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1.
Contrast Media Mol Imaging ; 2021: 3153278, 2021.
Article in English | MEDLINE | ID: mdl-34621145

ABSTRACT

Colorectal cancer (CRC) is the third most common malignancy in the world, with 22% of patients presenting with metastatic disease and a further 50% destined to develop metastasis. Molecular imaging uses antigen-specific ligands conjugated to radionuclides to detect and characterise primary cancer and metastases. Expression of the cell surface protein CDCP1 is increased in CRC, and here we sought to assess whether it is a suitable molecular imaging target for the detection of this cancer. CDCP1 expression was assessed in CRC cell lines and a patient-derived xenograft to identify models suitable for evaluation of radio-labelled 10D7, a CDCP1-targeted, high-affinity monoclonal antibody, for preclinical molecular imaging. Positron emission tomography-computed tomography was used to compare zirconium-89 (89Zr)-10D7 avidity to a nonspecific, isotype control 89Zr-labelled IgGκ1 antibody. The specificity of CDCP1-avidity was further confirmed using CDCP1 silencing and blocking models. Our data indicate high avidity and specificity for of 89Zr-10D7 in CDCP1 expressing tumors at. Significantly higher levels than normal organs and blood, with greatest tumor avidity observed at late imaging time points. Furthermore, relatively high avidity is detected in high CDCP1 expressing tumors, with reduced avidity where CDCP1 expression was knocked down or blocked. The study supports CDCP1 as a molecular imaging target for CRC in preclinical PET-CT models using the radioligand 89Zr-10D7.


Subject(s)
Antigens, Neoplasm/genetics , Cell Adhesion Molecules/genetics , Colorectal Neoplasms/genetics , Positron Emission Tomography Computed Tomography , Radioisotopes/pharmacology , Zirconium/pharmacology , Animals , Antigens, Neoplasm/isolation & purification , Cell Adhesion Molecules/isolation & purification , Colorectal Neoplasms/diagnostic imaging , Colorectal Neoplasms/pathology , Gene Expression Regulation, Neoplastic/drug effects , HCT116 Cells , Heterografts , Humans , Ligands , Mice
2.
Int J Mol Sci ; 22(10)2021 May 14.
Article in English | MEDLINE | ID: mdl-34069064

ABSTRACT

Extracellular vesicles (EVs) are valued candidates for the development of new tools for medical applications. Vesicles carrying melanoma-associated antigen A (MAGEA) proteins, a subfamily of cancer-testis antigens, are particularly promising tools in the fight against cancer. Here, we have studied the biophysical and chemical properties of MAGEA4-EVs and show that they are stable under common storage conditions such as keeping at +4 °C and -80 °C for at least 3 weeks after purification. The MAGEA4-EVs can be freeze-thawed two times without losing MAGEA4 in detectable quantities. The attachment of MAGEA4 to the surface of EVs cannot be disrupted by high salt concentrations or chelators, but the vesicles are sensitive to high pH. The MAGEA4 protein can bind to the surface of EVs in vitro, using robust passive incubation. In addition, EVs can be loaded with recombinant proteins fused to the MAGEA4 open reading frame within the cells and also in vitro. The high stability of MAGEA4-EVs ensures their potential for the development of EV-based anti-cancer applications.


Subject(s)
Antigens, Neoplasm/chemistry , Extracellular Vesicles/chemistry , Neoplasm Proteins/chemistry , Animals , Antigens, Neoplasm/genetics , Antigens, Neoplasm/isolation & purification , Antigens, Neoplasm/metabolism , Drug Storage , Extracellular Vesicles/metabolism , Freezing , Green Fluorescent Proteins/chemistry , Green Fluorescent Proteins/genetics , Hydrogen-Ion Concentration , Mice , Neoplasm Proteins/genetics , Neoplasm Proteins/isolation & purification , Neoplasm Proteins/metabolism , Octoxynol/chemistry , Recombinant Proteins/chemistry , Salts/chemistry
3.
Front Immunol ; 12: 662443, 2021.
Article in English | MEDLINE | ID: mdl-33936100

ABSTRACT

All nucleated mammalian cells express major histocompatibility complex (MHC) proteins that present peptides on cell surfaces for immune surveillance. These MHC-presented peptides (pMHC) are necessary for directing T-cell responses against cells harboring non-self antigens derived from pathogens or from somatic mutations. Alterations in tumor-specific antigen repertoires - particularly novel MHC presentation of mutation-bearing peptides (neoantigens) - can be potent targets of anti-tumor immune responses. Here we employed an integrated genomic and proteomic antigen discovery strategy aimed at measuring how interferon gamma (IFN-γ) alters antigen presentation, using a human lymphoma cell line, GRANTA-519. IFN-γ treatment resulted in 126 differentially expressed proteins (2% of all quantified proteins), which included components of antigen presentation machinery and interferon signaling pathways, and MHC molecules themselves. In addition, several proteasome subunits were found to be modulated, consistent with previous reports of immunoproteasome induction by IFN-γ exposure. This finding suggests that a modest proteomic response to IFN-γ could create larger alteration to cells' antigen/epitope repertoires. Accordingly, MHC immunoprecipitation followed by mass spectrometric analysis of eluted peptide repertoires revealed exclusive signatures of IFN-γ induction, with 951 unique peptides reproducibly presented by MHC-I and 582 presented by MHC-II. Furthermore, an additional set of pMHCs including several candidate neoantigens, distinguished control and the IFN-γ samples by their altered relative abundances. Accordingly, we developed a classification system to distinguish peptides which are differentially presented due to altered expression from novel peptides resulting from changes in antigen processing. Taken together, these data demonstrate that IFN-γ can re-shape antigen repertoires by identity and by abundance. Extending this approach to models with greater clinical relevance could help develop strategies by which immunopeptide repertoires are intentionally reshaped to improve endogenous or vaccine-induced anti-tumor immune responses and potentially anti-viral immune responses.


