TY - JOUR
T1 - Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing
AU - Mandric, Igor
AU - Rotman, Jeremy
AU - Yang, Harry Taegyun
AU - Strauli, Nicolas
AU - Montoya, Dennis J.
AU - Van Der Wey, William
AU - Ronas, Jiem R.
AU - Statz, Benjamin
AU - Yao, Douglas
AU - Petrova, Velislava
AU - Zelikovsky, Alex
AU - Spreafico, Roberto
AU - Shifman, Sagiv
AU - Zaitlen, Noah
AU - Rossetti, Maura
AU - Ansel, K. Mark
AU - Eskin, Eleazar
AU - Mangul, Serghei
N1 - Publisher Copyright:
© 2020, The Author(s).
PY - 2020/12/1
Y1 - 2020/12/1
N2 - Profiling immunoglobulin (Ig) receptor repertoires with specialized assays can be cost-ineffective and time-consuming. Here we report ImReP, a computational method for rapid and accurate profiling of the Ig repertoire, including the complementary-determining region 3 (CDR3), using regular RNA sequencing data such as those from 8,555 samples across 53 tissues types from 544 individuals in the Genotype-Tissue Expression (GTEx v6) project. Using ImReP and GTEx v6 data, we generate a collection of 3.6 million Ig sequences, termed the atlas of immunoglobulin repertoires (TAIR), across a broad range of tissue types that often do not have reported Ig repertoires information. Moreover, the flow of Ig clonotypes and inter-tissue repertoire similarities across immune-related tissues are also evaluated. In summary, TAIR is one of the largest collections of CDR3 sequences and tissue types, and should serve as an important resource for studying immunological diseases.
AB - Profiling immunoglobulin (Ig) receptor repertoires with specialized assays can be cost-ineffective and time-consuming. Here we report ImReP, a computational method for rapid and accurate profiling of the Ig repertoire, including the complementary-determining region 3 (CDR3), using regular RNA sequencing data such as those from 8,555 samples across 53 tissues types from 544 individuals in the Genotype-Tissue Expression (GTEx v6) project. Using ImReP and GTEx v6 data, we generate a collection of 3.6 million Ig sequences, termed the atlas of immunoglobulin repertoires (TAIR), across a broad range of tissue types that often do not have reported Ig repertoires information. Moreover, the flow of Ig clonotypes and inter-tissue repertoire similarities across immune-related tissues are also evaluated. In summary, TAIR is one of the largest collections of CDR3 sequences and tissue types, and should serve as an important resource for studying immunological diseases.
UR - http://www.scopus.com/inward/record.url?scp=85086650539&partnerID=8YFLogxK
U2 - 10.1038/s41467-020-16857-7
DO - 10.1038/s41467-020-16857-7
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C2 - 32561710
AN - SCOPUS:85086650539
SN - 2041-1723
VL - 11
JO - Nature Communications
JF - Nature Communications
IS - 1
M1 - 3126
ER -