This page serves as a repository of protocols used in 4DN projects. All teams are encouraged to post your protocols as sub-pages to this Wiki page.

1. Genomic technologies currently in use or being developed in the 4DN network (10/17/2016).

1. 3C-seq (Dekker lab)
2. 4C-seq (Harmen J.G. van Werken et al. 2012)
3. 5C (J. Dostie & J. Dekkerhttp://www.nature.com/nprot/journal/v2/n4/pdf/nprot.2007.116.pdf. 2007)
4. Hi-C (Dekker. lab, supp data)
5. ChIA-PET (Y. Goh & Ruan et al 2012)
6. Capture-Hi-C (Houlston lab, 2015)
7. Tethered Conformation Capture (TCC)- (R. Kalhor & L. Chen et al Nat 2012, supp data p38)
8. In situ Hi-C (Rao and Erez-Lieberman A. 2014, methods p18)
9. Dnase Hi-C (Ramani et al 2016)
10. Micro-C (Rando Lab, Procedure)
11. Genome Architecture Mapping (GAM) (2017 research paper)
12. COLA (Grabherr lab, 2014 (full paper), methods
13. Single-cell Hi-C (Frazer Lab, 2013)
14. Combinatorial single-cell Hi-C (Shendure Lab, 2015 (paper), methods (supp data))
15. Split-pool Barcoding (McCarroll Lab, 2015)
16. RICh-PET(Ruan Lab, Unpublished)
17. ChIP RICh-PET (Ruan Lab, Unpublished)
18. Distance Hi-C (Zipfeld Lab, Unpublished)
19. DamID (Bas van Steensel, 2000 (research paper), 2007 (Protocol) and Single-Cell DamID (van Steensel Lab, 2013 (extended experimental procedures)
20. TSA-Seq (Unpublished)
21. Repli-Seq (Marchal et. al., Nature Protocols, in press 2017)
22. TRIP (Bas van Steensel & Maarten van Lohuizen, 2014, Protocol)
23. CUT&RUN (Steven Henikoff 2017)

2. Imaging technologies currently in use or being developed in the 4DN network (being compiled by Clodagh O'shea).