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.

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Date (Publication)
2024-10-31
Date (Creation)
2020-02-13
Identifier
FR-330-715-368-00032-IFR_BIOINFO_CRASSOSTREA_GIGAS_20240209_IHPE_EV_HEMOFIGHT
Credit
IHPE UMR5244
Publisher
  IFREMER
IFREMER Centre de Bretagne ZI Pointe du diable CS 10070 , PLOUZANE , 29280 , France
+33 (0)2 98.22.49.16
+33 (0)2 98.22.46.44
http://data.ifremer.fr/SISMER
Author
  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
Centre Océanologique du Pacifique - Vairao - BP 49 - 98179 Taravao - Tahiti - Polynésie Française , Tahiti , France
Author
  IFREMER (IHPE UMR5244) - Courtay Gaelle
Université de Montpellier - Campus Triolet - 2 Place E. Bataillon - CC080 (IHPE) - 34095 Montpellier Cedex 5 , Montpellier , France
04 67 14 47 10
Author
  IFREMER (IHPE UMR5244) - Romatif Océane
Author
  IFREMER (IHPE UMR5244) - Pouzadoux Juliette
GEMET - INSPIRE themes, version 1.0
  • Habitats and biotopes
Thèmes Sextant
  • /Biological Environment/Bioinformatics
ODATIS aggregation parameters and Essential Variable names
  • Bioinformatics
Use limitation
CC-BY (Creative Commons - Attribution)
Access constraints
Restricted
Use constraints
Copyright
Other constraints
Accès restreint jusqu'à la publication de l'article
Metadata language
English
Character set
utf8 UTF8
Topic category
  • Environment
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Reference system identifier
EPSG / WGS 84 (EPSG:4326) / 8.6
Distribution format
  • ( )

OnLine resource
/home/ref-bioinfo-public/ifremer/ihpe/hemofight ( NETWORK:LINK )
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Publication ENA ( WWW:LINK )
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Digital Object Identifier (DOI) ( DOI )
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Dataset
Statement
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.
File identifier
ee5fd99f-d88f-4c6c-9b77-bfe1c88ca86f XML
Metadata language
English
Character set
UTF8
Hierarchy level
Dataset
Date stamp
2025-05-16T09:28:56.470828Z
Metadata standard name
ISO 19115-3 - SEXTANT
Metadata standard version
1.0
Point of contact
  University of Montpellier (IHPE UMR5244) - Vignal Emmanuel
 
 

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Keywords

GEMET - INSPIRE themes, version 1.0
Habitats and biotopes
ODATIS aggregation parameters and Essential Variable names
Bioinformatics
Thèmes Sextant
/Biological Environment/Bioinformatics

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