripts were assembled de novo without human genomic by using Trinity/Newbler. We want to use PhyloCSF to identify coding or noncoding transcripts.  How to use PhyloCSF if we only have those sequences in fasta ? Thanks in advance! ...
maf bed phylocsf written 5.4 years ago by Aimin Li30 • updated 5.3 years ago by Biostar ♦♦ 20

Latest awards to Aimin Li

Popular Question 4.3 years ago, created a question with more than 1,000 views. For Can we extract full-length trascripts from gencode gtf
Teacher 4.3 years ago, created an answer with at least 3 up-votes. For A: Can we extract full-length trascripts from gencode gtf

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