User: zhenyisong

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zhenyisong130
Reputation:
130
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Trusted
Location:
China
Last seen:
1 year, 11 months ago
Joined:
7 years, 11 months ago
Email:
z*********@gmail.com

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Posts by zhenyisong

<prev • 28 results • page 3 of 3 • next >
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where can find the dataset for the genes of fatty acid metabolism?
... I want to do gene set enrichment analysis of fatty acid metabolism. The first step is to curate the dataset on this group of genes. I checked the genes from Broad institute, they collected 42 genes from KEGG database. I also find gene set which is provided by QiaGene PCR array, which includes 84 gen ...
gsea written 6.0 years ago by zhenyisong130 • updated 4.5 years ago by Biostar ♦♦ 20
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Comment: C: How to retrieve nearest genes in Ciona genome?
... Your are right. The position information is from VISTA-Point. I can handle it now. The step is to use BLAST to re-map the CNSs to the NCBI Ciona genome assemble as I have no other idea of how to translate VISTA-Point coordinates to NCBI's. Anyway, Thank you and Alex. ...
written 6.3 years ago by zhenyisong130
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Comment: C: How to retrieve nearest genes in Ciona genome?
... They are different gene assembles, NCBI vs. VISTA data (my raw data from VISTA which contains the genome fragment position information). I once thought it was a small task, but then find it is a project.  I have to re-map VISTA coordinates (I don not know which assemble they use) to NCBI. You script ...
written 6.3 years ago by zhenyisong130
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Answer: A: How To Retrieve Pmc Id And Its Corresponding Abstract From Pmc Open Access Subse
... It takes time to digest this script. ...
written 6.3 years ago by zhenyisong130
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Comment: C: How To Retrieve Pmc Id And Its Corresponding Abstract From Pmc Open Access Subse
... This program is very convenient for me to extract batches of files from NCBI. However, my need is to parse the local XML file. At least from their examples, I could not solve my problem. Or would you please give me a handy tip to complete a piece of the script to parse all nxml files using Entrez Di ...
written 6.3 years ago by zhenyisong130
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Comment: C: How to retrieve nearest genes in Ciona genome?
... BEDOPS is a beautiful program. It seems that I have to prepare all required BED (or starch format) files for genes and target DNA region first and then I can use closest-features to locate the nearest gene. But I want to know who else already done this for us to parse Ciona genome? So I can use them ...
written 6.3 years ago by zhenyisong130
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How to retrieve nearest genes in Ciona genome?
... I have a batch of genome positions of conserved DNA regions from Ciona genome. I want to know if there exists a program to pin down the nearest gene. Thanks. The genome position information is from VISTA-Point and looks like the following which is annotated Conserved Non-coding Sequence (CNS). > ...
genome ciona nearest gene written 6.3 years ago by zhenyisong130
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How To Retrieve Pmc Id And Its Corresponding Abstract From Pmc Open Access Subset?
... I am trying to do text classification for Pubmed abstracts. I downloaded the data from there. My initial plan is to write a Perl script to store each abstract in its txt format with PMC id or PubMed id as the file title, which would facilitate to use GNAT in the following analysis. A hash structure ...
perl pubmed written 6.6 years ago by zhenyisong130 • updated 5.0 years ago by Biostar ♦♦ 20

Latest awards to zhenyisong

Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: indexed human reference genome
Scholar 2.8 years ago, created an answer that has been accepted. For A: indexed human reference genome
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Is there any specific quality metrics for lncRNA-seq or miRNA-seq?
Popular Question 3.2 years ago, created a question with more than 1,000 views. For PWM matching alogrithm
Popular Question 3.4 years ago, created a question with more than 1,000 views. For Is there any specific quality metrics for lncRNA-seq or miRNA-seq?

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