Add new objective for DNA replication

[obi-bot]

Add new term for DNA replication timing assay:

term: nucleotide replication profiling feature identification objective parent: molecular feature identification objective description: A molecular feature identification objective that aims to identify features of nucleotide replication

Reported by: vsmalladi

Original Ticket: obi/obi-terms/664

[obi-bot]

Will add this objective when add related assays

Original comment by: zhengj2007

[obi-bot]

• assigned_to: nobody --> jzheng24

Original comment by: zhengj2007

[obi-bot]

Can someone explain what DNA replication timing is? Maybe an example of a paper that uses the assay? I would not know from the definition what is being done, probably because this isn't my field of expertise.

Original comment by: bpeters42

[obi-bot]

Here are two examples provided by Venkat.

1. Repli-chip assay (Replication Timing by array assay) An assay to quantifying DNA replication time using array technology Ref: Hiranti et al. Global reorganization of replication domains during embryonic stem cell differentiation. PLoS Biol. 2008 October 7;6(10):e245 [PMID:18842067]

2. Repli-seq assay (Replication Timing by sequencing assay) An assay to quantifying DNA replication time as a function of genome position based on genome-wide sequencing Ref:Hansen et al. Sequencing newly replicated DNA reveals widespread plasticity in human replication timing. Proc Natl Acad Sci U S A. 2010 January 5; 107(1): 139–144. [PMID:19966280]

Original comment by: zhengj2007

[obi-bot]

objective was added and other 4 request assays: DNA replication timing by array assay DNA replication timing by sequencing assay Carbon-copy chromosome conformation capture assay RNA-binding protein immunoprecipitation array profiling assay

Original comment by: zhengj2007

[obi-bot]

ENCODE project request assay terms

Original comment by: zhengj2007

[turbomam]

Speak up if you would like this reopened!