E-MTAB-5349 - Antibody repertoire RNA-seq throughout key stages of mouse B-cell development (pre-B-cells, naive B cells, plasma cells)

Status
Submitted on 10 September 2015, released on 28 March 2017, last updated on 18 May 2017
Organism
Mus musculus
Samples (68)
Protocols (5)
Description
We sought to investigate the extent of genetic and antigen-driven predetermination of antibody repertoires throughout B-cell development (pre-B cells, naive B cells, plasma cells). To this end, we used (i) an inbred model organism (mouse, C57BL/6J) to quantify genetic predetermination and (ii) cohort-stratification (4 cohorts: 1 untreated, 3 antigen-immunized) to quantify antigen-driven predetermination. To ensure generalizability of our research, we additionally sequenced naive B cells from Balb/c and pet shop mice.
Experiment type
RNA-seq of coding RNA 
Contact
Citations
Systems Analysis Reveals High Genetic and Antigen-Driven Predetermination of Antibody Repertoires throughout B Cell Development. Victor Greiff, Ulrike Menzel, Enkelejda Miho, Cédric Weber, René Riedel, Skylar Cook, Atijeh Valai, Telma Lopes, Andreas Radbruch, Thomas H. Winkler, Sai T. Reddy. Cell Reports 9(7):1467–1478 (2017)
Comprehensive Evaluation and Optimization of Amplicon Library Preparation Methods for High-Throughput Antibody Sequencing. Ulrike Menzel, Victor Greiff, Tarik A. Khan, Ulrike Haessler, Ina Hellmann, Simon Friedensohn, Skylar C. Cook, Mark Pogson, Sai T. Reddy. PLoS One 19(5):e96727 (2014), PMID:24809667
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-MTAB-5349.idf.txt
Sample and data relationshipE-MTAB-5349.sdrf.txt
Links