NBAF-Edinburgh

Sanger and next-generation sequencing for UK researchers at the GenePool hosted by the NERC Biomolecular Analysis Facility - Edinburgh

GenePool

The GenePool offers sequencing service on three platforms:

Sanger (dideoxy) sequencing on ABI 3730 instruments

Illumina SOLEXA short read sequencing on the Illumina GAII platform

we also offer Roche 454 pyrosequencing on the Roche 454 Titanium platform, but NERC NBAF users will usualy use the Liverpool facility for this mode of service.

and offers Bioinformatics Support to NERC researchers

see http://genepool.bio.ed.ac.uk for more details

ABI 3730 (Sanger) [see infosheet]

• DNA sequencing from PCR products, plasmids and other templates up to 800 bases.

• We offer services from sequence analysis only (we run your completed reactions) to full shotgun analysis of large insert clones (including construction of shotgun libraries and assembly).

• Samples may be submitted individually or in 96 well plates.

• We also perform analysis of fluorescently labeled genotyping experiments (microsatellites or AFLP).

Illumina GAII (SOLEXA) [see infosheet]

• The instrument can generate up to 8 million reads per lane, and there are 8 lanes per run.

• Sequences can be from 18 bases to 50 bases (and soon longer)

• Sequences can be generated from both ends of inserts (paired-end sequencing, 50 bases from each end).

• The instrument can generate over 5 Gbase per week.

• Applications include

de novo genome sequencing

genome resequencing and targeted genome resequencing

RNA-Seq (transcriptome sequencing)

deep SAGE (digital transcriptomics)

smallRNA sequencing (microRNA sequencing)

ChIP-Seq (chromatin immunoprecipitation sequencing)

RNA-IP_Seq (RNA immunoprecipitation sequencing)

and variants thereof.

Roche 454 Titanium (454) [see infosheet]

• The instrument can generate up to 800000 reads per run

• Sequence lengths are up to 450 bases, and can be generated from both ends of inserts (paired-end sequencing, 200 bases from each end).

• Each run can be split into up to 16 lanes.

• Each run can generate up to 400 Mbase of sequence.