Tools for adaptive immune receptor repertoire sequencing

被引：2

作者：

Lees, William D. ^{[1
]}

机构：

[1] Birkbeck Coll, Inst Struct & Mol Biol, Malet St, London WC1E 7HX, England

来源：

CURRENT OPINION IN SYSTEMS BIOLOGY | 2020年 / 24卷

关键词：

Antibody repertoire sequencing; Immune receptor genes; AIRR-seq tools; Rep-seq tools; CLONALITY INFERENCE; T-CELL; IMMUNOGLOBULIN;

D O I：

10.1016/j.coisb.2020.10.003

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Tools for adaptive immune receptor repertoire (AIRR) sequencing continue to evolve rapidly, and, although some established frameworks are emerging, there are no complete solutions: it is necessary to select tools and build a customised pipeline. Emerging trends of interest include standards for data interchange, tools for single-cell sequencing, genotyping, and tools that make use of probabilistic and structural inferences to identify receptor sequences of interest.

引用

页码：86 / 92

页数：7

共 50 条

[21] Reference-based comparison of adaptive immune receptor repertoires
Weber, Cedric R.
Rubio, Teresa
Wang, Longlong
Zhang, Wei
Robert, Philippe A.
Akbar, Rahmad
Snapkov, Igor
Wu, Jinghua
Kuijjer, Marieke L.
Tarazona, Sonia
Conesa, Ana
Sandve, Geir K.
Liu, Xiao
Reddy, Sai T.
Greiff, Victor
[J]. CELL REPORTS METHODS, 2022, 2 (08):
[22] Antibody upstream sequence diversity and its biological implications revealed by repertoire sequencing
Zhu, Yan
Yang, Xiujia
Ma, Cuiyu
Tang, Haipei
Wang, Qilong
Guan, Junjie
Xie, Wenxi
Chen, Sen
Chen, Yuan
Wang, Minhui
Lan, Chunhong
Sun, Deqiang
Wei, Lai
Sun, Caijun
Yu, Xueqing
Zhang, Zhenhai
[J]. JOURNAL OF GENETICS AND GENOMICS, 2021, 48 (10) : 936 - 945
[23] Characterizing pre-transplant and post-transplant kidney rejection risk by B cell immune repertoire sequencing
Pineda, Silvia
Sigdel, Tara K.
Liberto, Juliane M.
Vincenti, Flavio
Sirota, Marina
Sarwal, Minnie M.
[J]. NATURE COMMUNICATIONS, 2019, 10 (1)
[24] Augmenting adaptive immunity: progress and challenges in the quantitative engineering and analysis of adaptive immune receptor repertoires
Brown, Alex J.
Snapkov, Igor
Akbar, Rahmad
Pavlovic, Milena
Miho, Enkelejda
Sandve, Geir K.
Greiff, Victor
[J]. MOLECULAR SYSTEMS DESIGN & ENGINEERING, 2019, 4 (04) : 701 - 736
[25] Rep-Seq: uncovering the immunological repertoire through next-generation sequencing
Benichou, Jennifer
Ben-Hamo, Rotem
Louzoun, Yoram
Efroni, Sol
[J]. IMMUNOLOGY, 2012, 135 (03) : 183 - 191
[26] Salmonid IGH genes: From genomics to repertoire sequencing
Magadan, Susana
Krasnov, Aleksei
Hadi-Saljoki, Saida
Castro, Rosario
Salinas, Irene
Sunyer, Oriol
Hansen, John
Koop, Ben
Lefranc, Marie-Paule
Boudinot, Pierre
[J]. FISH & SHELLFISH IMMUNOLOGY, 2019, 91 : 434 - 435
[27] Single-cell immune repertoire analysis
Irac, Sergio E.
Soon, Megan Sioe Fei
Borcherding, Nicholas
Tuong, Zewen Kelvin
[J]. NATURE METHODS, 2024, 21 (05) : 777 - 792
[28] Impact of a 3-Months Vegetarian Diet on the Gut Microbiota and Immune Repertoire
Zhang, Chenchen
Bjorkman, Andrea
Cai, Kaiye
Liu, Guilin
Wang, Chunlin
Li, Yin
Xia, Huihua
Sun, Lijun
Kristiansen, Karsten
Wang, Jun
Han, Jian
Hammarstrom, Lennart
Pan-Hammarstrom, Qiang
[J]. FRONTIERS IN IMMUNOLOGY, 2018, 9
[29] Continuous Dual Resetting of the Immune Repertoire as a Basic Principle of the Immune System Function
Balzar, Silvana
[J]. JOURNAL OF IMMUNOLOGY RESEARCH, 2017, 2017
[30] Modern Hopfield Networks and Attention for Immune Repertoire Classification
Widrich, Michael
Schafl, Bernhard
Pavlovic, Milena
Ramsauer, Hubert
Gruber, Lukas
Holzleitner, Markus
Brandstetter, Johannes
Sandve, Geir Kjetil
Greiff, Victor
Hochreiter, Sepp
Klambauer, Gunter
[J]. ADVANCES IN NEURAL INFORMATION PROCESSING SYSTEMS 33, NEURIPS 2020, 2020, 33

← 1 2 3 4 5 →