Subject(s)
Antigens, Neoplasm/genetics , Antigens, Neoplasm/isolation & purification , Genomics , Peptides/immunology , Proteasome Endopeptidase Complex , Proteomics , Antigen Presentation/immunology , Antigens, Neoplasm/immunology , Cell Line, Tumor , Epitopes/immunology , Humans , Interferon-gamma/pharmacology , Lymphoma , T-Lymphocytes/immunology
4.
Int J Surg Pathol ; 29(8): 826-835, 2021 Dec.
Article in English | MEDLINE | ID: mdl-33890816

ABSTRACT

Cancer-testis (CT) antigens were identified by their ability to elicit T- or B-cell immune responses in the autologous host. They are typically expressed in a wide variety of neoplasms and in normal adult tissues are restricted to testicular germ cells. PReferentially expressed Antigen of Melanoma (PRAME) is a member of the family of nonclassical CT antigens being expressed in a few other normal tissues besides testis. Interestingly, knowledge about the protein expression of many CT antigens is still incomplete due to the limited availability of reagents for their immunohistochemical detection. Here, we tested several commercially available serological reagents and identified a monoclonal antibody suitable for the immunohistochemical detection of PRAME in formalin-fixed paraffin-embedded specimens. We also tested a wide array of normal and neoplastic tissues. PRAME protein expression in normal tissues is congruent with original molecular data being present in the testis, and at low levels in the endometrium, adrenal cortex, and adult as well as fetal ovary. In tumors, there is diffuse PRAME immunoreactivity in most metastatic melanomas, myxoid liposarcomas, and synovial sarcomas. Other neoplasms such as seminomas and carcinomas of various origins including endometrial, serous ovarian, mammary ductal, lung, and renal showed an intermediate proportion of cases and variable extent of tumor cells positive for PRAME protein expression. As seen with other CT antigens, hepatocellular and colorectal carcinoma, Leydig cell tumors, mesothelioma, and leiomyosarcoma are poor expressers of PRAME.


Subject(s)
Antigens, Neoplasm/isolation & purification , Biomarkers, Tumor/analysis , Neoplasms/diagnosis , Antibodies, Monoclonal/immunology , Antibodies, Monoclonal/metabolism , Antigens, Neoplasm/immunology , Antigens, Neoplasm/metabolism , Cell Line, Tumor , Female , Humans , Immunohistochemistry/methods , Male , Neoplasms/pathology
5.
Med Sci (Paris) ; 36 Hors série n° 1: 56-60, 2020 Oct.
Article in French | MEDLINE | ID: mdl-33052096

ABSTRACT

Monoclonal antibody (mAb)-based immunotherapy is booming in oncology. In 2020, more than 40% of FDA (Food and Drug Administration)-approved antibodies (34 out of 84 antibodies, according to The Antibody Society) have an indication for cancer therapy. In contrast to standard chemotherapy, they demonstrate a much better safety profile for patients. Despite this, adverse side effects may occur due to the targeting of the antigen also expressed by healthy tissues. For this reason, emerging strategies aim at optimizing the antibody format and considering the particularities of the tumor microenvironment to confer a more specific action of the antibody at the tumor site.


TITLE: Stratégies de ciblage spécifique de la tumeur fondées sur les caractéristiques des antigènes tumoraux et du microenvironnement tumoral. ABSTRACT: L'immunothérapie à base d'anticorps monoclonaux (AcM) connaît un plein essor en cancérologie. En 2020, plus de 40% des anticorps approuvés par la FDA (Food and Drug Administration) (34 sur 84 anticorps, selon The Antibody Society) ont une indication pour les thérapies anti-cancéreuses. Contrairement à la chimiothérapie standard, ils démontrent un bien meilleur profil de tolérance pour les patients. Malgré cela, des effets indésirables néfastes peuvent survenir en raison du ciblage de l'antigène qui est également exprimé au niveau des tissus sains. C'est pourquoi des stratégies émergentes visent à optimiser le format des anticorps et à tenir compte des particularités du microenvironnement tumoral pour conférer une action encore plus spécifique de l'anticorps au niveau tumoral.


