Drosophila biarmipes

Overview

As part of the Drosophila modENCODE project, the Baylor College of Medicine is studying the comparative genomics of eight additional species of Drosophila: biarmipes, bipectinata, elegans, eugracillis, ficusphila, kikkawai, rhopaloa, and takahashii.

Please cite the following publication when using the D. biarmipes genome and annotations:
Chen, Z. X., Sturgill, D., Qu, J., et al. Comparative validation of the D. melanogaster modENCODE transcriptome annotation. Genome research, 2014, 24(7), 1209-1223. doi: 10.1101/gr.159384.113


Organism Image
Feature Summary
The following features are currently present for this organism
Feature TypeCount
CDS61,314
mRNA15,836
Gene15,836
Contig N50
436543
Scaffold N50
3129048
Number Of Genes
15836
Image Credit
<a href="http://obbard.bio.ed.ac.uk/photos.html">Obbardlab.</a> <a href="http://obbard.bio.ed.ac.uk/photo_gallery/Drosophila_biarmipes.html">View Source.</a> <a href="http://obbard.bio.ed.ac.uk/photos.html">View Copyright</a>

Assembly Information

Analysis Name Whole genome assembly of Drosophila biarmipes provided by the Baylor College of Medicine
Software Baylor College of Medicine genome assembly pipeline (NA)
Source OregonR_resequencing
Date performed 2013-07-30
Materials & Methods

From http://www.ncbi.nlm.nih.gov/nuccore/AFFD00000000.2/:

This is an upgrade of the Dbia_1.0 assembly using illumina reads to fix indels and other improvements using BWA, samtools etc. Not a traditional assembler.

Assembly Method:

Celera Assembler v. 6.1; BWA v. 0.6.0; Samtools v. 0.1.14; GATK v. 1.1-9; Indel_call_and_upgrade.pl v. 1.0

Assembly Name: Dbia_2.0

Genome Coverage: 186.9x

Sequencing Technology: llumina; 454

Statistics

Assembly Metrics
Contig N50 436543
Scaffold N50 3129048
GC Content 39.35