Cottongen

HAU 50 genomes' assembly and annotation data downloadable (4/25)

HAU's 50 genomes' (15 G. arboreum and 35 G. hirsutum) assembly and annotation data are available at CottonGen.

Per ICGI bylaws, elections for the ICGI overall and Workgroup Co-Chairs will be held biennially.

Human-Readable Name	-- G. hirsutum (AD1) 'TM-1' UTX v3.1 proteins (109,792)
Database Path	/mainlab/web/temp/db/cottongen/AD1_TM1-UTX_v3.1.protein.blast.fasta
Database Type	protein
FASTA Header Format	default
External Database	CottonGen Database
RegEx	/^(\S+).*/
Link-out Type	link

Human-Readable Name	-- G. hirsutum (AD1) 'TM-1' UTX v3.1 CDs (109,792)
Database Path	/mainlab/web/temp/db/cottongen/AD1_TM1-UTX_v3.1.CDS.blast.fasta
Database Type	nucleotide
FASTA Header Format	default
External Database	CottonGen Database
RegEx	/^(\S+).*/
Link-out Type	link

Human-Readable Name	G. hirsutum (AD1) 'TM-1' UTX v3.1 Genome (26 chrom. 223 scaffolds)
Database Path	/mainlab/web/temp/db/cottongen/AD1_TM1-UTX_v3.1.genomic.blast.fa
Database Type	nucleotide
FASTA Header Format	default
External Database	JBrowse for AD1_TM1-UTX_v3.1
RegEx	/^(\S+).*/
Link-out Type	jbrowse

Phenotype data of 10 salt-stress traits in the 288 tested accessions added (Ref. Cai, et al.)

New GWAS data on fiber quality and yield traits at G.hirsutum AD1-NBI genome data published by CRI-CAAS are available (Ref. Liu, et al.)

The data can be accessed via CottonGen's Search QTL/GWAS and this video shows you How to GWAS Search and Viewing in MapViewer