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NTR: Chromosome conformation capture-on-chip #875

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jahilton opened this Issue Nov 7, 2017 · 2 comments

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jahilton commented Nov 7, 2017

editor preferred term: Chromosome conformation capture-on-chip
alternate terms: 4C, 4C-seq
textual definition: An assay which uses cross-linking of proteins to proteins and to DNA followed by two rounds of digestion and ligation, and then inverse PCR, in order to enable for unbiased genome-wide screens for DNA contacts made by single genomic sites of interest.
definition source for the textual definition: http://www.sciencedirect.com/science/article/pii/B9780123919380000045

Currently, 5C is listed under 'sequencing assay'. In this case, 4C should also be under 'sequencing assay'. However, maybe it's more appropriate to add a 'chromosome conformation capture assay' term under 'sequencing assay' and put both 5C and 4C within this class?

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rctauber Nov 27, 2017

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Is “circularized chromosome conformation capture” (also 4C) another exact synonym for this term? ECO is requesting this term and it would be good to know if they are exactly the same techniques, or just related. From what I can find, it seems like they’re the same.

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rctauber commented Nov 27, 2017

Is “circularized chromosome conformation capture” (also 4C) another exact synonym for this term? ECO is requesting this term and it would be good to know if they are exactly the same techniques, or just related. From what I can find, it seems like they’re the same.

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jahilton Dec 4, 2017

Yes, it appears that they are indeed the same.
Explicitly stated here: https://epigeneticsandchromatin.biomedcentral.com/articles/10.1186/1756-8935-7-25 (Abbreviations section)

jahilton commented Dec 4, 2017

Yes, it appears that they are indeed the same.
Explicitly stated here: https://epigeneticsandchromatin.biomedcentral.com/articles/10.1186/1756-8935-7-25 (Abbreviations section)

jamesaoverton added a commit that referenced this issue May 1, 2018

Merge pull request #918 from rctauber/master
Add new terms for jahilton (#828, #875, #876)
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