User: anu014

gravatar for anu014
anu014140
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140
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Location:
India
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1 day, 4 hours ago
Joined:
2 years, 9 months ago
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Posts by anu014

<prev • 122 results • page 1 of 13 • next >
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Removal of ERCC spike-in in RNA-Seq
... Hello Biostars! Can anyone tell me if is it necessary to remove spike-in sequences before aligning FASTQs to reference FASTA OR is it necessary to consider spike-in while normalizing in DEseq2 ? And if yes, how to handle spike-in in RNA-Seq? Can STAR or DEseq handle it somehow? Please suggest me. ...
assembly alignment rna-seq written 5 days ago by anu014140 • updated 5 days ago by Devon Ryan79k
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NovaSeq data analysis
... Hello Biostars! Hope you all are doing well :) Today, it's something brand new analysis I'm required to do. It's to analyze the NovaSeq data. Can anyone suggest me some tools to start with? Few things I've noticed. There is significant difference between regular FASTQ from HiSeq and one from Nov ...
assembly next-gen alignment sequencing written 8 days ago by anu014140 • updated 8 days ago by genomax47k
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Comment: C: Reversal of cross-linking cause DNA loss in ChIP-Seq
... Hi Genomax. I thought if the question is related to NGS, it is appropriate to ask people here. ...
written 9 weeks ago by anu014140
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(Closed) Reversal of cross-linking cause DNA loss in ChIP-Seq
... Hello Biostars! This is more like 'ChIP-Seq protocol' question. Summarized protocol for ChIP is here: https://en.wikipedia.org/wiki/Chromatin_immunoprecipitation It has been mentioned after immunoprecipitation of the protein-DNA complex , protein–DNA cross-link is reversed and proteins are remov ...
genome assembly next-gen chip-seq sequencing written 9 weeks ago by anu014140
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Comment: C: Statistics between 3 sets of genes
... Because my data is unbalanced. The number of genes in each set is different. ...
written 10 weeks ago by anu014140
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Statistics between 3 sets of genes
... Hello Biostars! Today I am dealing with Statistics. I have 3 sets of genes (from same organism) with their AT% content. Now, I want to compare these sets as to which sets are more different from each other. I tried Type-III ANOVA. But I'm not sure it's the correct method to apply : library ...
gene genome statistics R written 10 weeks ago by anu014140 • updated 10 weeks ago by Nicolas Rosewick6.3k
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Comment: C: Chip-seq peak annotation [Chipseeker]
... Okay. I'll be using same range for mouse now. Thank you Guangchuang. ...
written 11 weeks ago by anu014140
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Comment: C: Chip-seq peak annotation [Chipseeker]
... Can I use the same range for Mouse too? as it's almost similar to human.. ...
written 12 weeks ago by anu014140
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Comment: C: How to get Gene symbols & nuclotide FASTA for taxid :1239
... Still it's not working @GenoMax. After running this it's showing me 'help' of efetch : EFETCH - retrieve entries from sequence databases. Synopsis: efetch -options [database:] Databases: SWissprot/SP, PIR, WOrmpep/WP, EMbl, GEnbank/GB, ProDom, ProSite Options: -a Search wi ...
written 12 weeks ago by anu014140
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Comment: C: How to get Gene symbols & nuclotide FASTA for taxid :1239
... Okay I got it now. One can download edirect suit from here : ftp://ftp.ncbi.nlm.nih.gov/entrez/entrezdirect/ . It contains esearch n efetch programs. ...
written 12 weeks ago by anu014140

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Centurion 3 months ago, created 100 posts.
Voter 6 months ago, voted more than 100 times.
Supporter 14 months ago, voted at least 25 times.

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