Tag: fimo

Transcription Factor Functions

Transcription Factor Functions 1 I have been wondering if there is a database that contains information about whether a transcription factor has a repressive or an activating or a context-dependent function. factor database transcription • 71 views If you performed a whole-genome FIMO scan, selecting those hits that match your…

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MEME suite compare motifs between species

MEME suite compare motifs between species 1 Hello, I have a set of 5kb sequences upstream of a gene from different primates, and I would like to know what motifs are in enhancers and promoters of primates vs the 5kb upstream sequences of a set of the same gene but…

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Exporting list of enriched motif sequences from CentriMo in MEME Suite

Hi, I have a set of sequences for which I have identified a list of significant motifs through MEME. I then used FIMO to find specific regions in my sequences where the identified significant motifs were enriched. It gives me enriched locations for my motifs. It does not give me…

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How to graphically represent a known DNA motif in a list of DNA sequences

How to graphically represent a known DNA motif in a list of DNA sequences 0 Hello. I was using FIMO to search a known motif in a list of genes. FIMO gives me a list of motif occurences, that is the matched sequence, the p-value, the q-value and also the…

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