Subject(s)
Antibodies, Monoclonal , Antigens, Neoplasm/isolation & purification , Molecular Targeted Therapy/methods , Neoplasms/immunology , Neoplasms/therapy , Tumor Microenvironment/immunology , Animals , Antibodies, Monoclonal/isolation & purification , Antibodies, Monoclonal/therapeutic use , Antibody Specificity , Antigens, Neoplasm/immunology , Drug Delivery Systems/methods , Epitope Mapping/methods , Humans , Prodrugs/therapeutic use , Tumor Hypoxia/immunology
6.
Curr Cancer Drug Targets ; 20(11): 875-886, 2020.
Article in English | MEDLINE | ID: mdl-32957886

ABSTRACT

BACKGROUND: Neoantigens are newly formed antigens that have not been previously recognized by the immune system. They may arise from altered tumor proteins that form as a result of mutations. Although neoantigens have recently been linked to antitumor immunity in long-term survivors of cancers, such as melanoma and colorectal cancer, their prognostic and immune-modulatory role in many cancer types remains undefined. OBJECTIVE: The purpose of this study is to identify prognostic markers for long-term extrahepatic cholangiocarcinoma (EHCC) survival. METHODS: We investigated neoantigens in EHCC, a rare, aggressive cancer with a 5-year overall survival rate lower than 10%, using a combination of whole-exome sequencing (WES), RNA sequencing (RNA-seq), computational biophysics, and immunohistochemistry. RESULTS: Our analysis revealed a decreased neutrophil infiltration-related trend of high-quality neoantigen load with IC50 <500 nM (r=-0.445, P=0.043). Among 24 EHCC patients examined, we identified four long-term survivors with WDFY3 neoantigens and none with WDFY3 neoantigens in the short-term survivors. The WDFY3 neoantigens are associated with a lower infiltration of neutrophils (p=0.013), lower expression of CCL5 (p=0.025), CXCL9 (p=0.036) and TIGIT (p=0.016), and less favorable prognosis (p=0.030). In contrast, the prognosis was not significantly associated with tumor mutation burden, neoantigen load, or immune cell infiltration. CONCLUSION: We suggest that the WDFY3 neoantigens may affect prognosis by regulating antitumor immunity and that the WDFY3 neoantigens may be harnessed as potential targets for immunotherapy of EHCC.


Subject(s)
Adaptor Proteins, Signal Transducing , Antigens, Neoplasm , Autophagy-Related Proteins , Bile Duct Neoplasms , Cholangiocarcinoma , Neutrophil Infiltration/immunology , Adaptor Proteins, Signal Transducing/antagonists & inhibitors , Adaptor Proteins, Signal Transducing/immunology , Antigens, Neoplasm/analysis , Antigens, Neoplasm/isolation & purification , Autophagy-Related Proteins/antagonists & inhibitors , Autophagy-Related Proteins/immunology , Bile Duct Neoplasms/diagnosis , Bile Duct Neoplasms/genetics , Bile Duct Neoplasms/immunology , Bile Ducts, Intrahepatic , Biomarkers, Tumor/analysis , Biomarkers, Tumor/isolation & purification , Chemokine CCL5/metabolism , Cholangiocarcinoma/diagnosis , Cholangiocarcinoma/genetics , Cholangiocarcinoma/immunology , Drug Discovery , Humans , Immunohistochemistry , Immunotherapy/methods , Mutation , Prognosis , Sequence Analysis, RNA/methods , Survivors , Exome Sequencing/methods
7.
Commun Biol ; 3(1): 85, 2020 02 25.
Article in English | MEDLINE | ID: mdl-32099064

ABSTRACT

Here, we developed an unbiased, functional target-discovery platform to identify immunogenic proteins from primary non-small cell lung cancer (NSCLC) cells that had been induced to apoptosis by cisplatin (CDDP) treatment in vitro, as compared with their live counterparts. Among the multitude of proteins identified, some of them were represented as fragmented proteins in apoptotic tumor cells, and acted as non-mutated neoantigens (NM-neoAgs). Indeed, only the fragmented proteins elicited effective multi-specific CD4+ and CD8+ T cell responses, upon a chemotherapy protocol including CDDP. Importantly, these responses further increased upon anti-PD-1 therapy, and correlated with patients' survival and decreased PD-1 expression. Cross-presentation assays showed that NM-neoAgs were unveiled in apoptotic tumor cells as the result of caspase-dependent proteolytic activity of cellular proteins. Our study demonstrates that apoptotic tumor cells generate a repertoire of immunogenic NM-neoAgs that could be potentially used for developing effective T cell-based immunotherapy across multiple cancer patients.


Subject(s)
Antigens, Neoplasm/immunology , Antineoplastic Combined Chemotherapy Protocols/pharmacology , Carcinoma, Non-Small-Cell Lung/therapy , Lung Neoplasms/therapy , Programmed Cell Death 1 Receptor/antagonists & inhibitors , T-Lymphocytes/drug effects , Aged , Antigen Presentation/drug effects , Antigen Presentation/immunology , Antigens, Neoplasm/isolation & purification , Antineoplastic Agents, Immunological/administration & dosage , Antineoplastic Agents, Immunological/pharmacology , Antineoplastic Combined Chemotherapy Protocols/therapeutic use , Carcinoma, Non-Small-Cell Lung/immunology , Carcinoma, Non-Small-Cell Lung/pathology , Case-Control Studies , Cell Line, Tumor , Cisplatin/administration & dosage , Cisplatin/pharmacology , Combined Modality Therapy , Drug Screening Assays, Antitumor/methods , Female , Humans , Immunity, Cellular/drug effects , Immunotherapy/methods , Lung Neoplasms/immunology , Lung Neoplasms/pathology , Male , Middle Aged , Programmed Cell Death 1 Receptor/immunology , T-Lymphocytes/physiology
8.
Cancer Immunol Immunother ; 69(5): 867-877, 2020 May.
Article in English | MEDLINE | ID: mdl-31970440

