User: zhuofei.xu

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zhuofei.xu10
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Posts by zhuofei.xu

<prev • 5 results • page 1 of 1 • next >
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Answer: A: trinity metatranscriptome assembly without reference genome
... I don't think assembly of metatranscriptome short reads is worth to be done. It's also not meaningful and too biased if the subsequent analysis is based on the assembled and partial transcript sequences. Metagenome sequencing on the same sample should be good to produce a high-quality reference gene ...
written 15 months ago by zhuofei.xu10
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Answer: A: Transcription Factor Binding Sites Database For Bacteria?
... RegPrecise (http://regprecise.lbl.gov) is a web resource for collection, visualization and analysis of transcriptional regulons reconstructed by comparative genomics. quite awesome! ...
written 18 months ago by zhuofei.xu10
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Answer: A: How to create a nexus file for BEAST ?
... seqmagick can be used to create Nexus file based on a multiple sequence alignment produced by your collected sequences. for importing dates, please refer to the link: http://beast.community/tip_dates I have a similar question about how to import locations and show their information in the beast tr ...
written 19 months ago by zhuofei.xu10
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Comment: C: How to extract the circRNA sequences based on the the back-spliced junctions det
... The output is from DCC. According to your suggestion, I have found the related output from circexplorer and used bedtools getfasta to get the circRNA sequence. Thanks a million! ...
written 2.8 years ago by zhuofei.xu10
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How to extract the circRNA sequences based on the the back-spliced junctions detected?
... Dear All, I have used several tools (findcirc, Circexplorer, DCC) to detect the circRNAs from mouse tissue. I have generated a list containing back-spliced junctions for each circRNA detected. An example for some circRNAs is given below Chr Start End Strand chr1 5089009 5098133 - chr1 5093363 51 ...
rna-seq written 2.8 years ago by zhuofei.xu10 • updated 5 months ago by davidebarbagallo0

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