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Accession: PRJEB60075 ID: 937149

SeqOccIn samples barcoding and shotgun sequencing

The SeqOccIn Project aims to compare the potential of different front-end sequencing technologies (Illumina, Pacific Biosciences, Oxford Nanopore) and methodologies in three scientific areas: genome assembly and structural variant identification (4263 samples), methylation mark detection (224 samples), and metagenomics (436 samples). Long and short fragment sequencing data were generated for various agronomically important animal and plant species: including cattle, goat, sheep, pig, quail, and corn. In total, more than 4900 samples were sequenced and used in the following applications: i) genome assembly (Long reads, Hi-C and 10x linked reads), ii) punctual and structural variations analyses (including low pass sequencing), iii) methylation mark analyses from both native DNA (Oxford Nanopore) and converted DNA based approaches (EMseq, Bisulfite sequencing), iv) metabarcoding analyses (long read 16S and operon sequencing), and whole genome metagenomics analyses (PacBio HiFi).
AccessionPRJEB60075
TypeUmbrella project
SubmissionRegistration date: 21-Feb-2023
INRAE - GeT-PlaGe
Project Data:
Resource NameNumber
of Links
Sequence data
Nucleotide (total)43
WGS master13
Genomic DNA30
SRA Experiments3698
Other datasets
BioSample740
Assembly13
SRA Data Details
ParameterValue
Data volume, Gbases52,431
Data volume, Tbytes17.82
This project encompasses the following 12 sub-projects:
Project TypeNumber of Projects
Genome sequencing
Highest level of assembly :
Chromosomes
Contigs
Total

1
1
2
BioProject
accession
Assembly
level
NameTitle
PRJEB68295 ContigsINRAE Bovine long-read WGSWhole-genome sequencing of 154 bulls (INRAE - GeT-PlaGe)
PRJEB55064 ChromosomesWGS Bos TaurusWhole-genome sequencing of 2 bovins trio (INRAE - GeT-PlaGe)
Other10
BioProject
accession
NameTitle
PRJEB68296INRAE bovine Graph GenomesWhole-genome sequencing of cattle trios (INRAE - GeT-PlaGe)
PRJEB59364Long-read sequencing affected by interchromosomal rearrangements.Long-read sequencing of the genomes of normozoospermic artificial insemination bulls affected by interchromosomal rearrangements. (INRAE - GeT-PlaGe)
PRJEB60080Shotgun metagenomic data from SeqOccIn projectShotgun metagenomic data from mock communities and pig faeces samples (INRAE - GeT-PlaGe)
PRJEB60079Targeted metagenomic data from SeqOccIn projectTargeted metagenomic data from mock communities and pig faeces samples (INRAE - GeT-PlaGe)
PRJEB64023WGS Bos Taurus MalesWhole-genome sequencing of 567 bulls (INRAE - GeT-PlaGe)
List all 10 'Other' projects...

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