Single-Cell RNA Sequencing of Biomphalaria glabrata

Single cell processing procedure is defined by the MGX platform (Montpellier GenomiX). Single cell suspension was obtained by a Chromium Single-Cell Controller (10X Genomics). Library preparation was performed with Single Cell 3’ Reagent kits V3.1 (10X Genomics) using 10x Next GEM Technology barcode and validated by DNA quantification with Fragment Analyzer (kit High Sensitivity NGS) and qPCR (ROCHE LightCycler 480). Libraries were sequenced with an illumina NovaSeq 6000 (Illumina) and SBS (Sequence By Synthesis) techniques using NovaSeq Reagent kits (100 cycles). Output results and matrix generation were processed with 10X Genomics Cell ranger v3.1.0 software (http://10xgenomics.com).
All available mitochondrial gene sequences were recovered from the NCBI database (34 (link), 35 (link)) and gene names corresponding to these sequences (Supplementary Table 2) were retrieved using blastn (36 (link)) on the Biomphalaria glabrata genome annotation version 1.6 available on Vector Base website (https://vectorbase.org/vectorbase/app/record/dataset/TMPTX_bglaBB02, 15/10/2021) (37 (link)).

Free full text: Click here

Pichon R., Pinaud S., Vignal E., Chaparro C., Pratlong M., Portet A., Duval D., Galinier R, & Gourbal B. (2022). Single cell RNA sequencing reveals hemocyte heterogeneity in Biomphalaria glabrata: Plasticity over diversity. Frontiers in Immunology, 13, 956871.

Publication 2022

Chromium Single-Cell Controller Single Cell 3’ Reagent kits V3.1 NovaSeq 6000

Biomphalaria glabrata Cell Chromium Gene Genome Library Mitochondrial gene Sensitivity Synthesis Vector

Corresponding Organization :

Other organizations : Interaction Hôtes Agents Pathogènes, Cancer Research UK, Institut de Génomique Fonctionnelle, Medical Research Council, Stem Cell Institute, Wellcome Trust

Top 5 similar protocols

Variable analysis

independent variables

Single cell suspension obtained by a Chromium Single-Cell Controller (10X Genomics)
Library preparation performed with Single Cell 3' Reagent kits V3.1 (10X Genomics) using 10x Next GEM Technology barcode

dependent variables

Libraries sequenced with an illumina NovaSeq 6000 (Illumina) and SBS (Sequence By Synthesis) techniques using NovaSeq Reagent kits (100 cycles)
Output results and matrix generation processed with 10X Genomics Cell ranger v3.1.0 software

control variables

DNA quantification with Fragment Analyzer (kit High Sensitivity NGS) and qPCR (ROCHE LightCycler 480) to validate library preparation

positive controls

All available mitochondrial gene sequences recovered from the NCBI database

negative controls

No negative controls were explicitly mentioned.

Annotations

Based on most similar protocols

Etiam vel ipsum. Morbi facilisis vestibulum nisl. Praesent cursus laoreet felis. Integer adipiscing pretium orci. Nulla facilisi. Quisque posuere bibendum purus. Nulla quam mauris, cursus eget, convallis ac, molestie non, enim. Aliquam congue. Quisque sagittis nonummy sapien. Proin molestie sem vitae urna. Maecenas lorem.

As authors may omit details in methods from publication, our AI will look for missing critical information across the 5 most similar protocols.

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!