MaizeGDB is a community-oriented, long-term, federally funded
informatics service to researchers focused on the crop plant and
model organism Zea mays.
MaizeGDB is a founding member of
AgBioData,
a consortuim of agriculture-related online resources which is
committed to making agriculture-related research data FAIR.
GCV: A web-app that visualizes genomic context data in a single, federated interface by using functional annotations as a unit of search and comparison.
Kelly Dawe, Doreen Ware, Matthew Hufford, Kevin Fengler, Candice Hirsch, Kapeel Chougle, Arun Seetharam, Michael Syring, Marcella K. Tello-Ruiz, Sharin Wei, Margaret Woodhouse, Jonathan Gent, Shujun Ou, David Hufnagel, Jianing Liu, Nancy Manchanda, Sarah Pedersen, Samantha Snodgrass
Publication status
Published
Project reference
Genome sequence and assembly of abnormal chromosome 10 genome Ab10.
Jianing Liu , Arun S. Seetharam, Kapeel Chougule, Shujun Ou, Kyle W. Swentowsky, Jonathan I. Gent, Victor Llaca, Margaret R. Woodhouse, Nancy Manchanda, Gernot G. Presting, David A. Kudrna, Magdy Alabady, Candice N. Hirsch, Kevin A. Fengler, Doreen Ware, Todd P. Michael, Matthew B. Hufford and R. Kelly Dawe
DOI
Assembly methods: PacBio sequencing, CANU1.8 assembly, Oxford Nanopore sequencing, miniasm assembly, integrated with miniasm and scaffolded with BioNano optical mapping, and ordered and oriented using linkage data Construction of pseudomolecules: Pseudomolecules were constructed from superscaffolds using genetic maps; gap sizes are 100N
The length of scaffold which takes the sum length (summing from longest to shortest scaffold) past 50% of the total assembly size.
A contig is a contiguous consensus sequence that is
derived from a collection of overlapping reads.
A scaffold is set of a ordered and orientated contigs
that are linked to one another by mate pairs of sequencing reads.
Annotation
Annotation Identifier
Zm00043a.1
Annotation Date
2019-12-10
Is current
yes
Annotation Software
Braker/Mikado/PASA
Metadata
Browser
Genome browser is not available for assembly Zm-B73_AB10-REFERENCE-NAM-1.0
