(Q34517426)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

title

Quantitative assessment of the robustness of next-generation sequencing of antibody variable gene repertoires from immunized mice (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

0 references

1 reference

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

Ulrike Menzel

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

Mark Pogson

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

Sai T Reddy

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

author name string

Ulrike Haessler

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

Skylar C Cook

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

Simon Friedensohn

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

Tarik A Khan

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

Ina Hellmann

8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

publication date

16 October 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

volume

15

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

page(s)

40

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

21 February 2020

copyright license

start time

16 October 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

ggplot2

object named as

ggplot2

2 references

10 June 2022

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=4233042

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/s12865-014-0040-5

0 references

cites work

How a well-adapted immune system is organized

1 reference

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Capturing needles in haystacks: a comparison of B-cell receptor sequencing methods.

7 July 2018

1 reference

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Impact of next-generation sequencing error on analysis of barcoded plasmid libraries of known complexity and sequence.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Immunoglobulin gene repertoire diversification and selection in the stomach - from gastritis to gastric lymphomas

7 July 2018

1 reference

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Comprehensive evaluation and optimization of amplicon library preparation methods for high-throughput antibody sequencing

7 July 2018

1 reference

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Towards error-free profiling of immune repertoires.

7 July 2018

1 reference

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The promise and challenge of high-throughput sequencing of the antibody repertoire.

7 July 2018

1 reference

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Sequencing depth and coverage: key considerations in genomic analyses

7 July 2018

1 reference

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The past, present, and future of immune repertoire biology - the rise of next-generation repertoire analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

The role of replicates for error mitigation in next-generation sequencing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

A novel approach to tracking antigen-experienced CD4 T cells into functional compartments via tandem deep and shallow TCR clonotyping

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

The Structural Basis of Antibody-Antigen Recognition

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Calculating sample size estimates for RNA sequencing data.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Genetic measurement of memory B-cell recall using antibody repertoire sequencing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Correlation of gene expression and genome mutation in single B-cells

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Convergent antibody signatures in human dengue

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Network properties derived from deep sequencing of human B-cell receptor repertoires delineate B-cell populations

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Co-evolution of a broadly neutralizing HIV-1 antibody and founder virus

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Mining the antibodyome for HIV-1-neutralizing antibodies with next-generation sequencing and phylogenetic pairing of heavy/light chains

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Lineage structure of the human antibody repertoire in response to influenza vaccination

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Molecular deconvolution of the monoclonal antibodies that comprise the polyclonal serum response

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

High-throughput sequencing of the paired human immunoglobulin heavy and light chain repertoire.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

The establishment of the plasma cell survival niche in the bone marrow

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Methods for diversity and overlap analysis in T-cell receptor populations

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Antibody isolation from immunized animals: comparison of phage display and antibody discovery via V gene repertoire mining

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Models and methods for analysis of lymphocyte repertoire generation, development, selection and evolution

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Detection of ultra-rare mutations by next-generation sequencing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Performance comparison of benchtop high-throughput sequencing platforms

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Germinal center selection and the development of memory B and plasma cells

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Structural consensus among antibodies defines the antigen binding site

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

A minimal model of peptide binding predicts ensemble properties of serum antibodies.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

PANDAseq: paired-end assembler for illumina sequences

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Rep-Seq: uncovering the immunological repertoire through next-generation sequencing.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Detection and quantification of rare mutations with massively parallel sequencing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Systems analysis of adaptive immunity by utilization of high-throughput technologies

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

RNA-sequence analysis of human B-cells

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Determinism and stochasticity during maturation of the zebrafish antibody repertoire

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Monoclonal antibodies isolated without screening by analyzing the variable-gene repertoire of plasma cells

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Rational design of envelope identifies broadly neutralizing human monoclonal antibodies to HIV-1

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

High-throughput immunoglobulin repertoire analysis distinguishes between human IgM memory and switched memory B-cell populations

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Maximum entropy models for antibody diversity

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Measurement and clinical monitoring of human lymphocyte clonality by massively parallel VDJ pyrosequencing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

High-throughput sequencing of the zebrafish antibody repertoire

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

IMGT, the international ImMunoGeneTics information system.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Rapid cloning of high-affinity human monoclonal antibodies against influenza virus

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Diversity of planktonic foraminifera in deep-sea sediments

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Competence and competition: the challenge of becoming a long-lived plasma cell

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Adaptation of humoral memory

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Maintenance of serum antibody levels

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Plasma cell ontogeny defined by quantitative changes in blimp-1 expression

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Class switch recombination and hypermutation require activation-induced cytidine deaminase (AID), a potential RNA editing enzyme

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Functional diversity of natural IgM.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Humoral immunity due to long-lived plasma cells.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Lifetime of plasma cells in the bone marrow.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Reliable cloning of functional antibody variable domains from hybridomas and spleen cell repertoires employing a reengineered phage display system

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

How many specific B cells are needed to protect against a virus?

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

The bone marrow: the major source of serum immunoglobulins, but still a neglected site of antibody formation.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Somatic generation of antibody diversity

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Number and distribution of lymphocytes in man. A critical analysis.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Diversity in the CDR3 region of V(H) is sufficient for most antibody specificities

7 July 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

The indistinguishability of epitopes from protein surface is explained by the distinct binding preferences of each of the six antigen-binding loops.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

IgTree: creating Immunoglobulin variable region gene lineage trees.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

The role of antibody concentration and avidity in antiviral protection.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Methods for comparing the diversity of samples of the T cell receptor repertoire

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Estimation of T-cell repertoire diversity and clonal size distribution by Poisson abundance models

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Method for assessing the similarity between subsets of the T cell receptor repertoire.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Using synthetic templates to design an unbiased multiplex PCR assay.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Duration of humoral immunity to common viral and vaccine antigens

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Blood-borne human plasma cells in steady state are derived from mucosal immune responses

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Plasma cell homeostasis: the effects of chronic antigen stimulation and inflammation

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

MiTCR: software for T-cell receptor sequencing data analysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Practical innovations for high-throughput amplicon sequencing.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12865-014-0040-5

Multiple diagnostic techniques identify previously vaccinated individuals with protective immunity against monkeypox.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4233042

Proteomics-directed cloning of circulating antiviral human monoclonal antibodies

27 October 2018

1 reference

12 December 2020

A proteomics approach for the identification and cloning of monoclonal antibodies from serum

1 reference

12 December 2020

Systems immunology: Complexity captured

1 reference

12 December 2020

Immunoglobulin-containing cells in different lymphoid organs of the CBA mouse during its life-span

1 reference

12 December 2020

Using next-generation sequencing for discovery of high-frequency monoclonal antibodies in the variable gene repertoires from immunized mice

1 reference

12 December 2020

10.1186/S12865-014-0040-5

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

21 February 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json

21 February 2020

PubMed publication ID

25318652

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25318652%20AND%20SRC:MED&resulttype=core&format=json