ABSTRACT

Acute lymphoblastic leukaemia (ALL) in adults is a rare and difficult-to-treat cancer that is characterised by excess lymphoblasts in the bone marrow. Although many patients achieve remission with chemotherapy, relapse rates are high and the associated impact on survival devastating. Most patients receive chemotherapy and for those whose overall fitness supports it, the most effective treatment to date is allogeneic stem cell transplant that can improve overall survival rates in part due to a 'graft-versus-leukaemia' effect. However, due to the rarity of this disease, and the availability of mature B-cell antigens on the cell surface, few new cancer antigens have been identified in adult B-ALL that could act as targets to remove residual disease in first remission or provide alternative targets for escape variants if and when current immunotherapy strategies fail. We have used RT-PCR analysis, literature searches, antibody-specific profiling and gene expression microarray analysis to identify and prioritise antigens as novel targets for the treatment of adult B-ALL.


Subject(s)
Antigens, Neoplasm/immunology , Antineoplastic Agents, Immunological/pharmacology , Immunotherapy/methods , Precursor B-Cell Lymphoblastic Leukemia-Lymphoma/therapy , Tumor Escape/drug effects , Adult , Antigens, Neoplasm/genetics , Antigens, Neoplasm/isolation & purification , Antigens, Neoplasm/metabolism , Antineoplastic Agents, Immunological/therapeutic use , B-Lymphocytes/drug effects , B-Lymphocytes/immunology , B-Lymphocytes/metabolism , Datasets as Topic , Gene Expression Profiling , Humans , Molecular Targeted Therapy/methods , Oligonucleotide Array Sequence Analysis , Precursor B-Cell Lymphoblastic Leukemia-Lymphoma/immunology , Remission Induction/methods , Reverse Transcriptase Polymerase Chain Reaction , Treatment Outcome , Tumor Escape/immunology
10.
BMB Rep ; 53(4): 229-233, 2020 Apr.
Article in English | MEDLINE | ID: mdl-31234954

ABSTRACT

The anti-colorectal cancer monoclonal antibody CO17-1A (mAb CO), which recognizes the tumor-associated antigen EpCAM, was expressed in transgenic Arabidopsis plants. PCR and western blot analyses showed the insertion and expression of heavy chain (HC)/HC fused to the KDEL ER retention modif (HCK) and light chain (LC) of mAb CO and mAb CO with HCK (mAb COK) in Arabidopsis transformants. Both plantderived mAbP CO and mAbP COK were purified from a biomass of approximately 1,000 seedlings grown in a greenhouse. In sandwich ELISA, both mAbP CO showed a slightly higher binding affinity for the target, EpCAM, compared to mAbM CO. In cell ELISA, both mAbsP COs showed binding affinity to the human colorectal cancer cell line SW480. Furthermore, mAbM CO, mAbP CO, and mAbP COK exhibited dose and timedependent regression effects on SW480 cells in vitro. In summation, both mAbP CO and mAbP COK, expressed in Arabidopsis, recognized the target antigen EpCAM and showed anti-proliferative activity against human colorectal cancer cells. [BMB Reports 2020; 53(4): 229-233].


Subject(s)
Antigens, Neoplasm/genetics , Antigens, Neoplasm/immunology , Antigens, Neoplasm/isolation & purification , Animals , Antibodies, Monoclonal/genetics , Antibodies, Monoclonal/immunology , Antibodies, Monoclonal/isolation & purification , Arabidopsis/genetics , Arabidopsis/metabolism , Cell Line, Tumor , Colonic Neoplasms , Colorectal Neoplasms/immunology , Epithelial Cell Adhesion Molecule/metabolism , Humans , Plants, Genetically Modified/genetics , Protein Engineering/methods
11.
Pancreatology ; 20(2): 229-238, 2020 Mar.
Article in English | MEDLINE | ID: mdl-31831392

ABSTRACT

BACKGROUND & OBJECTIVES: Biomarkers are increasingly required to molecularly characterize pancreatic ductal adenocarcinoma (PDAC) subgroup populations, to determine who may benefit from immune based targeted therapy. We evaluated the feasibility of gene expression signature detection and the respective landscape of specific tumor infiltrating lymphocytes (TILs), cancer/testis (CT) antigens, and immune checkpoints for possible future personalized immunotherapy eligibility. METHODS: Dedicated digital mRNA oncologic immune profiling of 770 genes using a Nanostring nCounter® PanCancer Immune Profiling Panel was performed using archived endoscopic ultrasound fine needle biopsy (EUS FNB) PDAC specimens as a case series in a tertiary care setting. RESULTS: The spectrum of mRNA gene expression within the tumor specimens revealed that 44.8%, 10.0% and 50.7% of evaluated genes had a ≥ 2-fold increase, a ≤ 2-fold reduction or between <2 and >2 change of mRNA expression, when compared to normal controls. The corresponding landscape of TILs, CT antigens, and immune checkpoints highlighted several possibilities that could potentially be amenable to targeted personalized immunotherapy. This includes members of the Tumor Associated Macrophage family (CD68, CXCL5, and MARCO), members of the CT antigen family (PRAME, TTK and PBK) and the "second generation" checkpoints TIM3 and BTLA. CONCLUSIONS: Our study represents the ability to successfully perform digital mRNA expression profile analyses to immunophenotype PDAC EUS FNB specimens by evaluating the expression of >730 genes within the tumor immune microenvironment. This may facilitate the search for novel therapeutic targets, offering the opportunity to go beyond immune monotherapy, but perhaps to use combined immunomodulatory agents.


