User: chjiao3456

gravatar for chjiao3456
chjiao345640
Reputation:
40
Status:
New User
Location:
Michigan State University, USA
Last seen:
3 years, 6 months ago
Joined:
8 years, 6 months ago
Email:
c*********@gmail.com

 PhD student in MSU, majored in Computer Science & Engineering, research area is bioinformatics.

Posts by chjiao3456

<prev • 39 results • page 2 of 4 • next >
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Comment: C: State of art gene prediction tools for grass genomes
... Thanks, this is a very good review paper. However, I don't know whether this paper includes the latest tools for gene prediction/annotation, since it was published in 2012. ...
written 5.5 years ago by chjiao345640
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State of art gene prediction tools for grass genomes
... Hi, I'm new to field of gene prediction. Are there any review papers or tutorials talking about the state of art gene prediction tools for grass genomes, like rice, maize and wheat etc. As far as I know, there are some specifications for grass genes, like GC content. Thanks very much. ...
gene prediction grass genome written 5.5 years ago by chjiao345640 • updated 4.8 years ago by Biostar ♦♦ 20
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Comment: C: How to find tRNA gene annotations in Oryza sativa?
... Oh, thank you. I will have a try of MAKER.  ...
written 5.6 years ago by chjiao345640
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Comment: C: How to find tRNA gene annotations in Oryza sativa?
... Thank you very much. I'm running tRNAscan-SE now. Can you introduce more about MAKER? I didn't see MAKER in the help.  ...
written 5.6 years ago by chjiao345640
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How to find tRNA gene annotations in Oryza sativa?
... Hi all, do you know where I can find tRNA gene annotations in Oryza sativa? I need the annotations tRNA anticodons. However, there is no such annotations in Ensembl gff3 or gtf file. I can find detailed annotations in Genomic tRNA database: http://gtrnadb.ucsc.edu/Osati/, but the genome version is n ...
gene genome assembly written 5.6 years ago by chjiao345640 • updated 5.1 years ago by Biostar ♦♦ 20
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Comment: C: Adapter for RNA-seq alignment
... Thanks, cuadapt is a good tool. ...
written 6.1 years ago by chjiao345640
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Comment: C: Adapter for RNA-seq alignment
... Thanks for your recommendation. ...
written 6.1 years ago by chjiao345640
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Comment: C: Adapter for RNA-seq alignment
... Thanks, which trim tool would you suggest? ...
written 6.1 years ago by chjiao345640
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Adapter for RNA-seq alignment
... Hi everyone: I'm not quite familiar with RNA-seq alignment. It seems that part of the RNA-seq reads (splice site) can be mapped to reference genome by alignment tool Tophat or STAR. In this case, do we need to remove the adapters for sequencing reads with tools like cutadapt? For small RNA-seq, sin ...
alignment rna-seq written 6.1 years ago by chjiao345640 • updated 6.1 years ago by iraun3.8k
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Comment: C: Searching TATA box in the promoters of minus-strand genes
... Thanks, I made a mistake in the reverse complementary motif. ...
written 6.5 years ago by chjiao345640

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Popular Question 4.5 years ago, created a question with more than 1,000 views. For The Hardware Request For Repeatmasker
Popular Question 4.6 years ago, created a question with more than 1,000 views. For Adapter for RNA-seq alignment
Popular Question 5.0 years ago, created a question with more than 1,000 views. For The Hardware Request For Repeatmasker
Popular Question 6.2 years ago, created a question with more than 1,000 views. For Should Rna-Seq Reads Map To One Strand Of Cdna Reference?
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