User: ankitplusplus

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Posts by ankitplusplus

<prev • 12 results • page 1 of 2 • next >
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Single cell Hi-C vs Population based Hi-C
... How much percentage of contacts are similar between single cell Hi-C and population Hi-C. And also how much variation or similarity is there between nuclei of cells in terms of chromatin contacts. ...
genome chip-seq sequencing written 17 months ago by ankitplusplus30
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Nucleosome positioning data of different cell types
... Hello everyone, Does anyone know, is there any data of nucleosome positioning available of different cell types for example GM12878, T47D, erythroblast, HeLa-S3 etc. Thank you. ...
mnase nucleosome written 18 months ago by ankitplusplus30
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TF binding region in chromatin contacts
... Hi, I was reading some articles where CTCF binding sites co-occur with cohesin (RAD21) binding site with 60-80% in any particular cell. I wanted to know what fraction of these binding sites found inside chromatin interacting regions and outside chromatin interacting regions. What I understand from C ...
gene tfbs next-gen chip-seq sequencing written 20 months ago by ankitplusplus30
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Transcription factor in nucleosome free region
... Hi, Does anyone know any Transcription factor or motif region which occur in the nucleosome-free region in one cell type and nucleosome-bound region in any other cell type? ...
transcription factor regulatory nulceosome written 22 months ago by ankitplusplus30
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Comment: C: What is meaning of true diagonal in Hi-C?
... I am calculating probability of contacting pair using zhang and wolynes 2015 PNAS method p(i,j) =min(1,C(i,j)/min(ni,nj)) where ni = max[ C(i-4, i), C(i-3,i), ..., C(i,i+2), C(i,i+3) ] C(i,j) is the contact frequency of pairs. So, i have a doubt that what value of C(i,i) should i used for calculat ...
written 2.6 years ago by ankitplusplus30
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Comment: C: What is meaning of true diagonal in Hi-C?
... Thanks for the answer. My bin size is 40 kb. You are correct that diagonal should be the highest value. But for finding the true contact pairs should i use diagonal value as it is or should i put 0 in diagonal. I have a confusion about that. ...
written 2.6 years ago by ankitplusplus30
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What is meaning of true diagonal in Hi-C?
... Hi everyone, In Hi-C contact matrix, i see non zero values in diagonal. What is the meaning of self contacting. Should i ignore the diagnoal for further calculation. Thanks ...
hi-c chia-pet 5c 4c 3c written 2.6 years ago by ankitplusplus30 • updated 2.6 years ago by Anton Goloborodko250
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Comment: C: seed sequences of human miRNA
... Thanks a lot for your answer. ...
written 2.7 years ago by ankitplusplus30
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seed sequences of human miRNA
... Hi, Can anybody help me to find out the list of seed sequences of human miRNA. Is there any tool, database or article where i can get all the seed list. Thanks. ...
mirna written 2.7 years ago by ankitplusplus30 • updated 2.7 years ago by ashraf.bioinfo10
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How can i find the regualatory transcription factor of my list of gene
... Hi, I have some list of human genes and i wanted to find all transcription factor associated with these genes. What software tools, database i can used for finding such regulatory TF. ...
gene transcription factor regulatory genomics written 2.7 years ago by ankitplusplus30 • updated 2.7 years ago by zwdzwd120

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Popular Question 20 months ago, created a question with more than 1,000 views. For seed sequences of human miRNA

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