News

Updated chromosome-scale CH assembly and CH/CHO-K1 annotations

January 27, 2021

A significantly more continuous version of the Chinese hamster genome, CH PICRH (GCF_003668045.3), along with its 2020 RefSeq annotation is now on CHOgenome.org. Long-range scaffolding of the previous CH genome assembly was performed using high-throughput chromosome conformation capture (Hi-C) and now 97% of the genome is contained in 11 large scaffolds corresponding to the CH chromosomes. In addition, the updated 2020 RefSeq annotation for the CHO-K1 cell line is available. Both can be searched (gene search and BLAST) and viewed on JBrowse. More information on the most recent version of the Chinese hamster genome can be found here.

Updated CH assembly and CH/CHO-K1 annotations

May 1, 2019

We are excited to announce that the significantly improved Chinese hamster genome, CH PICR (GCF_00366804.1), along with its 2018 RefSeq annotation is now online. In addition, an updated RefSeq annotation for the CHO-K1 cell line is now available. Both can be searched (gene search and BLAST) and viewed on JBrowse. More information on the updated Chinese hamster genome can be found here.

New mRNA Expression Browser (Beta)

June 7, 2017

The browser (beta version) for the visualization of mRNA expression from CHO-K1 cells is now online. The data is from several published DNA-microarray or RNA-Seq experiments. The tutorial on how to use this browser can be found here.

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Search CHO-K1 GenBank

Search CHO-K1 GenBank (2011) assembly by accession number, gene name, symbol, or GO Term:

This genome assembly corresponds to the CriGri_1.0 genome assembly released in August 2011 (GenBank Assembly ID GCA_000223135.1).

The CHO-K1 GenBank database can be searched by:

  1. Accession number (i.e. EGV99227)
  2. Gene name or symbol (i.e.Transcription factor E2F3 or E2F3)
  3. GO term (i.e. GO:0003700 or Transcription factor activity)

There are currently 24,240 entries in the database. To display all database records, use % in the search field.

BLAST the CHO-K1 genome here and at NCBI.