Antigen-specific TCRβ clonotypes map to the TCRβ repertoire at markedly different frequencies. Antigen-specific TCRβ clonotypes map to the TCRβ repertoire.

Slides:

Advertisements

Similar presentations

Supplementary Material Epigenetic histone modifications of human transposable elements: genome defense versus exaptation Ahsan Huda, Leonardo Mariño-Ramírez.

Advertisements

GC TFH cells exhibit HIV antigen–driven clonal expansion and selection

Influence of seasonal exposure to grass pollen on local and peripheral blood IgE repertoires in patients with allergic rhinitis Yu-Chang B. Wu, PhD,

Amino‐acid sequence of the heterogeneous nuclear RNP G protein family and RNA‐binding SELEX consensus sequence obtained for human RBMY. (A) Sequence alignment.

Anti–4-1BB/PD-1 combination enriched CD8+ T cells in TILs

Frequency of JAK1 and JAK2 alterations and their association with overall survival in TCGA datasets. Frequency of JAK1 and JAK2 alterations and their association.

Volume 19, Issue 3, Pages (April 2017)

Figure 2 The association between CD8+ T‑cell density of the tumour

Asymptomatic primary Epstein-Barr virus infection occurs in the absence of blood T-cell repertoire perturbations despite high levels of systemic viral.

T-cell receptor sequencing reveals decreased diversity 18 years after early thymectomy Judith Gudmundsdottir, MD, Christina Lundqvist, MSc, Hanna Ijspeert,

Peripheral and Local Human Papillomavirus 16–Specific CD8+ T-Cell Expansions Characterize Erosive Oral Lichen Planus Manuelle Viguier, Hervé Bachelez,

Highly homologous T-cell receptor beta sequences support a common target for autoreactive T cells in most patients with paroxysmal nocturnal hemoglobinuria.

Sunitinib plus rMVA–CEA–TRICOM vaccine decreased tumor burden and increased intratumoral infiltration of T lymphocytes in the MC38-CEA colon carcinoma.

by Jefferson L. Lansford, Udara Dharmasiri, Shengjie Chai, Sally A

Volume 119, Issue 4, Pages (October 2000)

Volume 4, Issue 1, Pages (January 1996)

Regions of sequence homology across dominant clones in TLR7tg animals.

T-cell receptor diversity is selectively skewed in T-cell populations of patients with Wiskott-Aldrich syndrome Junfeng Wu, MD, Dawei Liu, MS, Wenwei.

Volume 18, Issue 5, Pages (November 2015)

De novo oligoclonal expansions of circulating plasmablasts in active and relapsing IgG4- related disease Hamid Mattoo, PhD, Vinay S. Mahajan, MBBS, PhD,

Sarah Nikiforow, Jerome Ritz

Peter A. Savage, Mark M. Davis Immunity

Volume 12, Issue 5, Pages (May 2000)

Cécile Bouneaud, Philippe Kourilsky, Philippe Bousso Immunity

System-wide Analysis of the T Cell Response

Vaccine Adjuvants Alter TCR-Based Selection Thresholds

Characterising dermis expansion and gene expression changes during mouse development (related to Fig 1)‏ Characterising dermis expansion and gene expression.

Clonotypic heterogeneity in cutaneous T-cell lymphoma (mycosis fungoides) revealed by comprehensive whole-exome sequencing by Aishwarya Iyer, Dylan Hennessey,

VH usage of cross-reactive B cells induced by H5N1 or H7N9 vaccination

CD4-TEMRA cells show marked clonal expansion.

Donor and recipient BAL T cells are phenotypically and functionally memory T cells. Donor and recipient BAL T cells are phenotypically and functionally.

Differential expression of TRM markers by donor- and recipient-derived T cells with time. Differential expression of TRM markers by donor- and recipient-derived.

Fig. 2 Overview of transcriptional mutagenesis in yeast.

CD4-TEMRA cells are heterogeneous across donors.

The CREBBP-modulated network is enriched in signaling pathways upregulated in the light zone (LZ). The CREBBP-modulated network is enriched in signaling.

Detection of neoantigen-specific T cell recognition in cancer.

MR1Ts recognized by the hpMR1+EC tetramer are more likely to be TRAV1-2−. MR1Ts recognized by the hpMR1+EC tetramer are more likely to be TRAV1-2−. PBMCs.

The TSDR of ATL cells exhibits Treg-like hypomethylated status or CD4+ conventional T cell–like methylated status. The TSDR of ATL cells exhibits Treg-like.

Functional analysis of CAR-redirected primary NK cells.

Heterogeneity of TCRβ repertoire in autoimmune diseases.

Heat map of genes for which CR significantly altered expression versus AL. Cluster analysis of genes significantly changed by the CR intervention compared.

Antigen-specific CD8+ T cells express higher levels of PD-1 in animals that received the optimized SSX2 vaccine. Antigen-specific CD8+ T cells express.

CD8, galectin-3, galectin-9, and the M1/M2 ratio are associated with a longer survival. CD8, galectin-3, galectin-9, and the M1/M2 ratio are associated.

Transcriptional and genomic targets of EN1 in TNBC cells.

Comparison of the frequency of nucleotide variation in the mtDNA D-loop region between stomach and other tumor cell lines. Comparison of the frequency.

Dysregulated NF-κB activation in Il1r8+/+/lpr and Il1r8−/−/lpr mice.

CD4-CTL effectors share TCR clonotypes with CD4-CTL precursors.

PAP- and PA2024-specific CTLs at week 0 (prior to sipuleucel-T infusion) and at weeks 6 and 26 post–sipuleucel-T treatment. PAP- and PA2024-specific CTLs.

