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Moderator: WouterDeCoster

gravatar for WouterDeCoster
Reputation:
37,050
Status:
Trusted
Location:
Belgium
Website:
https://gigabaseorgiga...
Twitter:
wouter_decoster
Last seen:
16 hours ago
Joined:
3 years ago
Email:
d*************@gmail.com

I am a research associate at the Center for Molecular Neurology, University of Antwerp & VIB, focussing on analysis of sequencing data with the aim of identifying variants relevant to neurodegenerative diseases, and mainly structural variants using long read PromethION sequencing.

Posts by WouterDeCoster

<prev • 6,759 results • page 1 of 676 • next >
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Answer: A: high frequency protein truncating variants in hg19
... > Since I generally expect PTV to be deleterious and thus low frequency. But that's not necessarily correct. Depending on the gene PTV mutations are tolerated. See also https://www.biorxiv.org/content/10.1101/531210v2 ...
written 18 hours ago by WouterDeCoster ♦ 37k
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Comment: C: DE analysis with edgeR and possibly batch effect
... We don't know about which treatment you applied - and which effects you expect from that. I am not surprised to see that there is a bigger difference between 1- and 7-day old mice though. ...
written 10 days ago by WouterDeCoster ♦ 37k
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Comment: C: Hardware requirement for RNA-seq
... If an answer was helpful you should upvote it, if the answer resolved your question you should mark it as accepted. ![Upvote|Bookmark|Accept][1] [1]: https://image.ibb.co/dfsqrx/upvote_accept_bookmark.png ...
written 11 days ago by WouterDeCoster ♦ 37k
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Comment: C: Cufflinks transcriptome (To build or not to build?)
... Please use the "question" post type if you are asking questions, and not "Forum". I have converted your post for you this time (and your previous posts...), but please keep this in mind for further posts. ...
written 11 days ago by WouterDeCoster ♦ 37k
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Comment: C: aa index finding
... Please see https://www.biostars.org/p/357878/ ...
written 11 days ago by WouterDeCoster ♦ 37k
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Comment: C: Grad school help: Transcriptomics and Pathways Analysis
... > If it is RNA-seq, the learning curve is going to be a lot steeper I'm not sure if I agree with that part of your answer. I don't think it's more difficult, and also for RNA-seq there are excellent workflows such as [this one from bioconductor][1]. [1]: https://www.bioconductor.org/help/cou ...
written 12 days ago by WouterDeCoster ♦ 37k
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Answer: A: DEG from BAM file
... Please follow this workflow: https://www.bioconductor.org/help/course-materials/2017/CSAMA/labs/2-tuesday/lab-03-rnaseq/rnaseqGene_CSAMA2017.html But I hope you have more than one bam - with just one sample you cannot do differential expression analysis. ...
written 13 days ago by WouterDeCoster ♦ 37k
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Comment: C: subset function limitation in R
... Hello demoraesdiogo2017! We believe that this post does not fit the main topic of this site. Pure programming, not exactly bioinformatics For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with. If you disagree please ...
written 13 days ago by WouterDeCoster ♦ 37k
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Comment: C: subset function limitation in R
... Are those the actual names? Manually constructing the vector for `select=` is absolutely not the way to go. Do yourself (and all of us) a favor and go through a few R tutorials. Invest some time with learning the basics of the language, it will pay off in the long run. I can for example recommend [s ...
written 13 days ago by WouterDeCoster ♦ 37k
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Comment: C: Htseq-count result assistance
... > Thanks very much sir! I have a total of 6601 genes. You would expect more genes in a human genome... how did you obtain this gtf? ...
written 13 days ago by WouterDeCoster ♦ 37k

Latest awards to WouterDeCoster

Commentator 5 days ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Appreciated 20 days ago, created a post with more than 5 votes. For Interesting bioinformatics blogs (2017 edition)
Teacher 20 days ago, created an answer with at least 3 up-votes. For A: Which exon is the exon1 of transcript on minus strand in GTF format
Teacher 24 days ago, created an answer with at least 3 up-votes. For A: Which exon is the exon1 of transcript on minus strand in GTF format
Scholar 24 days ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Teacher 27 days ago, created an answer with at least 3 up-votes. For A: Which exon is the exon1 of transcript on minus strand in GTF format
Scholar 27 days ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Teacher 28 days ago, created an answer with at least 3 up-votes. For A: Which exon is the exon1 of transcript on minus strand in GTF format
Commentator 29 days ago, created a comment with at least 3 up-votes. For C: RNA-seq alignment against globin genes (HBA1, HBA1, and HBB)
Scholar 4 weeks ago, created an answer that has been accepted. For A: ChIP-Seq tag counts
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: mapping of rna seq read to reference seq
Commentator 4 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: mapping of rna seq read to reference seq
Scholar 4 weeks ago, created an answer that has been accepted. For A: The order of part processions of RNA-Seq data
Commentator 5 weeks ago, created a comment with at least 3 up-votes. For C: Bioinformatics freelancers needed
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: mapping of rna seq read to reference seq
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: mapping of rna seq read to reference seq
Appreciated 6 weeks ago, created a post with more than 5 votes. For NanoPack: Scripts for long read sequencing data processing and analysis: NanoPlot, NanoFilt, NanoStat, NanoLyse, NanoComp
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: mapping of rna seq read to reference seq
Appreciated 6 weeks ago, created a post with more than 5 votes. For NanoPack: Scripts for long read sequencing data processing and analysis: NanoPlot, NanoFilt, NanoStat, NanoLyse, NanoComp
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: mapping of rna seq read to reference seq
Scholar 6 weeks ago, created an answer that has been accepted. For A: The order of part processions of RNA-Seq data
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: mapping of rna seq read to reference seq
Commentator 7 weeks ago, created a comment with at least 3 up-votes. For C: Best RNA-Seq aligner: A comparison of mapping tools
Commentator 7 weeks ago, created a comment with at least 3 up-votes. For C: Best RNA-Seq aligner: A comparison of mapping tools
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