Crassostrea gigas hemocytes scRNA-seq sequences
scRNA-seq reads from a Pacific oyster (Crassostrea gigas) hemocyte preparation. Hemocytes were isolated from a unique immunologically naive animal (Ifremer Standardized Animal, 18 months) and single-cell drop-seq technology was applied to 3,000 individual hemocytes.
Simple
- Title
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Crassostrea gigas hemocytes scRNA-seq sequences
- Date (Publication)
- 2024-10-31
- Date (Creation)
- 2020-02-13
- Citation identifier
- FR-330-715-368-00032-IFR_BIOINFO_CRASSOSTREA_GIGAS_20240209_IHPE_EV_HEMOFIGHT
- Abstract
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scRNA-seq reads from a Pacific oyster (Crassostrea gigas) hemocyte preparation. Hemocytes were isolated from a unique immunologically naive animal (Ifremer Standardized Animal, 18 months) and single-cell drop-seq technology was applied to 3,000 individual hemocytes.
- Credit
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IHPE UMR5244
- Point of contact
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Organisation name Individual name Electronic mail address Role IFREMER
Publisher University of Montpellier (IHPE UMR5244)
Vignal Emmanuel
Author University of Perpignan (IHPE UMR5244)
De la Forest Divonne Sébastien
Author University of Montpellier (IHPE UMR5244)
Charrière Guillaume
Author CNRS (IHPE UMR5244)
Destoumieux-Garzon Delphine
Author University of Perpignan (IHPE UMR5244)
Gourbal Benjamin
Author IFREMER (Institut Louis-Malardé, Univ Polynésie française)
Mitta Guillaume
Author IFREMER (IHPE UMR5244)
Courtay Gaelle
Author IFREMER (IHPE UMR5244)
Romatif Océane
Author IFREMER (IHPE UMR5244)
Pouzadoux Juliette
Author
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GEMET - INSPIRE themes, version 1.0
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Habitats and biotopes
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Thèmes Sextant
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/Biological Environment/Bioinformatics
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ODATIS aggregation parameters and Essential Variable names
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Bioinformatics
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- Use limitation
- CC-BY (Creative Commons - Attribution)
- Access constraints
- Restricted
- Use constraints
- Copyright
- Other legal constraints
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Accès restreint jusqu'à la publication de l'article
- Language
- English
- Character set
- UTF8
- Topic category
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- Environment
- Reference system identifier
- EPSG / WGS 84 (EPSG:4326) / 8.6
- Distribution format
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Name Version
- OnLine resource
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Protocol Linkage Name NETWORK:LINK
/home/ref-bioinfo-public/ifremer/ihpe/hemofight WWW:DOWNLOAD-1.0-link--download
https://data-dataref.ifremer.fr/bioinfo/ifremer/ihpe/hemofight Lien de téléchargement
WWW:LINK-1.0-http--link
https://www.ebi.ac.uk/ena/browser/view/PRJEB74031 Publication ENA
- OnLine resource
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Protocol Linkage Name WWW:LINK-1.0-http--metadata-URL
https://doi.org/10.12770/ee5fd99f-d88f-4c6c-9b77-bfe1c88ca86f Digital Object Identifier (DOI)
- Hierarchy level
- Dataset
- Statement
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The 10X Genomics protocol was followed to prepare gel in emulsion beads containing single cells, hydrogel beads, and reverse transcription reagents, perform barcoded cDNA synthesis, and generate sequencing libraries from pooled cDNAs. The concentration of single cell suspension was approximately 1000 cells / μL, and cells were loaded according to the 10X protocol to capture approximately 3000 cells per reaction. Library construction was performed using 10X reagents according to the manufacturer. Libraries (paired end reads 75 bp) were sequenced on an Illumina NovaSeq using two sequencing lane per sample.
Metadata
- File identifier
- ee5fd99f-d88f-4c6c-9b77-bfe1c88ca86f
- Metadata language
- English
- Character set
- UTF8
- Hierarchy level
- Dataset
- Date stamp
- 2024-07-22T15:22:06.703Z
- Metadata standard name
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ISO 19115:2003/19139 - SEXTANT
- Metadata standard version
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1.0
- Metadata author
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Organisation name Individual name Electronic mail address Role University of Montpellier (IHPE UMR5244)
Vignal Emmanuel
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