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User: luckysardar171

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Posts by luckysardar171

<prev • 31 results • page 1 of 4 • next >
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Comment: C: Chip-seq IgG as control or Input DNA or usage of both
... Any suggestions will be helpful Thank you ...
written 1 day ago by luckysardar171 • 0
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Chip-seq IgG as control or Input DNA or usage of both
... Hello I am doing chip experiment is IgG is needed in the experiments or Input DNA enough, experience people suggestions will be very helpful, I went through many biostar threads people are suggesting Input DNA as a control will be enough, and from some literature survey I understand that some spuri ...
next-gen chip-seq sequencing written 2 days ago by luckysardar171 • 0
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Comment: C: Finding Fragment Size chip-seq paired end reads
... Okay Thank you. for my experiment I have one wt and knockout data i wanted compare this two and show the H3K4me3 status how I have to proceed, do the differential analysis or what, any examples and papers will be better to understand Thank you ...
written 3 days ago by luckysardar171 • 0
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Comment: C: Finding Fragment Size chip-seq paired end reads
... Okay Thank you for your suggestions, can you please tell me usage of --SPMR in MACS2 because encode project uses in its pipeline ...
written 3 days ago by luckysardar171 • 0
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Finding Fragment Size chip-seq paired end reads
... Hello currently I am working on Chip-seq analysis i have paired end data 35-130 PE reads I have aligned with bowtie2, after mapping generated the bam. Using MACS2 i wanted call the peaks(H3K4me3 histone mark) when I run run_spp.R for Modelling Fragment Size i got the below output result i am little ...
chip-seq sequencing written 3 days ago by luckysardar171 • 0
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Comment: C: Chip_seq analysis remove duplicates
... Okay, thank you for the reply, My fragment size varying lot does it matters in chip-seq ...
written 6 days ago by luckysardar171 • 0
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Chip_seq analysis remove duplicates
... Hello everyone I am analyzing Chip-seq data. In fragmentation step we used Micrococcal Nuclease in this condition can I remove duplicate reads from bam file after mapping or not can anyone suggest me. Read many related papers some people are removing duplicates and some are not confused what to do. ...
chip-seq written 6 days ago by luckysardar171 • 0
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Comment: C: How to check wether Chip-seq worked or not
... Peak number mentioned is over Input, is there any necessary to make all sample with same library size. ...
written 17 days ago by luckysardar171 • 0
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Comment: C: How to check wether Chip-seq worked or not
... The below plot I got it from plotfingerprint can you please give some comments https://ibb.co/FBHJzn3 ...
written 18 days ago by luckysardar171 • 0
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Comment: C: How to check wether Chip-seq worked or not
... Okay, Thank you...so much ...
written 18 days ago by luckysardar171 • 0

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