IlMetItal3
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB60674 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Metalampra italica (Italian tubic) genome assembly, ilMetItal3, alternate haplotype
| PRJEB60673 | ENA
Project description:Metalampra italica (Italian tubic), genomic and transcriptomic data
| PRJEB60312 | ENA
Project description:Esperia sulphurella (sulphur tubic) genome assembly, ilEspSulp1
| PRJEB56788 | ENA
Project description:Diurnea fagella (March tubic) genome assembly, ilDiuFage2
| PRJEB76074 | ENA
Project description:We have developed a method based on 454 sequencing of 3â?? cDNA fragments from a normalized library constructed from pooled RNAs to generate, through de novo reads assembly, a large catalog of unique transcripts in organisms for which a comprehensive collection of transcripts or the complete genome sequence, is not available. This â??virtual transcriptomeâ?? provides extensive coverage depth, and can be used for the set up of a comprehensive microarray based expression analysis. We evaluated the potential of this approach by monitoring gene expression during berry maturation in Vitis vinifera. The microarray designed on the berriesâ?? transcriptome derived from half of a 454 run detected the expression of 19,609 genes, and proven to be more informative than one of the most comprehensive grape microarrays available to date, the GrapeArray 1.2 developed by the Italian-French Public Consortium for Grapevine Genome Characterization, which could detect the expression of 15,556 genes. Microarray oligo probes were designed based on 454 sequencing of 3'-ends of transcripts of a sample constituted by pooling RNAs from grape berries at 6 time points from veraison to whitering. The array was used to analyze the same pool and results were compared to GrapeArray 1.2 developed by the Italian-French Public Consortium for Grapevine Genome Characterization.
2010-06-25 | E-GEOD-14276 | biostudies-arrayexpress
Project description:Transcriptome sequencing of Foxtail millet Setaria italica (Zhang-gu) for different tissues.
2012-03-31 | GSE36391 | GEO
Project description:We carried out a cross species cattle-sheep array comparative genome hybridization (aCGH) experiment in order to identify copy number variations (CNVs) in the sheep genome analysing animals of Italian dairy breeds (Sarda, Bagnolese, Laticauda, Massese and Valle del Belice) using a tiling oligonucleotide array with ~385,000 probes designed on the bovine genome. We identified 135 CNV regions (CNVRs) covering about 10.5 Mb of the virtual sheep genome referred to the bovine genome (0.398%) with a mean and median equal to 77.6 kb and 55.9 kb, respectively. A comparative analysis between the identified sheep CNVRs and those reported in the cattle and goat genomes indicated that overlaps between sheep and goat and sheep and cattle CNVRs are highly significant (P<0.0001) suggesting that several chromosome regions might contain recurrent interspecies CNVRs. Many sheep CNVs affect genes with important biological functions. Further studies are needed to evaluate the functional relevance of these CNVs. In this study we made use of the high conservation and homology between the cattle and sheep genomes determined by their phylogenetic closeness to identify CNVs in sheep applying the same approach we carried out to identify CNVs in the goat genome. We used a custom tiling array including ~385,000 oligonucleotide probes designed on the Btau_4.0 version of the Bos taurus genome assembly and analysed genomic DNA samples of 11 sheep belonging to 6 different Italian dairy sheep breeds (2 Sarda, 2 Bagnolese, 2 Comisana, 2 Massese, 2 Laticauda and 1 Valle del Belice) compared to the reference DNA of another Sarda sheep.
2010-11-16 | E-GEOD-25122 | biostudies-arrayexpress