Adaptive Immune Receptor Repertoire: Repertoire Schema
Names
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Adaptive Immune Receptor Repertoire: Repertoire Schema
metasource: Fairsharing.org
version: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
AIRR Repertoire Schema
metasource: Fairsharing.org
version: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Names
More detailed information about this field from each metasource.
Adaptive Immune Receptor Repertoire: Repertoire Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
AIRR Repertoire Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Other names: AIRR Repertoire Schema
Names
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Adaptive Immune Receptor Repertoire: Repertoire Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
AIRR Repertoire Schema
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
The Adaptive Immune Receptor Repertoire (AIRR) Repertoire Schema, part of the AIRR Data Model, describes an abstract organizational unit of analysis that is defined by the researcher and consists of study metadata, subject metadata, sample metadata, cell processing metadata, nucleic acid processing metadata, sequencing run metadata, a set of raw sequence files, data processing metadata, and a set of Rearrangements. A Repertoire gathers all of this information together into a composite object, which can be easily accessed by computer programs for data entry, analysis and visualization. The AIRR Repertoire Schema has been implemented in YAML/JSON, which provides a mechanism to share AIRR Repertoire metadata between research projects.
Description
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The Adaptive Immune Receptor Repertoire (AIRR) Repertoire Schema, part of the AIRR Data Model, describes an abstract organizational unit of analysis that is defined by the researcher and consists of study metadata, subject metadata, sample metadata, cell processing metadata, nucleic acid processing metadata, sequencing run metadata, a set of raw sequence files, data processing metadata, and a set of Rearrangements. A Repertoire gathers all of this information together into a composite object, which can be easily accessed by computer programs for data entry, analysis and visualization. The AIRR Repertoire Schema has been implemented in YAML/JSON, which provides a mechanism to share AIRR Repertoire metadata between research projects.
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Webpage:
https://docs.airr-community.org/en/stable/datarep/metadata.htmlWebpage
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https://docs.airr-community.org/en/stable/datarep/metadata.html
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Licence:
Name: Creative Commons Attribution 4.0 International (CC BY 4.0)Licence name
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Creative Commons Attribution 4.0 International (CC BY 4.0)
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Licence URL
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https://creativecommons.org/licenses/by/4.0/
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Publications:
Publications
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AIRR Community Standardized Representations for Annotated Immune Repertoires
PMID: 30323809
metasource: Fairsharing.org
version: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
http://dx.doi.org/10.3389/fdata.2020.00022
metasource: Fairsharing.org
version: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Publications
More detailed information about this field from each metasource.
AIRR Community Standardized Representations for Annotated Immune Repertoires
PMID: 30323809
metasource: Fairsharing.org
version: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
http://dx.doi.org/10.3389/fdata.2020.00022
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
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AIRR Community Standardized Representations for Annotated Immune Repertoires
PubMed citations: 21.
21 articles citing: AIRR Community Standardized Representations for Annotated Immune Repertoires
Machine Learning Approaches to TCR Repertoire Analysis. PMID:35911778
Data Sharing and Reuse: A Method by the AIRR Community. PMID:35622339
Bulk gDNA Sequencing of Antibody Heavy-Chain Gene Rearrangements for Detection and Analysis of B-Cell Clone Distribution: A Method by the AIRR Community. PMID:35622334
Stitchr: stitching coding TCR nucleotide sequences from V/J/CDR3 information. PMID:35325179
Dual UMIs and Dual Barcodes With Minimal PCR Amplification Removes Artifacts and Acquires Accurate Antibody Repertoire. PMID:35003093
T-Cell Receptor Repertoire Analysis with Computational Tools-An Immunologist's Perspective. PMID:34944090
High-throughput and single-cell T cell receptor sequencing technologies. PMID:34282327
Biological controls for standardization and interpretation of adaptive immune receptor repertoire profiling. PMID:34037521
Machine Learning Analysis of Naïve B-Cell Receptor Repertoires Stratifies Celiac Disease Patients and Controls. PMID:33790900
The Future of Blood Testing Is the Immunome. PMID:33790897
The ADC API: A Web API for the Programmatic Query of the AIRR Data Commons. PMID:33693395
The adaptive immune receptor repertoire community as a model for FAIR stewardship of big immunology data. PMID:33073065
Decombinator V4: an improved AIRR compliant-software package for T-cell receptor sequence annotation? PMID:32853330
Scirpy: a Scanpy extension for analyzing single-cell T-cell receptor-sequencing data. PMID:32614448
Somatic hypermutation analysis for improved identification of B cell clonal families from next-generation sequencing data. PMID:32574157
Biophysicochemical motifs in T cell receptor sequences as a potential biomarker for high-grade serous ovarian carcinoma. PMID:32134923
Genotyping and Copy Number Analysis of Immunoglobin Heavy Chain Variable Genes Using Long Reads. PMID:32109676
Exploiting B Cell Receptor Analyses to Inform on HIV-1 Vaccination Strategies. PMID:31906351
Benchmarking immunoinformatic tools for the analysis of antibody repertoire sequences. PMID:31873728
sumrep: A Summary Statistic Framework for Immune Receptor Repertoire Comparison and Model Validation. PMID:31736960
cAb-Rep: A Database of Curated Antibody Repertoires for Exploring Antibody Diversity and Predicting Antibody Prevalence. PMID:31649674 - http://dx.doi.org/10.3389/fdata.2020.00022
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antibody
metasource: Fairsharing.org
version: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
t cell receptor complex
metasource: Fairsharing.org
version: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
Tags
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antibody
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
t cell receptor complex
metasource: Fairsharing.orgversion: FAIRsharing.org: AIRR Repertoire Schema; Adaptive Immune Receptor Repertoire: Repertoire Schema; DOI: https://doi.org/10.25504/FAIRsharing.eZ0fzl; Last edited: Jan. 25, 2021, 4:29 p.m.; Last accessed: Jan 03 2022 7:12 p.m.
antibody t cell receptor complex
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