4.7 Article

Bulk and single-cell transcriptome profiling reveal necroptosis-based molecular classification, tumor microenvironment infiltration characterization, and prognosis prediction in colorectal cancer

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

Ferroptosis-associated molecular classification characterized by distinct tumor microenvironment profiles in colorectal cancer

Wenqin Luo et al.

Summary: In this study, the ferroptosis-associated patterns of colorectal cancer were characterized through integrative analyses. It was found that ferroptosis is closely related to tumor microenvironment diversity and immune response phenotype, and can serve as potential therapeutic target genes and evaluation indicators for predicting immunotherapy efficacy.

INTERNATIONAL JOURNAL OF BIOLOGICAL SCIENCES (2022)

Review Cell & Tissue Engineering

Epithelial-to-Mesenchymal Transition Signaling Pathways Responsible for Breast Cancer Metastasis

Busra Buyuk et al.

Summary: Breast carcinoma metastasis and invasion are complex processes involving EMT, signaling pathways, and cancer stem cells. Understanding the key factors and mechanisms involved in these processes can provide insights into the development of breast cancer.

CELLULAR AND MOLECULAR BIOENGINEERING (2022)

Review Oncology

Necroptosis and tumor progression

Jiong Yan et al.

Summary: Necroptosis, a form of programmed necrotic cell death, plays a crucial role in host defense and inflammatory diseases, and has emerged as an important factor in tumorigenesis and metastasis, suggesting its potential as a novel cancer therapy target.

TRENDS IN CANCER (2022)

Article Biochemical Research Methods

oncoPredict: an R package for predicting in vivo or cancer patient drug response and biomarkers from cell line screening data

Danielle Maeser et al.

Summary: Cell line drug screening datasets can be used for various drug discovery applications, including correcting drug sensitivity levels, predicting clinical drug response, and associating predictions with clinical features for drug biomarker discovery. These methodologies have been unified and updated into the OncoPredict R package to facilitate tool development and adoption, applicable for drug and biomarker discovery in various in vitro and in vivo contexts.

BRIEFINGS IN BIOINFORMATICS (2021)

Review Biochemistry & Molecular Biology

Necroptosis molecular mechanisms: Recent findings regarding novel necroptosis regulators

Jinho Seo et al.

Summary: Necroptosis is a form of programmed necrosis mediated by cytokines and pattern recognition receptors, leading to extreme inflammatory responses and playing important roles in inflammatory diseases. Understanding the molecular regulatory mechanisms of necroptosis can potentially lead to new therapies for autoimmune and neuroinflammatory conditions. Drugs targeting key mediators of the necroptosis signaling pathway are already in clinical development for the treatment of inflammatory disorders like psoriasis.

EXPERIMENTAL AND MOLECULAR MEDICINE (2021)

Article Cell Biology

A single-cell atlas of liver metastases of colorectal cancer reveals reprogramming of the tumor microenvironment in response to preoperative chemotherapy

Li-Heng Che et al.

Summary: Our study utilized single-cell transcriptome analysis to reveal that the TME of treatment-naive tumors is characterized by the higher abundance of less-activated B cells and higher heterogeneity of TAMs. In contrast, tumors treated with PC showed activation of B cells, lower diversity of TAMs with immature and less activated phenotype, lower abundance of dysfunctional T cells and ECM-remodeling cancer-associated fibroblasts, and an accumulation of myofibroblasts. This provides a foundation for future research on cellular mechanisms underlying liver metastasis of CRC and its response to PC.

CELL DISCOVERY (2021)

Review Oncology

Pyroptotic and Necroptotic Cell Death in the Tumor Microenvironment and Their Potential to Stimulate Anti-Tumor Immune Responses

Allan Scarpitta et al.

Summary: Cancer, the second leading cause of death globally, is often treated with chemotherapeutic drugs which can have side effects, but some of these drugs can stimulate anti-tumor immune responses through the induction of immunogenic cell death. The study discusses the potential of inducing different forms of ICD to enhance immunogenicity and stimulate effective anti-tumor immune responses.

FRONTIERS IN ONCOLOGY (2021)

Article Multidisciplinary Sciences

Tumor necroptosis is correlated with a favorable immune cell signature and programmed death-ligand 1 expression in cholangiocarcinoma

Thanpisit Lomphithak et al.

Summary: Necroptosis, a regulated form of necrosis, has emerged as a novel therapeutic strategy for enhancing cancer immunotherapy. The study found that MLKL was an unfavorable prognostic factor in cholangiocarcinoma patients, while pMLKL and RIPK1-RIPK3 interaction were associated with a favorable immune signature and PD-L1 expression. Patients with high pMLKL and PD-L1 expressions had longer overall survival. Activation of necroptosis promoted proinflammatory cytokine and chemokine expression.

SCIENTIFIC REPORTS (2021)

Review Pharmacology & Pharmacy

Targeting necroptosis in anticancer therapy: mechanisms and modulators

Ying Wu et al.

