4.8 Article

DNA hypomethylation silences anti-tumor immune genes in early prostate cancer and CTCs

Related references

Note: Only part of the references are listed.
Editorial Material Multidisciplinary Sciences

Epigenetic clocks, aging, and cancer

Sarah E. Johnstone et al.

SCIENCE (2022)

Article Oncology

Clinical validation of a targeted methylation-based multi-cancer early detection test using an independent validation set

E. A. Klein et al.

Summary: This study confirmed the feasibility of using the refined MCED test version as a screening tool, demonstrating high specificity and accuracy in predicting CSO, and detecting signals of various cancers.

ANNALS OF ONCOLOGY (2021)

Review Oncology

Immunotherapy in Prostate Cancer

Emily K. Fay et al.

CANCERS (2020)

Article Biochemistry & Molecular Biology

Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer

Sarah E. Johnstone et al.

Article Genetics & Heredity

The DNA methylation landscape of advanced prostate cancer

Shuang G. Zhao et al.

NATURE GENETICS (2020)

Article Multidisciplinary Sciences

Unveiling the heterogeneity of NKT cells in the liver through single cell RNA sequencing

Hao Shen et al.

SCIENTIFIC REPORTS (2020)

Review Immunology

A guide to cancer immunotherapy: from T cell basic science to clinical practice

Alex D. Waldman et al.

NATURE REVIEWS IMMUNOLOGY (2020)

Article Medicine, Research & Experimental

Immunotherapy for Prostate Cancer

Nicholas J. Venturini et al.

COLD SPRING HARBOR PERSPECTIVES IN MEDICINE (2019)

Article Genetics & Heredity

DNA methylation loss in late-replicating domains is linked to mitotic cell division

Wanding Zhou et al.

NATURE GENETICS (2018)

Article Multidisciplinary Sciences

Single-cell multiomics sequencing and analyses of human colorectal cancer

Shuhui Bian et al.

SCIENCE (2018)

Article Biochemical Research Methods

Detecting DNA cytosine methylation using nanopore sequencing

Jared T. Simpson et al.

NATURE METHODS (2017)

Article Biochemical Research Methods

Mapping DNA methylation with high-throughput nanopore sequencing

Arthur C. Rand et al.

NATURE METHODS (2017)

Article Urology & Nephrology

A Contemporary Prostate Cancer Grading System: A Validated Alternative to the Gleason Score

Jonathan I. Epstein et al.

EUROPEAN UROLOGY (2016)

Article Clinical Neurology

Polymorphisms in exon 2 of CD1 genes are associated with susceptibility to Guillain-Barre syndrome

Hongbo Liu et al.

JOURNAL OF THE NEUROLOGICAL SCIENCES (2016)

Article Biochemistry & Molecular Biology

deepTools2: a next generation web server for deep-sequencing data analysis

Fidel Ramirez et al.

NUCLEIC ACIDS RESEARCH (2016)

Review Immunology

Mechanisms and Consequences of Antigen Presentation by CD1

Luc Van Kaer et al.

TRENDS IN IMMUNOLOGY (2016)

Article Cell Biology

Epigenetic Determinants of Cancer

Stephen B. Baylin et al.

COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY (2016)

Article Biochemical Research Methods

Sambamba: fast processing of NGS alignment formats

Artem Tarasov et al.

BIOINFORMATICS (2015)

Article Biochemistry & Molecular Biology

The Molecular Taxonomy of Primary Prostate Cancer

Adam Abeshouse et al.

Article Biochemical Research Methods

Interactive analysis and assessment of single-cell copy-number variations

Tyler Garvin et al.

NATURE METHODS (2015)

Article Multidisciplinary Sciences

An ultra-low-input native ChIP-seq protocol for genome-wide profiling of rare cell populations

Julie Brind'Amour et al.

NATURE COMMUNICATIONS (2015)

Review Oncology

The Regulatory Role of Invariant NKT Cells in Tumor Immunity

Rosanna M. McEwen-Smith et al.

