Comparative Sequence Assembly

We used Pash to anchor WGS reads from the Rhesus macaque (Macaca mulatta) trace archive to the Hg16 build of the Human genome. Selected Human RefSeq genes and 20Kb flanking regions were used to drive our Comparative Sequence Assembly of the corresponding Rhesus sequence and scaffolding of the resulting contigs.

The data produced in our initial pipeline--including read anchorings to the Human genome, Rhesus contigs, scaffolded contigs, and 5-way MLAGAN alignments--are publicly available below.

Also available for these gene regions are our Pash anchorings of reads from the Chimp (Pan troglodytes) trace archive. These anchorings used the Hg15 draft of the Human genome.

See Footnotes

Download Comparative Assembly-Related Data

We provide several means of accessing the data:

  1. Direct Access By RefGene Name or Accession Number
    If we have assembly-related data for your RefGene, it will be shown and you can download what interests you.
  2. Access Via Genboree
    By entering a keyword, you will browse that area of the Human genome within the Comparative Assembly Genboree project. The data for an assembled region is available through the pop-ups for the "CSA:Mml.gene" track.
  3. Download Data for an Entire Chromosome
    We also provide tar-gzipped data sets by chromosome.
Comparative Assembly for Rhesus
(version: May-10-2004)
Human
Chromosome		 M.ml WGS
Read Anchorings		 M.ml
CSA Contigs		 M.ml CSA
Scaffolds		 5-Species
MLAGAN Alignments
Chr1 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr2 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr3 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr4 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr5 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr6 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr7 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr8 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr9 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr10 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr11 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr12 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr13 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr14 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr15 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr16 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr17 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr18 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr19 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr20 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr21 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Chr22 Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
ChrX Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
ChrY Read Anchorings CSA Contigs CSA Scaffolds MLAGAN Alignments
Read Anchorings for Chimp
(version: May-10-2004)
Human
Chromosome		 P.tr WGS
Read Anchorings (to Hg15)
Chr1 Read Anchorings
Chr2 Read Anchorings
Chr3 Read Anchorings
Chr4 Read Anchorings
Chr5 Read Anchorings
Chr6 Read Anchorings
Chr7 Read Anchorings
Chr8 Read Anchorings
Chr9 Read Anchorings
Chr10 Read Anchorings
Chr11 Read Anchorings
Chr12 Read Anchorings
Chr13 Read Anchorings
Chr14 Read Anchorings
Chr15 Read Anchorings
Chr16 Read Anchorings
Chr17 Read Anchorings
Chr18 Read Anchorings
Chr19 Read Anchorings
Chr20 Read Anchorings
Chr21 Read Anchorings
Chr22 Read Anchorings
ChrX Read Anchorings
ChrY Read Anchorings

FOOTNOTES

Data from the The Rhesus Genome Sequencing Project and the Chimpanzee Genome Sequencing Project were used for anchoring, comparative assembly, and MLAGAN comparison.

Please consult recent statements from NHGRI and the Wellcome Trust regarding the use restrictions on the unpublished sequences from genome projects.