Gene Expression Nebulas
A data portal of transcriptomic profiles analyzed by a unified pipeline across multiple species

Gene Expression Nebulas

A data portal of transcriptome profiles across multiple species
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PRJNA611783

PRJNA611783: A single-cell RNA-seq atlas of the pathogenic stage of Schistosoma mansoni identifies a key regulator of blood feeding [scRNA-Seq]

Source: NCBI / GSE146736
Submission Date: Mar 10 2020
Release Date: Mar 11 2020
Update Date: Mar 11 2020

Summary: In order to better understand the biology of adult schistosomes, we performed single-cell RNAseq on adult male, adult sexually-mature female, and adult virgin female parasites.

Overall Design: Adult parasites were dissociated then live, single cells were sorted by FACS. Single-cell RNAseq libraries were generated from these cells, then these libraries were sequenced. Further data processing was carried out in Seurat as desribed in the associated manuscript.

GEN Datasets:
GEND000028
Strategy:
Species:
Healthy Condition:
Development Stage:
Protocol
Growth Protocol: -
Treatment Protocol: -
Extract Protocol: Parasites were dissociated and FACS sorted as described in the associated manuscript
Library Construction Protocol: single-cell RNAseq libraries were prepared using a 10x genomics Chromium Controller according to the manufacturer's protocol. RNA-Seq (8bp index, 28bp barcode, 58bp insert)
Sequencing
Molecule Type: poly(A)+ RNA
Library Source:
Library Layout: PAIRED
Library Strand: Forward
Platform: ILLUMINA
Instrument Model: Illumina NextSeq 500
Strand-Specific: Specific
Samples
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
Analysis:
Data Resource GEN Sample ID GEN Dataset ID Project ID BioProject ID Sample ID Sample Name BioSample ID Sample Accession Experiment Accession Release Date Submission Date Update Date Species Race Ethnicity Age Age Unit Gender Source Name Tissue Cell Type Cell Subtype Cell Line Disease Disease State Development Stage Mutation Phenotype Case Detail Control Detail Growth Protocol Treatment Protocol Extract Protocol Library Construction Protocol Molecule Type Library Layout Strand-Specific Library Strand Spike-In Strategy Platform Instrument Model Cell Number Reads Number Gbases AvgSpotLen1 AvgSpotLen2 Uniq Mapping Rate Multiple Mapping Rate Coverage Rate
Publications
A single-cell RNA-seq atlas of Schistosoma mansoni identifies a key regulator of blood feeding.
Science (New York, N.Y.) . 2020-09-01 [PMID: 32973030]