Subject(s)
Carcinoma, Pancreatic Ductal/diagnostic imaging , Carcinoma, Pancreatic Ductal/therapy , Endoscopic Ultrasound-Guided Fine Needle Aspiration/methods , Immunotherapy/methods , Pancreatic Neoplasms/diagnostic imaging , Pancreatic Neoplasms/therapy , RNA, Messenger/biosynthesis , Adult , Aged , Aged, 80 and over , Antigens, Neoplasm/chemistry , Antigens, Neoplasm/isolation & purification , Carcinoma, Pancreatic Ductal/immunology , Female , Humans , Lymphocytes/chemistry , Lymphocytes/pathology , Male , Middle Aged , Pancreatic Neoplasms/immunology , Phenotype , Precision Medicine , RNA, Messenger/genetics , RNA, Neoplasm/genetics , Tumor Microenvironment/genetics
12.
ACS Appl Mater Interfaces ; 11(50): 46645-46650, 2019 Dec 18.
Article in English | MEDLINE | ID: mdl-31765118

ABSTRACT

Diagnosis of prostate cancer via PCA3 biomarker detection is promising to be much more efficient than with the prostatic specific antigens currently used. In this study, we present the first electrochemical and impedance-based biosensors that are capable of detecting PCA3 down to 0.128 nmol/L. The biosensors were made with a layer of PCA3-complementary single-stranded DNA (ssDNA) probe, immobilized on a layer-by-layer (LbL) film of chitosan (CHT) and carbon nanotubes (MWCNT). They are highly selective to PCA3, which was confirmed in impedance measurements and with polarization-modulated infrared reflection absorption spectroscopy (PM-IRRAS). Using information visualization methods, we could also distinguish between cell lines expressing the endogenous PCA3 long noncoding RNA (lncRNA) from cells that did not contain detectable levels of this biomarker. Since the methods involved in fabrication the biosensors are potentially low cost, one may hope to deploy PCA3 tests in any laboratory of clinical analyses and even for point-of-care diagnostics.


Subject(s)
Antigens, Neoplasm/isolation & purification , Biomarkers, Tumor/isolation & purification , Biosensing Techniques , Prostatic Neoplasms/diagnosis , Antigens, Neoplasm/genetics , Biomarkers, Tumor/genetics , Cell Line, Tumor , DNA, Single-Stranded/chemistry , Dielectric Spectroscopy , Humans , Male , Nanotubes, Carbon/chemistry , Prostate/pathology , Prostate-Specific Antigen/genetics , Prostatic Neoplasms/genetics , Prostatic Neoplasms/pathology , RNA, Long Noncoding/genetics , RNA, Long Noncoding/isolation & purification
13.
J Immunother Cancer ; 7(1): 249, 2019 09 12.
Article in English | MEDLINE | ID: mdl-31511069

ABSTRACT

BACKGROUND: There is strong evidence that immunotherapy-mediated tumor rejection can be driven by tumor-specific CD8+ T cells reinvigorated to recognize neoantigens derived from tumor somatic mutations. Thus, the frequencies or characteristics of tumor-reactive, mutation-specific CD8+ T cells could be used as biomarkers of an anti-tumor response. However, such neoantigen-specific T cells are difficult to reliably identify due to their low frequency in peripheral blood and wide range of potential epitope specificities. METHODS: Peripheral blood mononuclear cells (PBMC) from 14 non-small cell lung cancer (NSCLC) patients were collected pre- and post-treatment with the anti-PD-L1 antibody atezolizumab. Using whole exome sequencing and RNA sequencing we identified tumor neoantigens that are predicted to bind to major histocompatibility complex class I (MHC-I) and utilized mass cytometry, together with cellular 'barcoding', to profile immune cells from patients with objective response to therapy (n = 8) and those with progressive disease (n = 6). In parallel, a highly-multiplexed combinatorial tetramer staining was used to screen antigen-specific CD8+ T cells in peripheral blood for 782 candidate tumor neoantigens and 71 known viral-derived control peptide epitopes across all patient samples. RESULTS: No significant treatment- or response associated phenotypic difference were measured in bulk CD8+ T cells. Multiplexed peptide-MHC multimer staining detected 20 different neoantigen-specific T cell populations, as well as T cells specific for viral control antigens. Not only were neoantigen-specific T cells more frequently detected in responding patients, their phenotypes were also almost entirely distinct. Neoantigen-specific T cells from responder patients typically showed a differentiated effector phenotype, most like Cytomegalovirus (CMV) and some types of Epstein-Barr virus (EBV)-specific CD8+ T cells. In contrast, more memory-like phenotypic profiles were observed for neoantigen-specific CD8+ T cells from patients with progressive disease. CONCLUSION: This study demonstrates that neoantigen-specific T cells can be detected in peripheral blood in non-small cell lung cancer (NSCLC) patients during anti-PD-L1 therapy. Patients with an objective response had an enrichment of neoantigen-reactive T cells and these cells showed a phenotype that differed from patients without a response. These findings suggest the ex vivo identification, characterization, and longitudinal follow-up of rare tumor-specific differentiated effector neoantigen-specific T cells may be useful in predicting response to checkpoint blockade. TRIAL REGISTRATION: POPLAR trial NCT01903993 .


