cgEx: Sample chr22 Data

cgExR Documentation

Sample chr22 Data


This is a sample ContactGroup object representing observations on chr22 from 3 1k Genomes trios' lymphoblastoid cell lines (LCL). colData(cgEx) gives the cell line name (CellLine), the ethnicity of the individual (Population), the family (Family), the gender (Gender), the relationship of the individuals within a trio (Role), the replicate number (Tech) and each sample's batch (Batch).

These data were generated by the dilution Hi-C method using HindIII (Lieberman-Aiden et al.). Hi-C contact matrices were generated by tiling the genome into 40kb bins and counting the number of interactions between bins.

These data have undergone no preprocessing.


The data is an object of class ContactGroup.


Raw data are available from the 4D nucleome data portal ( under accessions 4DNESYUYFD6H, 4DNESVKLYDOH, 4DNESHGL976U, 4DNESJ1VX52C, 4DNESI2UKI7P, 4DNESTAPSPUC, 4DNES4GSP9S4, 4DNESJIYRA44, 4DNESE3ICNE1.


Lieberman-Aiden, E, et al. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science 2009, 326:289-293. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1126/science.1181369")}

See Also


hansenlab/bnbc documentation built on Feb. 4, 2024, 7:20 a.m.