lake_whitefish_brain_transcriptome_raw

lake_whitefish_brain_transcriptome_ra

lake_whitefish_brain_transcriptome_normalized

lake_whitefish_brain_transcriptome_normalize

De novo contigs from RNA-Seq of the whitefish liver transcriptome

Excel spreadsheet with de novo contigs from RNA-Seq of the whitefish liver transcriptome. Contig consensus sequences and gene expression values (RPKM) for dwarf and normal whitefish are presented

MHC assembly (ace) file

De novo assembly of pyrosequencing data (454 Genome Sequencer FLX System, with long-read GS FLX Titanium chemistry) for 2 pooled BAC clones targeted for MHC classII beta (MHC). GS De novo Assembler software (Roche, Basel, Switzerland) was used with the following parameters: large or complex genome option, heterozygosity option, trimming database of the pCC1BAC HindIII vector, screening database of the E. coli str. K12 substr. DH10B genome (GenBank [accession number CP000948]), minimum overlap length 200 bp, minimum overlap identity 98% and minimum contig length 500 bp. Raw data available at Sequence Read Archive at NCBI: SRP00348

CARB assembly (ace) file

De novo assembly of pyrosequencing data (454 Genome Sequencer FLX System, with long-read GS FLX Titanium chemistry) for 2 pooled BAC clones targeted for carboxylesterase (CARB). GS De novo Assembler software (Roche, Basel, Switzerland) was used with the following parameters: large or complex genome option, trimming database of the pCC1BAC HindIII vector, screening database of the E. coli str. K12 substr. DH10B genome (GenBank [accession number CP000948]), minimum overlap length 200 bp, minimum overlap identity 98% and minimum contig length 500 bp. Raw data available at Sequence Read Archive at NCBI: SRP00348

MDH assembly (ace) file

De novo assembly of pyrosequencing data (454 Genome Sequencer FLX System, with long-read GS FLX Titanium chemistry) for 2 pooled BAC clones targeted for cytoplasmic malate dehydrogenase (MDH). GS De novo Assembler software (Roche, Basel, Switzerland) was used with the following parameters: large or complex genome option, trimming database of the pCC1BAC HindIII vector, screening database of the E. coli str. K12 substr. DH10B genome (GenBank [accession number CP000948]), minimum overlap length 200 bp, minimum overlap identity 98% and minimum contig length 500 bp. Raw data available at Sequence Read Archive at NCBI: SRP00348

HSC assembly (ace) file

De novo assembly of pyrosequencing data (454 Genome Sequencer FLX System, with long-read GS FLX Titanium chemistry) for 2 pooled BAC clones targeted for heat shock cognate 70 kDa protein (HSC). GS De novo Assembler software (Roche, Basel, Switzerland) was used with the following parameters: large or complex genome option, trimming database of the pCC1BAC HindIII vector, screening database of the E. coli str. K12 substr. DH10B genome (GenBank [accession number CP000948]), minimum overlap length 200 bp, minimum overlap identity 98% and minimum contig length 500 bp. Raw data available at Sequence Read Archive at NCBI: SRP00348