Journal: Genome Biology

Article Title: De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data

doi: 10.1186/gb-2009-10-9-r94

Figure Lengend Snippet: Comparison of Forge Sanger/454/Illumina assemblies against GC gb1. Alignments of scaffolds greater that 100 kb - (a) 'Sanger/454/IlluminaDA' (approximately 24 Mb on 80 scaffolds) and (b) 'Sanger/454/IlluminaPA' (approximately 28.7 Mb on 46 scaffolds) - on the y-axis against the manually finished genome sequence ( GC gb1) on the x-axis.

Article Snippet: We used the manually finished GC gb1 assembly to assess the performance of the Illumina and 454 sequencing platforms (Figure ).

Techniques: Comparison, Sequencing

Journal: Genome Biology

Article Title: De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data

doi: 10.1186/gb-2009-10-9-r94

Figure Lengend Snippet: Assessing the discovery of unique read information between the Illumina and 454 platforms. (a) Raw reads were processed into overlapping 28-bp k -mers, and any k -mer that varied from all other k -mers by at least 1 bp was accepted as new sequence information. The analysis was done separately for unique k -mers and those that occurred at least twice (2× k -mers). (b) MAQ was then used to map these k -mers to the reference genome sequence and the rate at which new coverage was generated was plotted against the number of k -mers examined.

Article Snippet: We used the manually finished GC gb1 assembly to assess the performance of the Illumina and 454 sequencing platforms (Figure ).

Techniques: Sequencing, Generated

Journal: BMC Genomics

Article Title: A pilot study for channel catfish whole genome sequencing and de novo assembly

doi: 10.1186/1471-2164-12-629

Figure Lengend Snippet: Sequencing statistics using 454 and Illumina sequencing platforms.

Article Snippet: A hybrid sequencing strategy using low sequencing depth of 454 and high sequencing depth of Illumina provided the good quality assembly with high N50 value and relatively low cost.

Techniques: Sequencing, Illumina Sequencing

Journal: BMC Genomics

Article Title: A pilot study for channel catfish whole genome sequencing and de novo assembly

doi: 10.1186/1471-2164-12-629

Figure Lengend Snippet: Comparison of N50 values assembled using Newbler with various sequencing depth of 454 sequence reads . Red circle indicates the sequence depth at which additional sequencing started to loss power for effective sequence assembly.

Article Snippet: A hybrid sequencing strategy using low sequencing depth of 454 and high sequencing depth of Illumina provided the good quality assembly with high N50 value and relatively low cost.

Techniques: Comparison, Sequencing

Journal: BMC Genomics

Article Title: A pilot study for channel catfish whole genome sequencing and de novo assembly

doi: 10.1186/1471-2164-12-629

Figure Lengend Snippet: Comparison of N50 values assembled using ABySS with various sequencing depth of Illumina sequence reads . Red circle indicates the sequence depth at which additional sequencing started to loss power for effective sequence assembly.

Article Snippet: A hybrid sequencing strategy using low sequencing depth of 454 and high sequencing depth of Illumina provided the good quality assembly with high N50 value and relatively low cost.

Techniques: Comparison, Sequencing

Journal: BMC Genomics

Article Title: A pilot study for channel catfish whole genome sequencing and de novo assembly

doi: 10.1186/1471-2164-12-629

Figure Lengend Snippet: Comparison of N50 values assembled with various sequencing depth combination of 454 and Illumina reads . The assemblies were achieved by using the two step approach (Newbler for 454 data, Velvet for Illumina data for initial assembly followed by assembly with MIRA, for details, see materials and methods), with various sequencing depth combination of 454 sequence reads and Illumina sequence reads. Red circle indicates the sequence depths at which additional sequencing started to loss power for effective sequence assembly.

Article Snippet: A hybrid sequencing strategy using low sequencing depth of 454 and high sequencing depth of Illumina provided the good quality assembly with high N50 value and relatively low cost.

Techniques: Comparison, Sequencing