AlphaPanda(AlphaFold2[1]inspired protein-specific antibody design in a diffusional manner)is an advanced algorithm for designing complementary determining regions(CDRs)of the antibody targeted the specific epitope,com...AlphaPanda(AlphaFold2[1]inspired protein-specific antibody design in a diffusional manner)is an advanced algorithm for designing complementary determining regions(CDRs)of the antibody targeted the specific epitope,combining transformer[2]models,3DCNN[3],and diffusion[4]generative models.展开更多
Background Clinical studies suggest that the dysfunction of T cells and B cells may play an essential role in the pathogenesis of idiopathic nephrotic syndrome(INS),but laboratory evidence is lacking.Therefore,this st...Background Clinical studies suggest that the dysfunction of T cells and B cells may play an essential role in the pathogenesis of idiopathic nephrotic syndrome(INS),but laboratory evidence is lacking.Therefore,this study explored T-cell receptor(TCR)and B-cell receptor(BCR)profiling in children with idiopathic nephrotic syndrome.Methods High-throughput sequencing technology was used to profile the TCR and BCR repertoires in children with INS.Peripheral blood was collected from ten INS patients,including five vinculin autoantibody-positive patients and five vin-culin autoantibody-negative patients,before and after treatment.TCR and BCR libraries were constructed by 5'-RACE and sequenced by a DNBSEQ-T7 sequencer,and sequence analyses were performed using ReSeqTools,FastP,MiXCR,and VDJtools.Results The TRA(T-cell receptorα),TRG(T-cell receptor y),and IGH(immunoglobulin heavy chain)repertoires of the INS group were occupied by highly abundant clonotypes,whereas small clonotypes occupied the healthy group,especially TRA.A significant increase in the Shannon-Weaver index was observed for the TRA and TRG repertoires after treatment in vinculin autoantibody-negative patients,but a significant increase in the IGH repertoire after treatment was observed in vinculin autoantibody-positive patients.The frequency of some V-J pairs was significantly enriched in steroid-sensitive nephrotic syndrome patients.The usage frequency of the V and J genes was skewed in patients,which seemed not related to immunosuppressive therapy.However,after effective treatment,dynamic changes in the size of the individual clonotype were observed.Conclusion T-cell and B-cell immunity contribute to the pathogenesis of different INSs.展开更多
基金supported by the Key Project of International Cooperation of Qilu University of Technology(Grant No.:QLUTGJHZ2018008)Shandong Provincial Natural Science Foundation Committee,China(Grant No.:ZR2016HB54)Shandong Provincial Key Laboratory of Microbial Engineering(SME).
文摘AlphaPanda(AlphaFold2[1]inspired protein-specific antibody design in a diffusional manner)is an advanced algorithm for designing complementary determining regions(CDRs)of the antibody targeted the specific epitope,combining transformer[2]models,3DCNN[3],and diffusion[4]generative models.
基金supported by the Natural Science Foundation of Zhejiang Province(LY22H050001)the National Natural Science Foundation of China(82270741,U20A20351)+1 种基金the Key Project of Provincial Ministry Coconstruction,Health Science,and Technology Project Plan of Zhejiang Province(WKJ-ZJ-2128)Yiluqihang Shenmingyuanyang Medical Development and Scientific Research Fund Project on Kidney Diseases(SMYY20220301001).
文摘Background Clinical studies suggest that the dysfunction of T cells and B cells may play an essential role in the pathogenesis of idiopathic nephrotic syndrome(INS),but laboratory evidence is lacking.Therefore,this study explored T-cell receptor(TCR)and B-cell receptor(BCR)profiling in children with idiopathic nephrotic syndrome.Methods High-throughput sequencing technology was used to profile the TCR and BCR repertoires in children with INS.Peripheral blood was collected from ten INS patients,including five vinculin autoantibody-positive patients and five vin-culin autoantibody-negative patients,before and after treatment.TCR and BCR libraries were constructed by 5'-RACE and sequenced by a DNBSEQ-T7 sequencer,and sequence analyses were performed using ReSeqTools,FastP,MiXCR,and VDJtools.Results The TRA(T-cell receptorα),TRG(T-cell receptor y),and IGH(immunoglobulin heavy chain)repertoires of the INS group were occupied by highly abundant clonotypes,whereas small clonotypes occupied the healthy group,especially TRA.A significant increase in the Shannon-Weaver index was observed for the TRA and TRG repertoires after treatment in vinculin autoantibody-negative patients,but a significant increase in the IGH repertoire after treatment was observed in vinculin autoantibody-positive patients.The frequency of some V-J pairs was significantly enriched in steroid-sensitive nephrotic syndrome patients.The usage frequency of the V and J genes was skewed in patients,which seemed not related to immunosuppressive therapy.However,after effective treatment,dynamic changes in the size of the individual clonotype were observed.Conclusion T-cell and B-cell immunity contribute to the pathogenesis of different INSs.