CANCER IMMUNOLOGY RESEARCH (2015)

Article Biochemical Research Methods

HTSeq-a Python framework to work with high-throughput sequencing data

Simon Anders et al.

BIOINFORMATICS (2015)

Article Pharmacology & Pharmacy

The emerging role of human PYHIN proteins in innate immunity: Implications for health and disease

Dympna J. Connolly et al.

BIOCHEMICAL PHARMACOLOGY (2014)

Article Biochemistry & Molecular Biology

Large-scale hypomethylated blocks associated with Epstein-Barr virus-induced B-cell immortalization

Kasper D. Hansen et al.

GENOME RESEARCH (2014)

Article Biochemical Research Methods

Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity

Sebastien A. Smallwood et al.

NATURE METHODS (2014)

Article Biochemical Research Methods

Full-length RNA-seq from single cells using Smart-seq2

Simone Picelli et al.

NATURE PROTOCOLS (2014)

Article Multidisciplinary Sciences

Prostate cancer originating in basal cells progresses to adenocarcinoma propagated by luminal-like cells

Tanya Stoyanova et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Review Immunology

Invariant natural killer T cells: an innate activation scheme linked to diverse effector functions

Patrick J. Brennan et al.

NATURE REVIEWS IMMUNOLOGY (2013)

Article Endocrinology & Metabolism

Suppressor role of androgen receptor in proliferation of prostate basal epithelial and progenitor cells

Soo Ok Lee et al.

JOURNAL OF ENDOCRINOLOGY (2012)

Article Biotechnology & Applied Microbiology

Absolute quantification of somatic DNA alterations in human cancer

Scott L. Carter et al.

NATURE BIOTECHNOLOGY (2012)

Article Biochemical Research Methods

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

Cole Trapnell et al.

NATURE PROTOCOLS (2012)

Article Biochemical Research Methods

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

Felix Krueger et al.

BIOINFORMATICS (2011)

Article Biochemical Research Methods

Molecular signatures database (MSigDB) 3.0

Arthur Liberzon et al.

BIOINFORMATICS (2011)

Article Biochemistry & Molecular Biology

Replication timing-related and gene body-specific methylation of active human genes

Dvir Aran et al.

HUMAN MOLECULAR GENETICS (2011)

Article Genetics & Heredity

Increased methylation variation in epigenetic domains across cancer types

Kasper Daniel Hansen et al.

NATURE GENETICS (2011)

Review Multidisciplinary Sciences

Cancer Immunoediting: Integrating Immunity's Roles in Cancer Suppression and Promotion

Robert D. Schreiber et al.

SCIENCE (2011)

Article Biochemical Research Methods

The Sequence Alignment/Map format and SAMtools

Heng Li et al.

BIOINFORMATICS (2009)

Article Biochemical Research Methods

Fast and accurate short read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2009)

Article Multidisciplinary Sciences

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

Erez Lieberman-Aiden et al.

SCIENCE (2009)

Article Oncology

Phenotypic analysis of prostate-infiltrating lymphocytes reveals TH17 and Treg skewing

Karen Sandell Sfanos et al.

CLINICAL CANCER RESEARCH (2008)

Article Biochemistry & Molecular Biology

QUMA: quantification tool for methylation analysis

Yuichi Kumaki et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Biotechnology & Applied Microbiology

Model-based Analysis of ChIP-Seq (MACS)

Yong Zhang et al.

GENOME BIOLOGY (2008)

Article Biochemistry & Molecular Biology

The UCSC Genome Browser Database: update 2006

A. S. Hinrichs et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Multidisciplinary Sciences

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

A Subramanian et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Oncology

Hypermethylation of CpG islands in primary and metastatic human prostate cancer

S Yegnasubramanian et al.

CANCER RESEARCH (2004)

Article Biochemistry & Molecular Biology

The Dnmt1 DNA-(cytosine-C5)-methyltransferase methylates DNA processively with high preference for hemimethylated target sites

A Hermann et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2004)

Article Biochemistry & Molecular Biology

The UCSC Table Browser data retrieval tool

D Karolchik et al.

NUCLEIC ACIDS RESEARCH (2004)