DSab-origin: a novel IGHD sensitive VDJ mapping method and its application on antibody response after influenza vaccination

Autor: Qingchen Zhang, Chen Zhou, Dingfeng Wu, Lu Zhang, Zuojing Yin, Zhiwei Cao, Kailin Tang, Yiyan Yang

Publikováno v: BMC Bioinformatics, Vol 20, Iss 1, Pp 1-9 (2019)
BMC Bioinformatics

Background Functional antibody genes are often assembled by VDJ recombination and then diversified by somatic hypermutation. Identifying the combination of sourcing germline genes is critical to understand the process of antibody maturation, which ma

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a34d0bdcfcb344e7ff2021db746aa37a
http://link.springer.com/article/10.1186/s12859-019-2715-7

TCRβ rearrangements without a D segment are common, abundant, and public

Autor: de Greef, Peter C., de Boer, Rob J., Sub Theoretical Biology, Theoretical Biology and Bioinformatics

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America
Proceedings of the National Academy of Sciences of the United States of America, 118(39), 1. National Academy of Sciences

Significance The human body detects foreign pathogens by T cells with specific receptors. These are not directly encoded in the genome but generated in a random process that combines small gene segments into functional subunits of the receptor. The �

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::260a32a38797e24b73c81e37b2f63aa3
https://doi.org/10.1073/pnas.2104367118

Orientation-specific RAG activity in chromosomal loop domains contributes to Tcrd V(D)J recombination during T cell development

Autor: Michael S. Krangel, Richard L. Frock, Jiazhi Hu, Frederick W. Alt, Zhou Du, Lijuan Zhao, Liang Chen

Publikováno v: The Journal of Experimental Medicine

Zhao and collaborators use linear amplification–mediated high-throughput genome-wide translocation sequencing to examine TCRδ VDJ recombination at an unprecedented resolution.
T cell antigen receptor δ (Tcrd) variable region exons are assemb

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::69e84a5d50d0930821dab1019bd15f0e
https://doi.org/10.1084/jem.20160670

Characterization of the Human Ig Heavy Chain Antigen Binding Complementarity Determining Region 3 Using a Newly Developed Software Algorithm, JOINSOLVER

Autor: Daniel E. Russ, Hong-Wei Sun, Peter E. Lipsky, M. Margarida Souto-Carneiro, Nancy S. Longo

Publikováno v: The Journal of Immunology. 172:6790-6802

We analyzed 77 nonproductive and 574 productive human VHDJH rearrangements with a newly developed program, JOINSOLVER. In the productive repertoire, the H chain complementarity determining region 3 (CDR3H) was significantly shorter (46.7 ± 0.5 nucle

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::30b08d0eab833328278dd304ac3f2078
https://doi.org/10.4049/jimmunol.172.11.6790

Two VH5 family genes expressed by human peripheral B cells display differential mutational frequencies in the VH region

Autor: Masayuki Murata, Kouzaburo Yamaji, Seizaburo Kashiwagi, Jun Hayashi, Hideyuki Ikematsu, Yong Chong, Shigeki Nabeshima

Publikováno v: Molecular Immunology. 39:31-38

The heavy chain variable segment gene (V(H))5 family, one of the seven immunoglobulin (Ig) V(H) families, contains two functional genes, VH251 and VH32. To investigate functional differences between these V(H)5 family genes, V(H) segments expressed b

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d2cb2581bcbc8c6680cfc2fff99ccbf3
https://doi.org/10.1016/s0161-5890(02)00054-8