Home of CB4856
(Courtesy Wil Shontell)

Welcome to the assembly hub for C. elegans Hawaiian strain CB4856!

You are viewing the contig-integrated genome.
This is the current reference assembly of CB4856, generated by iteratively integrating CB4856 variants into the N2 reference genome, then substituting de-novo contigs for recalcitrantly divergent regions wherever possible. Other assemblies on this hub include:

UCSC Genome Browser assembly ID: CB4856Princeton_JR-contig
Assembly date: 2015
BioProject: PRJNA275000
BioSample: SAMN03334911
GenBank accession ID: JZEW00000000
Strain information: Strain CB4856

Track Hub Details:

Download sequence and annotation data:

The CB4856 reference genome, along with supplementary data files, are available from the Waterston lab here. Supplementary files include (a) precise global alignments from CB4856 to WS230 using lastz, (b) all CB4856 SNVs with respect to WS230, (c) all CB4856 indels with respect to WS230, (d) a global summary of SNVs and indels, and (e) predicted effects of all variants vs. WS230.

The raw sequencing reads used to generate and annotate this reference are publically available here:


Any questions, comments, and/or requests regarding this hub or its associated datasets should be directed to Owen Thompson or the Waterston Lab at the University of Washington.

July 1, 2015: Our paper is freely available via Open Access in the July 1, 2015 publication of Genetics.

May 19, 2015: Our paper is available Early Online here, doi: 10.1534/genetics.115.175950.

May 19, 2015: The CB4856 Hub is live!

A paper describing our full results and methods is available Early Online in the journal Genetics:

Remarkably divergent regions punctuate the genome assembly of the C. elegans Hawaiian strain CB4856

Owen A. Thompson*, L. Basten Snoek§, Harm Nijveen†, Mark G. Sterken§, Rita J.M. Volkers§, Rachel Brenchley‡, Arjen van ’t Hof‡, Roel P. J. Bevers**, Andrew R. Cossins‡, Itai Yanai§§, Alex Hajnal††, Tobias Schmid††, Jaryn D. Perkins‡‡, David Spencer*, Leonid Kruglyak***, Erik C. Andersen§§§, Donald G. Moerman‡‡, LaDeana W. Hillier*, Jan E. Kammenga§, Robert H. Waterston*

*Department of Genome Sciences, University of Washington, Seattle WA 98195 USA
§Laboratory of Nematology, Wageningen University, 6708 PB Wageningen, The Netherlands
†Laboratory of Bioinformatics, Wageningen University, Droevendaalsesteeg 1, NL-6708 PB Wageningen, The Netherlands
‡Centre for Genome Research, Institute of Integrative Biology, Biosciences Building, University of Liverpool Crown Street, Liverpool L69 7ZB, United Kingdom
**Laboratory of Systems Biology and Genetics, Institute of Bioengineering, School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
§§Department of Biology, Technion-Israel Institute of Technology, Haifa, Israel
††Institute of Molecular Life Sciences, University of Zurich, Winterthurerstrasse 190, CH-8057 Zurich, Switzerland
‡‡ Department of Zoology and Michael Smith Laboratories, University of British Columbia, Vancouver, BC, V6T 1Z3 Canada
*** Howard Hughes Medical Institute, Departments of Human Genetics and Biological Chemistry, David Geffen School of Medicine, U.C.L.A., Los Angeles, CA 90095
§§§ Department of Molecular Biosciences, Northwestern University, Evanston, IL 60208