Subject(s)
Antibodies, Monoclonal, Humanized/therapeutic use , Antineoplastic Agents, Immunological/therapeutic use , CD8-Positive T-Lymphocytes/immunology , Carcinoma, Non-Small-Cell Lung/drug therapy , Lung Neoplasms/drug therapy , Aged , Antibodies, Monoclonal, Humanized/pharmacology , Antigens, Neoplasm/genetics , Antigens, Neoplasm/isolation & purification , Antigens, Neoplasm/metabolism , Antineoplastic Agents, Immunological/pharmacology , B7-H1 Antigen/antagonists & inhibitors , B7-H1 Antigen/immunology , CD8-Positive T-Lymphocytes/metabolism , Carcinoma, Non-Small-Cell Lung/blood , Carcinoma, Non-Small-Cell Lung/genetics , Carcinoma, Non-Small-Cell Lung/immunology , Drug Monitoring/methods , Female , Humans , Lung Neoplasms/blood , Lung Neoplasms/genetics , Lung Neoplasms/immunology , Male , Middle Aged , Mutation , RNA-Seq , Exome Sequencing
14.
Trends Mol Med ; 25(11): 980-992, 2019 11.
Article in English | MEDLINE | ID: mdl-31494024

ABSTRACT

Cancer immunotherapy includes cancer vaccination, adoptive T cell transfer (ACT) with chimeric antigen receptor (CAR) T cells, and administration of tumor-infiltrating lymphocytes and immune-checkpoint blockade such as anti-CTLA4/anti-PD1 inhibitors that can directly or indirectly target tumor neoantigens and elicit a T cell response. Accurate, rapid, and cost-effective identification of neoantigens, however, is critical for successful immunotherapy. Here, we review computational issues for neoantigen identification by summarizing the various sources of neoantigens and their identification from high-throughput sequencing data. Several opinions are presented to inspire further discussions toward improving neoantigen identification. Continuing efforts are required to improve the sensitivity and specificity of bona fide neoantigens, taking advantage of the development of high-throughput sequencing techniques for effective and personalized cancer immunotherapy.


Subject(s)
Antigens, Neoplasm , Immunotherapy/trends , Neoplasms/immunology , Adoptive Transfer/trends , Alternative Splicing , Antigens, Neoplasm/genetics , Antigens, Neoplasm/isolation & purification , Biomarkers, Tumor , CTLA-4 Antigen/immunology , CTLA-4 Antigen/metabolism , Computer Simulation/trends , Gene Expression Profiling , Genomics , High-Throughput Nucleotide Sequencing , Humans , Immunotherapy, Adoptive/trends , Loss of Heterozygosity , Major Histocompatibility Complex/genetics , Neoplasms/therapy , Prognosis , Programmed Cell Death 1 Receptor/immunology , Programmed Cell Death 1 Receptor/metabolism , Proteomics , T-Lymphocytes/immunology , T-Lymphocytes/transplantation
15.
Biomed Res Int ; 2019: 8103142, 2019.
Article in English | MEDLINE | ID: mdl-31312661

ABSTRACT

Neoantigens are optimal tumor-specific targets for T-cell based immunotherapy, especially for patients with "undruggable" mutated driver genes. T-cell immunotherapy can be a "universal" treatment for HLA genotype patients sharing same oncogenic mutations. To identify potential neoantigens for therapy in gastric cancer, 32 gastric cancer patients were enrolled in our study. Whole exome sequencing data from these patients was processed by TSNAD software to detect cancer somatic mutations and predict neoantigens. The somatic mutations between different patients suggested a high interpatient heterogeneity. C>A and C>T substitutions are common, suggesting an active nucleotide excision repair. The number of predicted neoantigens was significantly higher in patients at stage T1a compared to in patients at T2 or T4b. Six genes (PIK3CA, FAT4, BRCA2, GNAQ, LRP1B, and PREX2) were found as recurrently mutated driver genes in our study. Combining with highly frequent HLA alleles, several neoantigens derived from six recurrently mutated genes were considered as potential targets for further immunotherapy.


