NemaGene : transcript assembly ftp

 News
[Feb.14.2014]   
Explore our new Nematode Tissue Transcriptomes section!

[Jan.31.2014]   
NemaPath has been updated and expanded!

[Jan.21.2014]   
The genome of the human, blood-feeding hookworm Necator americanus has been decoded!

[Dec.23.2013]   
The NemaGene database is being updated and expanded!

[Dec.23.2013]   
NemaBrowse updated with new species!

[Dec.06.2013]   
Agriculture and Food Research Initiative (AFRI) grant awarded for a study aimed at Identifying and Characterizing Parasitic Nematode Vaccine Targets





Transcript Assembly Data Files

Worm cDNA assemblies generated from 454 (and sanger reads when available) are made available on this page. Isogroups refer to gene loci and isotigs refer to alternatively spliced isoforms of genes. These assemblies are typically generated using the Newbler cDNA assembler (Roche Applied Science). Isogroup membership files and read membership files are generated by local perl scripts that parse the ace format file generated by the Newbler assembler. Click the symbol to expand rows to show available assembly information for each species.

Last update: 08/04/2011

Species Isotig nuc fasta Isotig aa fasta Isogroup membership Read membership
Ancylostoma caninum text link Data availability pending text link text link
Assembly input Assembly stats Stage info
Sanger: 0
454: 1,483,002
Illumina: 0
Isogroups: 19,277
Isotigs: 29,448
Proteins: 36,626
Infective L3: 474,249
Serum stimulated L3: 458,249
Female: 277,319
Male: 272,668
Cooperia oncophora text link text link Not available Not available
Assembly input Assembly stats Stage info
Sanger: 0
454: 1,319,363
Illumina: 0
Isogroups: --
Isotigs: 30,025
Proteins: 29,903
Female: 334,082
Male: 316,018
L3: 689,580
Dictyocaulus viviparus text link text link text link text link
Assembly input Assembly stats Stage info
Sanger: 0
454: 1,330,579
Illumina: 0
Isogroups: 20,571
Isotigs: 36,192
Proteins: 36,636
Adult: 95,637
Egg: 59,637
Female: 276,270
Male: 257,940
L1: 277,558
L3: 324,316
L5: 180,450
Heterorhabditis bacteriophora text link text link text link text link
Assembly input Assembly stats Stage info
Sanger: 0
454: 580,165
Illumina: 0
Isogroups: 7,320
Isotigs: 7,320
Proteins: 7,857
no information available
Necator americanus text link text link text link text link
Assembly input Assembly stats Stage info
Sanger: 961
454: 507,397
Illumina: 0
Isogroups: 9,262
Isotigs: 9,692
Proteins: 9,681
no information available
Oesophagostomum dentatum text link text link text link text link
Assembly input Assembly stats Stage info
Sanger: 0
454: 1,268,664
Illumina: 0
Isogroups: 16,885
Isotigs: 29,805
Proteins: 30,024
Female: 236,777
Male: 312,547
L2: 206,652
L3: 341,745
L4: 312,696
Ostertagia ostertagi text link text link Not available Not available
Assembly input Assembly stats Stage info
Sanger: 6,558
454: 1,596,628
Illumina: 0
Isogroups: --
Isotigs: 34,871
Proteins: 34,792
L3: 1,291,583
L4: 306,549
Teladorsagia circumcincta text link text link text link text link
Assembly input Assembly stats Stage info
Sanger: 0
454: 885,913
Illumina: 0
Isogroups: 30,118
Isotigs: 33,101
Proteins: 33,124
Adult: 885,913
Trichostrongylus colubriformis text link text link text link text link
Assembly input Assembly stats Stage info
Sanger: 0
454: 2,399,700
Illumina: 0
Isogroups: 20,214
Isotigs: 27,412
Proteins: 27,593
Female: 1,337,592
Male: 1,077,063

 
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