Coordinated Cellular Neighborhoods Orchestrate Antitumoral Immunity at the Colorectal Cancer Invasive Front

Schürch, Christian M.; Bhate, Salil; Barlow, Graham L.; Phillips, Darci; Noti, Luca; Zlobec, Inti; Chu, Pauline; Black, Sarah; Demeter, János; McIlwain, David R.; Kinoshita, Shigemi; Samusik, Nikolay; Goltsev, Yury; Nolan, Garry P.

doi:10.1016/j.cell.2020.10.021

Cited by 65 publications

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“…The TLS-50 high-scoring regions were confirmed as the TLSs by pathologists based on histopathological features (see Materials and Methods for details). Immunohistochemistry and CODEX ( 47 ) confirmed that the selected genes in TLS-50 ( CD52 , CD53 , HLA-DQB1 , and HLA-DQA1 ) were highly expressed in TLSs in additional patients with HCC. Because of the existence of TLSs in both adjacent normal and tumor regions, the TLS-50 signature could be applied with TCGA data, and we found that HCC with a tumor size of >3 cm or BCLC stage B/C has lower TLS-50 scores, which is in accordance with previous reports that the existence of TLSs in HCC tumor area favors the prognosis ( 45 ).…”

Section: Discussionmentioning

confidence: 83%

“…S11, A and B) ( 45 , 46 ). In addition, we found high expression of CD52 (ranked in the top five of the TLS-50), CD53 (ranked sixth from the bottom of the TLS-50), and HLA-DR (the major histocompatibility complex, class II, DR) ( HLA-DQB1 and HLA-DQA1 are ranked the 42nd and 50th in the TLS-50 signature, respectively) in TLS regions by immunohistochemistry ( 47 ) on HCC tissue microarrays (fig. S12, A and B), which also confirmed that the TLS-50 signature was accurate.…”

Section: Resultsmentioning

confidence: 92%

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Comprehensive analysis of spatial architecture in primary liver cancer

et al. 2021

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Section: Discussionmentioning

confidence: 83%

Section: Resultsmentioning

confidence: 92%

Comprehensive analysis of spatial architecture in primary liver cancer

et al. 2021

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“…The immune tumor microenvironment could affect the survival of cancer patients [ 17 ]. ECM is a key component of the microenvironment around the cells, playing important roles during embryonic development and organ homeostasis.…”

Section: Discussionmentioning

confidence: 99%

Extracellular Matrix-Related Hubs Genes Have Adverse Effects on Gastric Adenocarcinoma Prognosis Based on Bioinformatics Analysis

Alatan

Chen

Zhou

et al. 2021

Genes

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Gastric adenocarcinoma (GAC) is the most frequent type of stomach cancer, characterized by high heterogeneity and phenotypic diversity. Although many novel strategies have been developed for treating GAC, recurrence and metastasis rates are still high. Therefore, it is necessary to screen new potential biomarkers correlated with prognosis and novel molecular targets. Gene expression profiles were obtained from the from NCBI Gene Expression Omnibus (GEO) database. We conduct an integrated analysis using the online Venny website to explore candidate hub genes between differentially expressed genes (DEGs) of two datasets. Gene ontology (GO) and Kyoto Encyclopedia 18 of Genes and Genomes (KEGG) pathway enrichment analysis found that extracellular matrix plays an important role in GAC. In addition, we applied protein-protein interaction (PPI) network analysis by using the Search Tool for the Retrieval of Interacting Genes (STRING) and visualized with Cytoscape software. Furthermore, we employed Cytoscape software to analyze the interactive relationship of candidate gene for further analysis. We found that ECM related proteins played an important role in GAC, and 15 hub genes were extracted from 123 DEGs genes. There were four hub genes (bgn, vcan, col1a1 and timp1) predicted to be associated with poor prognosis among the 15 hub genes.

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“…Transition element isotopes chelated to antibodies as used in mass spectrometric readouts are confined to about 40 unique labels 3 . Antibody-oligonucleotide conjugates used for cyclic immunofluorescence analysis need to be carefully selected, limiting these technologies to roughly 60 analytes 9 .…”

Section: Introductionmentioning

confidence: 99%

MACSima imaging cyclic staining (MICS) technology reveals combinatorial target pairs for CAR T cell treatment of solid tumors

Kinkhabwala

Herbel

Pankratz

et al. 2022

Sci Rep

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Many critical advances in research utilize techniques that combine high-resolution with high-content characterization at the single cell level. We introduce the MICS (MACSima Imaging Cyclic Staining) technology, which enables the immunofluorescent imaging of hundreds of protein targets across a single specimen at subcellular resolution. MICS is based on cycles of staining, imaging, and erasure, using photobleaching of fluorescent labels of recombinant antibodies (REAfinity Antibodies), or release of antibodies (REAlease Antibodies) or their labels (REAdye_lease Antibodies). Multimarker analysis can identify potential targets for immune therapy against solid tumors. With MICS we analysed human glioblastoma, ovarian and pancreatic carcinoma, and 16 healthy tissues, identifying the pair EPCAM/THY1 as a potential target for chimeric antigen receptor (CAR) T cell therapy for ovarian carcinoma. Using an Adapter CAR T cell approach, we show selective killing of cells only if both markers are expressed. MICS represents a new high-content microscopy methodology widely applicable for personalized medicine.

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Coordinated Cellular Neighborhoods Orchestrate Antitumoral Immunity at the Colorectal Cancer Invasive Front

Abstract: During preparation of our article, Shigemi Kinoshita was inadvertently omitted as an author. The author list and Author Contributions section of the online article have been updated. All co-authors have approved the changes. We apologize for the omission.

Cited by 65 publications

References 0 publications

Comprehensive analysis of spatial architecture in primary liver cancer

Comprehensive analysis of spatial architecture in primary liver cancer

Extracellular Matrix-Related Hubs Genes Have Adverse Effects on Gastric Adenocarcinoma Prognosis Based on Bioinformatics Analysis

MACSima imaging cyclic staining (MICS) technology reveals combinatorial target pairs for CAR T cell treatment of solid tumors

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