Subject(s)
Antigens, Neoplasm/immunology , Precision Medicine , Stomach Neoplasms/immunology , T-Lymphocytes/immunology , Adult , Aged , Aged, 80 and over , Antigens, Neoplasm/genetics , Antigens, Neoplasm/isolation & purification , Antigens, Neoplasm/therapeutic use , Databases, Genetic , Exome/genetics , Exome/immunology , Female , High-Throughput Nucleotide Sequencing , Humans , Immunologic Factors/genetics , Immunologic Factors/therapeutic use , Immunotherapy , Male , Middle Aged , Mutation , Stomach Neoplasms/genetics , Stomach Neoplasms/pathology , Stomach Neoplasms/therapy
16.
Biosens Bioelectron ; 137: 1-7, 2019 Jul 15.
Article in English | MEDLINE | ID: mdl-31063886

ABSTRACT

Efficient signal amplification strategies are crucial for ultrasensitive detection of tumor markers. Herein, a new signal amplification strategy by coupling cascade catalysis-initiated radical polymerization with impedimetric immunoassay was proposed for ultrasensitive detection of carbohydrate antigen 15-3 (CA15-3). Copper-based metal-organic framework nanoparticles (Cu-MOF), as peroxidase mimics, combined with CA15-3 antibody (Ab2) and glucose oxidase (GOx) were employed as immunoprobes to initiate radical polymerization by cascade catalysis. In this work, the oxidation of glucose was catalyzed by GOx to generate hydrogen peroxide (H2O2), which reacted with acetylacetone (ACAC) via Cu-MOF catalysis to yield ACAC radicals for the polymerization of N-isopropylacrylamide (NIPAM). The polymer, poly (N-isopropylacrylamide) (PNIPAM), was generated in situ from the radical polymerization. As resistance enhancer, PNIPAM was covered on electrode surface to amplify resistance value by its poor conductivity. With the help of polymerization-based amplification, the resistance differences caused by target were improved significantly. Under optimum conditions, the designed biosensor showed wide detection ranges from 10 µU/mL to 10 mU/mL and 10 mU/mL to 100 U/mL, with ultralow detection limit of 5.06 µU/mL for CA15-3. Such an approach opened a new avenue for signal amplification, thus offering an ultrasensitive detection platform for a broad range of tumor markers.


Subject(s)
Antigens, Neoplasm/isolation & purification , Biosensing Techniques , Immunoassay , Metal Nanoparticles/chemistry , Antigens, Neoplasm/immunology , Carbohydrates , Catalysis , Copper , Electric Impedance , Electrochemical Techniques , Glucose Oxidase/chemistry , Gold/chemistry , Humans , Hydrogen Peroxide/chemistry , Limit of Detection , Mucin-1/genetics , Polymerization
17.
Methods Mol Biol ; 1884: 203-214, 2019.
Article in English | MEDLINE | ID: mdl-30465205

ABSTRACT

Neo-antigens expressed on tumors are targets for development of cancer immunotherapy strategies. Use of prediction algorithms to identify neo-antigens yields a significant number of peptides that must be validated in laborious and time-consuming methods; many prove to be false-positive identifications. The use of HLA peptidomics allows the isolation of the HLA-peptide complexes directly from cells and can be done on fresh tumor, patient-derived xerographs, or cell lines when the tissue sample is limited. This method can be used to identify both HLA class I and HLA class II or any different MHC from different species. Here we describe the steps to create the immune-affinity columns used from the process, the immunoprecipitation procedure, and also the isolation of the peptides that will be analyzed by mass spectrometry.


Subject(s)
Antigens, Neoplasm/isolation & purification , Exome/immunology , Neoplasms/immunology , Proteomics/methods , Tandem Mass Spectrometry/methods , Algorithms , Antigens, Neoplasm/genetics , Antigens, Neoplasm/immunology , Cell Culture Techniques/instrumentation , Cell Culture Techniques/methods , Chromatography, High Pressure Liquid/instrumentation , Chromatography, High Pressure Liquid/methods , Exome/genetics , Histocompatibility Antigens Class I/genetics , Histocompatibility Antigens Class I/immunology , Histocompatibility Antigens Class I/isolation & purification , Histocompatibility Antigens Class II/genetics , Histocompatibility Antigens Class II/immunology , Histocompatibility Antigens Class II/isolation & purification , Humans , Hybridomas , Immunoprecipitation/instrumentation , Immunoprecipitation/methods , Neoplasms/pathology , Proteomics/instrumentation , Spectrometry, Mass, Electrospray Ionization/instrumentation , Spectrometry, Mass, Electrospray Ionization/methods , Tandem Mass Spectrometry/instrumentation
18.
Clin Cancer Res ; 25(4): 1206-1215, 2019 02 15.
Article in English | MEDLINE | ID: mdl-30401687

ABSTRACT

PURPOSE: The study was undertaken to develop and evaluate the potential of an integrin αvß6-binding peptide (αvß6-BP) for noninvasive imaging of a diverse range of malignancies with PET. EXPERIMENTAL DESIGN: The peptide αvß6-BP was prepared on solid phase and radiolabeled with 4-[18F]fluorobenzoic acid. In vitro testing included ELISA, serum stability, and cell binding studies using paired αvß6-expressing and αvß6-null cell lines. In vivo evaluation (PET/CT, biodistribution, and autoradiography) was performed in a mouse model bearing the same paired αvß6-expressing and αvß6-null cell xenografts. A first-in-human PET/CT imaging study was performed in patients with metastatic lung, colon, breast, or pancreatic cancer. RESULTS: [18F]αvß6-BP displayed excellent affinity and selectivity for the integrin αvß6 in vitro [IC50(αvß6) = 1.2 nmol/L vs IC50(αvß3) >10 µmol/L] in addition to rapid target-specific cell binding and internalization (72.5% ± 0.9% binding and 52.5% ± 1.8%, respectively). Favorable tumor affinity and selectivity were retained in the mouse model and excretion of unbound [18F]αvß6-BP was rapid, primarily via the kidneys. In patients, [18F]αvß6-BP was well tolerated without noticeable adverse side effects. PET images showed significant uptake of [18F]αvß6-BP in both the primary lesion and metastases, including metastasis to brain, bone, liver, and lung. CONCLUSIONS: The clinical impact of [18F]αvß6-BP PET imaging demonstrated in this first-in-human study is immediate for a broad spectrum of malignancies.


