Project description:The transcriptome of a light sensitive tea cultivar ‘Huangjinya’ plants exposed to sunlight and shade were analyzed by high-throughput sequencing followed by de novo assembly.

2017-06-23 | GSE97659 | GEO

Triticum urartu strain:PI 428198 Genome sequencing and Transcriptome or Gene expression

Project description:For this project, we have sequenced, assembled and annotated a transcriptome of a diploid wheat Triticum urartu accession PI 428198. The sequencing libraries were prepared from shoot and root tissues harvested from 2-3 week old seedlings. All sequencing was carried out on the Illumina HiSeq platform using the 100 bp pair-end protocol (248.5 million reads). The assembly was constructed using a multiple k-mer approach with a de novo assembly algorithm implemented in CLC Genomics Workbench 5.5 and additional redundancy reduction with CD-HIT and blast2cap3 programs. Open reading frames and proteins were predicted using BLASTX searches and a findorf algorithm.

2013-06-11 | E-MTAB-5037 | biostudies-arrayexpress

10x Genomics Chromium WGS of Tursiops Aduncus

Project description:This data and additional PacBio Sequel data were collected from the same individual for a de-novo genome assembly

2022-01-01 | E-MTAB-7310 | biostudies-arrayexpress

PacBio Sequel WGS of Tursiops Aduncus

Project description:This data and additional 10x Genomics Chromium data were collected from the same individual for a de-novo genome assembly

2022-01-01 | E-MTAB-7308 | biostudies-arrayexpress

Macroptilium lathyroides cultivar:PI 276184 01 SD

Project description:Macroptilium lathyroides cultivar:PI 276184 01 SD Raw sequence reads

| PRJNA817241 | ENA

Zhang2020 - Draft metabolic reconstruction model of Atlantic cod liver generated from gadMorTrinity and iHepatocyte2322

Project description:This is an auto-generated model with COBRA Matlab toolbox. The gadMorTrinigy de novo Trinity transcript assembly and peptide sequences are available at https://doi.org/10.6084/m9.figshare.c.5168303.v2

2020-10-26 | MODEL2010090002 | BioModels

High concordance between SNPs identified by the porcine 60K BeadChip genotyping array (Illumina) and the assembly-versus-assembly method

Project description:Porcine 60K BeadChip genotyping arrays (Illumina) are increasingly being applied in pig genomics to validate SNPs identified by re-sequencing or assembly-versus-assembly method. Here we report that more than 98% SNPs identified from the porcine 60K BeadChip genotyping array (Illumina) were consistent with the SNPs identified from the assembly-based method. This result demonstrates that whole-genome de novo assembly is a reliable approach to deriving accurate maps of SNPs. To compare SNPs identified by genotyping arrays and de novo assembly method, we genotyped 10 pig breeds by porcine 60K BeadChip genotyping array (Illumina), including 1 berkshire pig, 1 hampshire pig, 1 landrace pig, 1 large white pig,1 piÃ©train pig, 1 bamei pig,1 jinhua pig, 1 meishan pig, 1 rongchang pig and 1 Tibetan wild boar.

2016-07-05 | E-GEOD-83910 | biostudies-arrayexpress

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