User: yliueagle

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yliueagle220
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France
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Posts by yliueagle

<prev • 28 results • page 1 of 3 • next >
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Intron and exon coordinates of all genes from Hg19
... Is there a way to get Intron and exon coordinates of all genes from Hg19? The exons can be got from this post: https://www.biostars.org/p/6391/, but how can I also get intron coordinates? I would keep the corresponding gene names in the result Thanks! ...
gene cordinates intron exon written 11 weeks ago by yliueagle220 • updated 11 weeks ago by vkkodali1.7k
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gene coordinates from TxDb.Hsapiens.UCSC.hg19.knownGene do not match NCBI gene bank
... I retrieved gene cordinates from TxDb.Hsapiens.UCSC.hg19.knownGene using: gene_info = genes(TxDb.Hsapiens.UCSC.hg19.knownGene) But I found some of the genes, for example, PTPN20 (id: 26095) is hugely different from NCBI gene bank. It is error information or I am doing something wrong? sub ...
gene written 5 months ago by yliueagle220 • updated 5 months ago by genomax78k
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Comment: C: how to find SNP positions (for non-bioinformaticians)
... I think this page answers my question: http://genome.ucsc.edu/goldenPath/newsarch.html Thank you! ...
written 7 months ago by yliueagle220
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Comment: C: how to find SNP positions (for non-bioinformaticians)
... Could you tell what the difference between snp144.txt.gz and snp144Common? The former contains more than 130 million SNPs while snp144Common only contains 14760200 SNPs. Thank you very much! ...
written 7 months ago by yliueagle220
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Comment: C: What's the difference between "hg19" and "hg19 v19"
... Thanks. Will there be a big difference if my focus is on gene expression analysis, between choosing UCSC hg19 and gencode v19? ...
written 11 months ago by yliueagle220
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What's the difference between "hg19" and "hg19 v19"
... In ENCODE, sometimes there are choices of "hg19" and "hg19 v19" when downloading the aligned RNA data. Is there a big difference between these versions? (See here as an example https://www.encodeproject.org/experiments/ENCSR297UBP/) While in GEO, most of the descriptions are like "The reads were fi ...
assembly rna-seq written 12 months ago by yliueagle220
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Comment: C: Hicexplorer error using hicBuildMatrix: no such file as qc_template.html
... Is it possible that I copy qc_template.html to /usr/lib/python2.7/site-packages/hicexplorer/? Thanks ...
written 14 months ago by yliueagle220
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Comment: C: Hicexplorer error using hicBuildMatrix: no such file as qc_template.html
... Hi, Have you found a solution? I also met this problem but do not know how to solve it. Thanks ...
written 14 months ago by yliueagle220
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Gene expression: which allele is considered?
... For human beings, we have two copies of each gene inherited from the parents. The question is, when referring to gene expression, which copy (or allele) is considered? ...
gene expression written 16 months ago by yliueagle220 • updated 16 months ago by Devon Ryan94k
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Why low MAF leads to low power
... For GWAS analysis, why it lacks power for SNPs with low MAF (e.g. <5%)? What's the statistics behind?   ...
maf power snp written 4.6 years ago by yliueagle220 • updated 4.6 years ago by Sam2.6k

Latest awards to yliueagle

Popular Question 5 months ago, created a question with more than 1,000 views. For Why low MAF leads to low power
Popular Question 20 months ago, created a question with more than 1,000 views. For Why low MAF leads to low power
Great Question 3.0 years ago, created a question with more than 5,000 views. For DAVID: functional annotation chart result explanation
Great Question 3.0 years ago, created a question with more than 5,000 views. For Map gene name to gene ID
Popular Question 3.0 years ago, created a question with more than 1,000 views. For Why low MAF leads to low power
Popular Question 3.0 years ago, created a question with more than 1,000 views. For DAVID: functional annotation chart result explanation
Popular Question 3.0 years ago, created a question with more than 1,000 views. For GWAS dataset: SNPs with association p-value
Popular Question 3.0 years ago, created a question with more than 1,000 views. For How to group genes as 'gene sets'
Popular Question 3.4 years ago, created a question with more than 1,000 views. For DAVID: functional annotation chart result explanation
Popular Question 3.4 years ago, created a question with more than 1,000 views. For GWAS: low explained heritability
Student 3.4 years ago, asked a question with at least 3 up-votes. For Why do genes have so many synonyms?
Popular Question 3.7 years ago, created a question with more than 1,000 views. For GWAS dataset: SNPs with association p-value
Popular Question 3.7 years ago, created a question with more than 1,000 views. For Why do genes have so many synonyms?
Popular Question 4.0 years ago, created a question with more than 1,000 views. For Why do genes have so many synonyms?
Popular Question 4.0 years ago, created a question with more than 1,000 views. For GWAS dataset: SNPs with association p-value
Appreciated 4.1 years ago, created a post with more than 5 votes. For gene (or SNP) related to a disease
Good Question 4.1 years ago, asked a question that was upvoted at least 5 times. For gene (or SNP) related to a disease
Popular Question 4.1 years ago, created a question with more than 1,000 views. For Why do genes have so many synonyms?
Student 5.1 years ago, asked a question with at least 3 up-votes. For Why do genes have so many synonyms?
Good Question 5.3 years ago, asked a question that was upvoted at least 5 times. For Why do genes have so many synonyms?
Appreciated 5.3 years ago, created a post with more than 5 votes. For Why do genes have so many synonyms?
Student 5.3 years ago, asked a question with at least 3 up-votes. For Why do genes have so many synonyms?

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