User: Pappu
Pappu • 1.9k
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Posts by Pappu
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Comment:
C: Gene function prediction
... Nothing came out from uniprot go annotation. ...
written 4 weeks ago by
Pappu • 1.9k
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... I am wondering if there is any good way to predict the function of a gene given the fact that hardly any literature exists on it. ...
written 4 weeks ago by
Pappu • 1.9k
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... I am looking for a list of differentially expressed (up and down) genes from all cmap perturbation experiments at clue.io I could only get a small fraction of those from the Enrichr website. I am wondering where can I get such list or how can I generate it from the raw data? ...
written 4 weeks ago by
Pappu • 1.9k
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5 follow
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... I am wondering if the is any basic experimental methods book or review for bioinformaticians so that they can understand the presentations given by experimentalists. Such book should include what kind of experimental methods can be used to validate what kind of in-silico analysis results for example ...
written 5 weeks ago by
Pappu • 1.9k
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... I am wondering if there is any curated list of top cited bioinformatics papers during last 5 years.. ...
written 7 weeks ago by
Pappu • 1.9k
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... I am wondering if there is any pipeline which runs DESeq2, EdgeR etc DE analysis and GSEA, Pathway etc enrichment and other basic analysis in one go and make the results available by some kind of shiny or other web app. ...
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... I am wondering what is the effect of following filters before using fast quantifiers like salmon/kallisto:
1. Adapter trimming
2. Size selection
3. Quality filtering ...
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... I am tying to do differential expression (DE) analysis between different conditions. Now I have same samples sequenced at multiple lanes to improve coverage. I am wondering if it would be better to combine those reads from different lanes for quantification or quantify the reads separately before DE ...
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... Check out https://portals.broadinstitute.org/ccle ...
written 3 months ago by
Pappu • 1.9k
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... Check out http://www.cbioportal.org/ ...
written 3 months ago by
Pappu • 1.9k
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