User: harrypotterandsbt

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Posts by harrypotterandsbt

<prev • 12 results • page 1 of 2 • next >
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Answer: A: Convert Gene IDs of Tomato Sol Database
... Hello everyone,I think find an alternate. I suggest everyone use SL3.0 and corresponding gtf file to run RNA-seq workflow then we will get the result that most genes are labeled by LOCXXXXXXX。then we can use clusterProfiler(R package) : downloading tomato orgdb from AnnotationHub(),using bitr funct ...
written 26 days ago by harrypotterandsbt10
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Comment: C: Convert Gene IDs of Tomato Sol Database
... It can't work when I input a list of SolycXXgXXXXXX , and I cannot find the Download page ...
written 4 weeks ago by harrypotterandsbt10
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Comment: C: Convert Gene IDs of Tomato Sol Database
... Hi. Kevluv93, Would you still be able to share the file? My email is 21707001sbt@zju.edu.cn. Thank you ...
written 4 weeks ago by harrypotterandsbt10
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How to select high quality RNA-seq datasets from SRA database?
... Hi everyone. I have a question about how to find useful datasets from SRA database. I want to built a plant database from RNAs-seq data. But I don't know how to select the datasets which can meet my demand.Because I can find some RNA-seq dataset that every SRA run data has same or less base number ...
sra rna-seq written 5 weeks ago by harrypotterandsbt10
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Comment: C: Arabidopsis Araport11 genome annotation file
... Thank you for suggestion! I have accpted the helpful answer. Sorry,I'm new here and I will remeber your suggestion! ...
written 11 weeks ago by harrypotterandsbt10
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Comment: A: Arabidopsis Araport11 genome annotation file
... Thank you! Lieven.sterck.You answers really helps! ...
written 11 weeks ago by harrypotterandsbt10
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Arabidopsis Araport11 genome annotation file
... Have anyone use Araport11 genome annotation file to replace TAIR10 genome annotation file?Because Araport11's GTF was released on 2016 ,which is newer than TAIR's GTF. And Araport11 also provide gene name,like "gene-id:AT1G01060; gene name"LHY" " I want to ask whether Araport11 is better for use as ...
genome rna-seq written 11 weeks ago by harrypotterandsbt10
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Comment: C: ssRNA-seq:Why saying ignoring the orientation of transcription leads to an overe
... I get it ! Thank you! Kevin Blighe. I really appreciate your help ! ...
written 11 weeks ago by harrypotterandsbt10
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Comment: C: ssRNA-seq:Why saying ignoring the orientation of transcription leads to an overe
... OK, What I want to express is that in stranded RNA-seq library preparation, the left cDNA first strands are still need to PCR before sequencing. So we still will synthesize the second strands ,but only the first strands are selected to sequencing. There must be a selective mechanism. And I think i ...
written 11 weeks ago by harrypotterandsbt10
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Comment: C: ssRNA-seq:Why saying ignoring the orientation of transcription leads to an overe
... Thank you Kevin Blighe! You have solved my first question.And Do you know the second question's answer? ...
written 12 weeks ago by harrypotterandsbt10

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