ACTA PHARMACEUTICA SINICA B (2020)

Review Biotechnology & Applied Microbiology

Expanding the Scope of Immunotherapy in Colorectal Cancer: Current Clinical Approaches and Future Directions

Malek Kreidieh et al.

BIOMED RESEARCH INTERNATIONAL (2020)

Review Oncology

Ferroptosis, necroptosis, and pyroptosis in anticancer immunity

Rong Tang et al.

JOURNAL OF HEMATOLOGY & ONCOLOGY (2020)

Article Cell Biology

Necroptosis, tumor necrosis and tumorigenesis

Zheng-gang Liu et al.

CELL STRESS (2020)

Article Genetics & Heredity

ComBat-seq: batch effect adjustment for RNA-seq count data

Yuqing Zhang et al.

NAR GENOMICS AND BIOINFORMATICS (2020)

Article Medicine, Research & Experimental

Identification of an immune signature predicting prognosis risk of patients in lung adenocarcinoma

Qian Song et al.

JOURNAL OF TRANSLATIONAL MEDICINE (2019)

Review Gastroenterology & Hepatology

Immunotherapy in colorectal cancer: rationale, challenges and potential

Karuna Ganesh et al.

NATURE REVIEWS GASTROENTEROLOGY & HEPATOLOGY (2019)

Review Biochemistry & Molecular Biology

The role of necroptosis in cancer biology and therapy

Yitao Gong et al.

MOLECULAR CANCER (2019)

Review Medicine, Research & Experimental

Necroptosis: a crucial pathogenic mediator of human disease

Mary E. Choi et al.

JCI INSIGHT (2019)

Review Immunology

Regulation and Function of the PD-L1 Checkpoint

Chong Sun et al.

IMMUNITY (2018)

Review Immunology

Necroptosis: a regulated inflammatory mode of cell death

Yogesh K. Dhuriya et al.

JOURNAL OF NEUROINFLAMMATION (2018)

Article Multidisciplinary Sciences

TGFβ attenuates tumour response to PD-L1 blockade by contributing to exclusion of T cells

Sanjeev Mariathasan et al.

NATURE (2018)

Review Cell Biology

Necroptosis in development, inflammation and disease

Ricardo Weinlich et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2017)

Review Immunology

The renaissance of anti-neoplastic immunity from tumor cell demise

Yuting Ma et al.

IMMUNOLOGICAL REVIEWS (2017)

Review Multidisciplinary Sciences

Elements of cancer immunity and the cancer-immune set point

Daniel S. Chen et al.

NATURE (2017)

Review Oncology

The immune contexture in cancer prognosis and treatment

Wolf H. Fridman et al.

NATURE REVIEWS CLINICAL ONCOLOGY (2017)

Article Oncology

Colorectal cancer statistics, 2017

Rebecca L. Siegel et al.

CA-A CANCER JOURNAL FOR CLINICIANS (2017)

Review Biochemistry & Molecular Biology

Necroptosis and Inflammation

Kim Newton et al.

ANNUAL REVIEW OF BIOCHEMISTRY, VOL 85 (2016)

Review Oncology

The biology and function of fibroblasts in cancer

Raghu Kalluri

NATURE REVIEWS CANCER (2016)

Article Biochemistry & Molecular Biology

The consensus molecular subtypes of colorectal cancer

Justin Guinney et al.

NATURE MEDICINE (2015)

Article Biochemical Research Methods

GSVA: gene set variation analysis for microarray and RNA-Seq data

Sonja Haenzelmann et al.

BMC BIOINFORMATICS (2013)

Article Biochemistry & Molecular Biology

Genomics of Drug Sensitivity in Cancer (GDSC): a resource for therapeutic biomarker discovery in cancer cells

Wanjuan Yang et al.

NUCLEIC ACIDS RESEARCH (2013)

Article Multidisciplinary Sciences

Inferring tumour purity and stromal and immune cell admixture from expression data

Kosuke Yoshihara et al.

NATURE COMMUNICATIONS (2013)

Review Oncology

Role of TH17 cytokines in the control of colorectal cancer

Veronica De Simone et al.

ONCOIMMUNOLOGY (2013)

Article Biochemical Research Methods

Molecular signatures database (MSigDB) 3.0

Arthur Liberzon et al.

BIOINFORMATICS (2011)

Article Biochemical Research Methods

ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking

Matthew D. Wilkerson et al.

BIOINFORMATICS (2010)

Article Computer Science, Interdisciplinary Applications

Regularization Paths for Generalized Linear Models via Coordinate Descent

Jerome Friedman et al.

JOURNAL OF STATISTICAL SOFTWARE (2010)

Review Cell Biology

Molecular mechanisms of necroptosis: an ordered cellular explosion

Peter Vandenabeele et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2010)

Review Oncology

The Tumor Microenvironment in Colorectal Carcinogenesis

Vijay G. Peddareddigari et al.

CANCER MICROENVIRONMENT (2010)