User: Calangoa

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Calangoa30
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30
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1 week, 2 days ago
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2 years, 6 months ago
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Posts by Calangoa

<prev • 41 results • page 1 of 5 • next >
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(Closed) TF finding from motif discovery
... I want to find what transcription factor related to each motif(For example ATACGAG) What website do you suggest? I used RSAT but it doesnt work that good. My imput data is gene symbol and I want to know motif from up stream of the genes then finding TF for that region. ...
motif tf written 11 days ago by Calangoa30 • updated 11 days ago by Benn7.5k
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Comment: C: Which transcriptin factor bind to specific motif in mouse
... I have search my sequence in TomTOm unfortunatly there is no resemblance with any known TF!! ...
written 4 weeks ago by Calangoa30
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Comment: C: Which transcriptin factor bind to specific motif in mouse
... Thanks ATpoint. I look at TomTom but I have found motif by RSAT. for now I want to know which TF ( by name forexample EGR1) match to this motif Or a name for this motif. Any suggestion? ...
written 4 weeks ago by Calangoa30
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Which transcriptin factor bind to specific motif in mouse
... Hi there, How to know which transcription factor bind to a specific motif from RSAT website? I extracted cgccgcc/ggcggcg over represented up stream of a set of genes from [RSAT][1] but it seems there is no way to find TF targeted this motif in this website. [1]: http://rsat.sb-roscoff.fr/ind ...
motif written 4 weeks ago by Calangoa30 • updated 4 weeks ago by RamRS23k
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How to compare differentially expressed genes among different affymatrix dataset
... I asked a question previuosly but I think the answers were not matched with my goal. And I completely confused! I have a set of data from some microarray dataset that they utilize 2 kind of affymatrix platform for mouse. The data have nearlly the same biological background and only one variable cha ...
R microarray batch effect written 5 weeks ago by Calangoa30
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Comment: C: Problem in hierarchical clustering
... No I dont know, I just want to. After clustring I found that different daraset from one study stand close together in one cluster but it is not correct when they compared with CM data. How can I do metaanalysis and normilize microarray data from different study? ...
written 5 weeks ago by Calangoa30
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Comment: C: Problem in hierarchical clustering
... I know, but I want to normalize them to compensate batch effect and to find which data is close to CM without considering what dataset is belong to which study. Any way?! ...
written 5 weeks ago by Calangoa30
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Comment: A: Problem in hierarchical clustering
... Here is the photo of heirarchical clustring ![][1] I think my mistake is I dont consider the batch effect. I normiliza each study separetly then I clustered them together. How can I compensate batch effect? In what way? Would it a good idea to normiliza all datasets together? But I dont know how c ...
written 5 weeks ago by Calangoa30 • updated 5 weeks ago by RamRS23k
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Problem in hierarchical clustering
... Hi there, I have a problem with my hierarchical clustering method and I appreciate if anyone could help me in advance. Let me start from the first step, in order to identify differentially expressed genes in some microarray studies (each study consist of 3 individual dataset, collectively I have 15 ...
microarray clustring written 5 weeks ago by Calangoa30 • updated 5 weeks ago by leaodel80
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Comment: C: What is the best clustring method for gene expression base on logFC
... Many Thanks ishackm. ...
written 7 weeks ago by Calangoa30

Latest awards to Calangoa

Popular Question 7 weeks ago, created a question with more than 1,000 views. For the best combine score for enrichment analysis from Enrichr
Popular Question 6 months ago, created a question with more than 1,000 views. For how to calculate the log FC for -1.5 fold change?
Scholar 13 months ago, created an answer that has been accepted. For A: What is the meaning of normalize signal intencity in microarray and how to extra

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