User: sabaghianamir70

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10
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New User
Location:
iran
Last seen:
1 month, 3 weeks ago
Joined:
1 year, 9 months ago
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s**************@gmail.com

Phd student in molecular medicine

Posts by sabaghianamir70

<prev • 76 results • page 1 of 8 • next >
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What is the best mapping tool for LncRNA analysis
... Hi What is the best mapping tool for lncRNA analysis. STAR or Hisat2 or Bowtie ? ...
rna-seq written 9 weeks ago by sabaghianamir7010
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How Download Blood Derived small rna seq(Mirna seq) from TCGA ?
... Hello I want to download Small rna seq or mirseq raw data or readcount data from TCGA. But problem is i am looking for the data, which sampled from peripheral blood. For example i need Esophagus cancer raw data which sampled from peripheral blood of the patients. Thanks ...
small rna seq tcga written 10 weeks ago by sabaghianamir7010
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What is the best reference genome for Mir-seq analysis
... Hi I am currently studying on MiRNAs with analyze the Mir-seq,s data. So I am wondering what is the best reference genome to use for this analyze. Hg19 or 38 and Hg38 Full I know hg38 is newer and better, But the mean part of my question is about hg38 and hg38 full. In MiRNA analysis, which one is ...
R rna-seq written 4 months ago by sabaghianamir7010
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Comment: C: Differential expression issue
... How can i check that ? I almost tried every option in edgR or Deseq2. can you explain how can i control the different baseline expression level ? ...
written 6 months ago by sabaghianamir7010
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Comment: C: Differential expression issue
... ![enter image description here][1] [1]: http://uupload.ir/files/9o25_bio_2.png As you can see in this picture, All p value adj are above the 0.05 ...
written 6 months ago by sabaghianamir7010
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Comment: C: Differential expression issue
... ![enter image description here][1] [1]: http://uupload.ir/files/ucjm_bio.png this is how i set up my analysis..each Count file includes 5 time points. ...
written 6 months ago by sabaghianamir7010
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Comment: C: Differential expression issue
... because I should pay for using cloud services, i just trying to test the whole thing in galaxy. If it helping, i can just send all workflow here. Rscript '/opt/galaxy/shed_tools/toolshed.g2.bx.psu.edu/repos/iuc/edger/334ce9b1bac5/edger/edger.R' -R '/data/dnb02/galaxy_db/job_working_directory/0 ...
written 6 months ago by sabaghianamir7010 • updated 6 months ago by RamRS30k
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Comment: C: Differential expression issue
... I have 5 patients which all have 5 timepoints.(0 1 3 5 7) So i just need to take all samples which belongs to time 0, and compare them to other time points For example : 0-1 0-3 0-5 0-7 The main issue is about my FDR and p value adj, because in when i run it with edgeR, i have no significant ...
written 6 months ago by sabaghianamir7010
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Comment: C: Differential expression issue
... Deseq and edgeR. i tried both. As i said : I thought i can compare all time 0 from 5 patients to all time 1. ...
written 6 months ago by sabaghianamir7010
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Differential expression issue
... Hello I having a problem with analyzing my data.. I have 5 time points of 5 patients, So the problem is, when i take all timepoints 0 from all patients and compare them with timepoints 1 from all patients, my p value adj failed. P.s i cant compare each person separately, because i just have one sa ...
rna-seq written 6 months ago by sabaghianamir7010

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