User: ishengomae

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ishengomae100
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100
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Trusted
Location:
Tanzania, United Republic Of
Last seen:
3 months ago
Joined:
6 years, 1 month ago
Email:
i*********@nm-aist.ac.tz

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Posts by ishengomae

<prev • 42 results • page 1 of 5 • next >
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Using BCFtools to obtain between population Fst values from vcf file
... I'm at a point where I would want to compute between population Weir and Cockerham Fst values directly from a large vcf file. Apparently VCFtools had utilities for this as in this question http://seqanswers.com/forums/showthread.php?t=34511 and the command were if I am correct: vcftools --vcf ...
vcf bcftools fst snp weir and cockerham written 3 months ago by ishengomae100
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Comment: C: Is Newbler still available for download
... Hi jvhaarst, Would you kindly share the Newbler assembler with me please? Many thanks in advance. ...
written 7 months ago by ishengomae100
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Comment: C: How to mine all (or most) promoter sequences from Drosophila genome
... Whoow, thanks so much. ...
written 10 months ago by ishengomae100
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How to mine all (or most) promoter sequences from Drosophila genome
... Hi all, Please would anyone help? I want to obtain ideally all promoter sequences for all or most of the protein coding sequences from Drosophila genome and then find corresponding promoter sequences for related dipterans. I have checked with flybase and I still don't see how to do this. Any help ...
drosophila genome alignment promoter sequences written 10 months ago by ishengomae100 • updated 10 months ago by genomax78k
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Comment: C: Species tree vs Gene trees during evolutionary analyses: Does it matter?
... I was able to follow a main suggestion, that is apply a gene tree for my analysis and it turned out that most of my gene trees were concordant with species phylogeny. And there were no problem anyway in publishing the results e.g. https://www.nature.com/articles/ncomms11519. ...
written 23 months ago by ishengomae100
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Comment: C: How to statistically test significance of molecular convergence in two unrelated
... This looks like what I want. Thanks. ...
written 3.2 years ago by ishengomae100
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How to statistically test significance of molecular convergence in two unrelated lineages
... Hi Biostars, This question is exactly what I need, https://www.biostars.org/p/109405/, but surprisingly, it hasn't received any response for over two years. I'm at a point where I want to test whether convergent changes between the two unrelated lineages are random or not. This paper kind of esta ...
R molecular convergence statistics written 3.2 years ago by ishengomae100 • updated 3.2 years ago by ddiez1.8k
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Identifying interactors of hub genes using Cytoscape Network Analyzer plugin
... I have used Network-Analyzer Cytoscape plugin to identify hub proteins - nodes with the highest node degree distribution - in my protein-protein interaction networks. Now I would like to identify nodes interacting with my hub proteins. I want to perform an enrichment analysis (with cytoscape plugin ...
networkanalyzer cytoscape biological process written 3.8 years ago by ishengomae100 • updated 2.2 years ago by Biostar ♦♦ 20
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Classifying proteins as enzymes, GPCRs, ion channels, etc.
... I want to produce a simple classification of my proteins in my list based on whether they are enzymes, GPCRs, transducers, neurotransmitters, transcription factors, etc. Is there a way to automatically generate that sort of classification? (I'm imagining of a open source tool that would take gene s ...
gene protein rna-seq written 3.9 years ago by ishengomae100 • updated 3.9 years ago by DG7.1k
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Coloring nodes using Cytoscape based on gene to pathway annotation information
... Hi, I want to overlay pathway information to genes, mapped onto Biogrid database accessible via Cytoscape and visualize using Cytoscape. Basically I have about 200 overexpressed genes and I have obtained information about which pathways they map. According to various answers here it seems I have ...
pathway gene network cytoscape biogrid written 4.5 years ago by ishengomae100 • updated 4.5 years ago by AndreiR50

Latest awards to ishengomae

Popular Question 22 months ago, created a question with more than 1,000 views. For Coloring nodes using Cytoscape based on gene to pathway annotation information
Popular Question 22 months ago, created a question with more than 1,000 views. For Identifying interactors of hub genes using Cytoscape Network Analyzer plugin
Popular Question 22 months ago, created a question with more than 1,000 views. For Tools to analyze/relate protein structural information to its 3D information
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Coloring nodes using Cytoscape based on gene to pathway annotation information
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Identifying interactors of hub genes using Cytoscape Network Analyzer plugin
Popular Question 3.2 years ago, created a question with more than 1,000 views. For How To Remove All Sequences In My Custom Blast Database?
Popular Question 3.2 years ago, created a question with more than 1,000 views. For How to test for convergent/parallel evolution in a group of homologous proteins?
Popular Question 3.2 years ago, created a question with more than 1,000 views. For How to programmatically query NCBI Gene database
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Online blast and standalone blast return different hits?
Popular Question 3.2 years ago, created a question with more than 1,000 views. For GO terms annotation file format to use in PANTHER
Popular Question 3.8 years ago, created a question with more than 1,000 views. For How to programmatically query NCBI Gene database
Popular Question 4.5 years ago, created a question with more than 1,000 views. For How to programmatically query NCBI Gene database

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