Bortezomib induces an NRF2 signature and NRF2 protein in tumor cells from leukemic MCL. Gene sets regulated by bortezomib (Supplementary Tables S3 and.

Fig. 6 Immunological clonal prediction status improves significantly after MAF error and bias correction. Immunological clonal prediction status improves.

IgM-specific immunoblot analysis of different HCMV recombinant antigens with a selected serum sample from an HCMV-seronegative patient with acute EBV-induced.

Convergent expansion in less predominant B-lineage clones.

Mice treated with DC therapy and/or M-CSFR inhibition were protected from tumor rechallenge with combination therapy-treated mice displaying superior recall.

CPI-444 enhances T-cell activation in MC38 tumors.

BCL-2 and BCL-XL expression alters with maturation stage of the T cell

Increased frequency and number of KLL-specific clonotypes in tumors is associated with improved MCC-specific survival. Increased frequency and number of.

Ten most frequent TCRs in the bulk 12TILs comprise >99% of the TIL population, and the neoantigens are shown to be the most dominant clones. Ten most frequent.

Molecular definitions of lung adenocarcinoma subtypes.

A, Schematic diagram of identified splice variants of PD-L1.

Frequency and number of KLL-specific clonotypes in tumors from patients with KLL-specific T cells in PBMCs or cultured TILs. A wedge (the length of which.

Activation status of NK cells is associated with therapeutic effects of TKIs. PBMCs from CML patients were cocultured with HLA class I–deficient K562 cells.

IL2Cx alone or in combination with anti–CTLA-4 increases the CD8/Treg ratio in the tumor. IL2Cx alone or in combination with anti–CTLA-4 increases the.

Cell counts of immune infiltrate and expression of galectin-1 and galectin-3 in the short-, medium-, and long-term survival cohorts. Cell counts of immune.

Phenotypic diversity of less predominant B-lineage clones.

Driver pathways and key genes in OSCC

Technology schematic for phenotypic tracking of single molecularly defined B-lineage clones. Technology schematic for phenotypic tracking of single molecularly.

Coincidence and prognostic significance of PD-1+ and CD103+ cells in HGSC. Serial sections from the 490-case TMA were stained with antibodies to CD103.

Transcriptome profiling of PD-L1 antibody–treated macrophages showed inflammatory phenotype, increased survival and proliferation, and decreased apoptosis.

Characteristic gene expression patterns distinguish LCH cells from other immune cells present in LCH lesions. Characteristic gene expression patterns distinguish.

Varying the MHC-I affinity, TCR affinity or antigen dose alters the phenotype of CD8 T cells ex vivo. Varying the MHC-I affinity, TCR affinity or antigen.

Presentation transcript:

Antigen-specific TCRβ clonotypes map to the TCRβ repertoire at markedly different frequencies. Antigen-specific TCRβ clonotypes map to the TCRβ repertoire at markedly different frequencies. CD8+ cells (3 × 106) obtained from patient 5 two months after the initial analytical tetramer study were analyzed for Vβ-Jβ distribution using the Illumina Hiseq platform. A, the distribution of Vβ-Jβ combinations from the patient is shown. Vβ and Jβ families that were used in the antigen-specific TCRβ clonotypes are shown in blue (UNC-CDK4-1–associated), red (pp65NLV-associated), or green (used in both antigen responses). B, the reads that yielded functional TCRβ CDR3 regions were arranged by predicted CDR3 amino acid length (starting from the amino acid immediately following the N-terminal invariant cysteine and ending immediately before the C-terminal invariant phenylalanine). The TCRβ CDR3 repertoire was highly restricted with 78.99% of CR3 regions being either 10 or 11 amino acids in length. C, the 5,043 determined TCRβ clonotypes are ranked by decreasing clonotype frequency from left to right in the graph. Nine of the 11 TCRβ clonotypes associated with either the pp65NLV or UNC-CDK4-1 tetramer (Fig. 2; Supplementary Table S4) are mapped onto the graph. Three of the five pp65NLV tetramer–associated TCRβ clonotypes (denoted in red) mapped to the TCRβ repertoire with a frequency of 0.002% of the repertoire. In contrast, the six UNC-CDK4-1 tetramer–associated TCRβ clonotypes (denoted in blue) represented 17.1% of the TCRβ repertoire. D, a 6-month follow-up sample from patient 5 was analyzed using single-cell sorting of CD8+ cells and TCRβ V-CDR3-J sequencing. All six UNC-CDK4-1 tetramer–associated TCRβ clonotypes were identified at high frequencies in the 89 cells whose TCRβ clonotype was determined. E, the ratio of the frequencies of the TCRβ clonotypes measured by single-cell tetramer sorting and bulk TCRβ repertoire analysis are shown. UNC-CDK4-1–associated clonotypes are shown in blue, and pp65NLV-associated clonotypes are shown in red. The bulk repertoire frequencies for pp65NLV-associated clonotypes ASSFSLPYEQY and ASSSVNEQ that were not identified in the repertoire analysis were assigned the minimal frequency in the repertoire of 3.16 × 10−8, the frequency of 1 copy in the repertoire. There was a statistically significant difference in the enrichment of pp65NLV-associated (red) clonotypes in their tetramer+ gate compared with enrichment in the tetramer+ gate for the UNC-CDK4-1–associated clonotypes (blue; t test, P < 0.0001). Sally A. Hunsucker et al. Cancer Immunol Res 2015;3:228-235 ©2015 by American Association for Cancer Research