Subject(s)
Antigens, Neoplasm/isolation & purification , Carrier Proteins/isolation & purification , Integrins/isolation & purification , Pancreatic Neoplasms/diagnostic imaging , Positron Emission Tomography Computed Tomography , Animals , Antigens, Neoplasm/pharmacology , Bone Neoplasms/diagnostic imaging , Bone Neoplasms/pathology , Bone Neoplasms/secondary , Brain Neoplasms/diagnostic imaging , Brain Neoplasms/pathology , Brain Neoplasms/secondary , Carrier Proteins/pharmacology , Female , Heterografts , Humans , Liver Neoplasms/diagnostic imaging , Liver Neoplasms/pathology , Liver Neoplasms/secondary , Lung Neoplasms/diagnostic imaging , Lung Neoplasms/pathology , Lung Neoplasms/secondary , Mice , Neoplasm Metastasis , Pancreatic Neoplasms/pathology , Radiopharmaceuticals/pharmacology
19.
Theranostics ; 8(15): 4238-4246, 2018.
Article in English | MEDLINE | ID: mdl-30128050

ABSTRACT

Cancer vaccines have encountered their ideal personalized partner along with evidence for great breakthroughs in the identification and synthesis of neoantigens. Individual cancer neoantigen vaccines are capable of eliciting robust T-cell responses and have been demonstrated to achieve striking clinical efficacy due to their high immunogenicity and central thymic tolerance escape of neoantigens. Two recent phase I clinical trials have provided support for the hypothesis and have heralded a nascent era of personalized vaccines in the field of immunotherapy. This review aims to address the identification of neoepitopes and describes advances made in personalized vaccines. In addition, this review discusses the challenges related to the exploitation of vaccine therapy, and provides potential thoughts for the improvement of vaccine design and applications.


Subject(s)
Antigens, Neoplasm/immunology , Antigens, Neoplasm/isolation & purification , Cancer Vaccines/administration & dosage , Cancer Vaccines/isolation & purification , Immunotherapy/methods , Neoplasms/therapy , Precision Medicine/methods , Biomedical Research/trends , Clinical Trials, Phase I as Topic , Drug Discovery/trends , Humans
20.
J Immunol Methods ; 459: 55-62, 2018 08.
Article in English | MEDLINE | ID: mdl-29800576

ABSTRACT

Immunotherapy approaches targeting dendritic cells (DCs) are being studied as treatment options in cancer. This project focused on utilizing DCs as a valuable in vitro screening tool for efficacious microparticle formulations containing tumor associated antigens (TAAs) and adjuvants as immunotherapy alternatives. The innate immune system, including DCs, distinctly responds to the particulate matter and adjuvants in these formulations which stimulates the adaptive immune system to eliminate resident cancer cells. We formulated microparticles (MPs) co-loaded with TAAs along with the adjuvants, AddaVax™ and Imiquimod, and measured their effect on DCs in eliciting a cell-mediated immune response towards tumors. The MP zeta potential was measured as -24.0 mV and -26.5 mV for blank and TAA/adjuvant co-loaded microparticles, and the average particle size was 671.2 nm and 854.4 nm respectively. We determined that nitric oxide (NO) secretion was significantly higher in the adjuvant MP treated DCs group and was dose dependent with 1 mg/mL demonstrating the highest secretion levels. TNF-α release was highest in AddaVax™/TAA and Imiquimod/TAA MPs treated DCs, while IL-6 secretion was highest from Imiquimod/TAA MPs as well as from combined AddaVax™/TAA and Imiquimod/TAA MPs. Overall, the cell surface marker expressions of CD80, CD86, CD40, CD54, MHC-I and MHC-II levels were highest with combined AddaVax™/TAA and Imiquimod/TAA MPs. The results of our experiments suggest that a combination of adjuvants targeting different DC receptors loaded with TAA MPs creates an efficient delivery system to T-cells that could improve adaptive immune responses. Our studies also confirm that DCs are potent innate immune cells that can be used successfully as an in vitro tool to screen novel delivery formulations focused on immunotherapy.


Subject(s)
Antigens, Neoplasm/isolation & purification , Dendritic Cells/immunology , Immunity, Cellular , Immunoassay/methods , Adaptive Immunity , Adjuvants, Immunologic/pharmacology , Antigens, Neoplasm/immunology , Cell Line , Cell-Derived Microparticles/immunology , Cytokines/metabolism , Dendritic Cells/drug effects , High-Throughput Screening Assays , Humans , Imiquimod/pharmacology , Immunotherapy/methods , Nitric Oxide/metabolism , Polysorbates/pharmacology , Squalene/pharmacology
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