Alterations of the interactome of Bcl-2 proteins in breast cancer at the transcriptional, mutational and structural level

New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx

(2019) Mohamed Mounir et al.   PLoS Computational Biology

Tertiary Structural Motif Sequence Statistics Enable Facile Prediction and Design of Peptides that Bind Anti-apoptotic Bfl-1 and Mcl-1

(2019) Vincent Frappier et al.   STRUCTURE

BCL-2 proteins and apoptosis: Recent insights and unknowns

(2018) Frank Edlich   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Bcl-2 on the brink of breakthroughs in cancer treatment

(2018) John C Reed   CELL DEATH AND DIFFERENTIATION

Folding and binding pathways of BH3-only proteins are encoded within their intrinsically disordered sequence, not templated by partner proteins

(2018) Michael D. Crabtree et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

CABS-flex 2.0: a web server for fast simulations of flexibility of protein structures

(2018) Aleksander Kuriata et al.   NUCLEIC ACIDS RESEARCH

HUWE1 E3 ligase promotes PINK1/PARKIN-independent mitophagy by regulating AMBRA1 activation via IKKα

(2018) Anthea Di Rita et al.   Nature Communications

IID 2018 update: context-specific physical protein–protein interactions in human, model organisms and domesticated species

(2018) Max Kotlyar et al.   NUCLEIC ACIDS RESEARCH

COSMIC: the Catalogue Of Somatic Mutations In Cancer

(2018) John G Tate et al.   NUCLEIC ACIDS RESEARCH

Modulation of allosteric coupling by mutations: from protein dynamics and packing to altered native ensembles and function

(2018) Athi N Naganathan   CURRENT OPINION IN STRUCTURAL BIOLOGY

Comprehensive analysis of normal adjacent to tumor transcriptomes

(2017) Dvir Aran et al.   Nature Communications

Predicting the impact of Lynch syndrome-causing missense mutations from structural calculations

(2017) Sofie V. Nielsen et al.   PLoS Genetics

Epistatic mutations in PUMA BH3 drive an alternate binding mode to potently and selectively inhibit anti-apoptotic Bfl-1

(2017) Justin M Jenson et al.   eLife

Ki67, PCNA, and MCM proteins: Markers of proliferation in the diagnosis of breast cancer

(2016) Miroslava Juríková et al.   ACTA HISTOCHEMICA

Prosurvival AMBRA1 turns into a proapoptotic BH3-like protein during mitochondrial apoptosis

(2016) Flavie Strappazzon et al.   Autophagy

Allosteric sites: remote control in regulation of protein activity

(2016) Enrico Guarnera et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

The C-terminal Domains of Apoptotic BH3-only Proteins Mediate Their Insertion into Distinct Biological Membranes

(2016) Vicente Andreu-Fernández et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Functional Implications of the spectrum of BCL2 mutations in Lymphoma

(2016) Khushboo Singh et al.   MUTATION RESEARCH-REVIEWS IN MUTATION RESEARCH

Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer

(2015) Giovanni Ciriello et al.   CELL

The BCL-2 protein family, BH3-mimetics and cancer therapy

(2015) A R D Delbridge et al.   CELL DEATH AND DIFFERENTIATION

Discoveries and controversies in BCL-2 protein-mediated apoptosis

(2015) Janet H. Zheng et al.   FEBS Journal

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Integrated interactions database: tissue-specific view of the human and model organism interactomes

(2015) Max Kotlyar et al.   NUCLEIC ACIDS RESEARCH

Redefining the BH3 Death Domain as a ‘Short Linear Motif’

(2015) Abdel Aouacheria et al.   TRENDS IN BIOCHEMICAL SCIENCES

Structural investigation of the cold-adapted acylaminoacyl peptidase from Sporosarcina psychrophila by atomistic simulations and biophysical methods

(2014) Elena Papaleo et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Acquired mutations in BCL2 family proteins conferring resistance to the BH3 mimetic ABT-199 in lymphoma

(2014) V. Fresquet et al.   BLOOD

Chk1 as a new therapeutic target in triple-negative breast cancer

(2014) Laurence Albiges et al.   BREAST

PyInteraph: A Framework for the Analysis of Interaction Networks in Structural Ensembles of Proteins

(2014) Matteo Tiberti et al.   Journal of Chemical Information and Modeling

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations

(2014) Peter V. Hornbeck et al.   NUCLEIC ACIDS RESEARCH

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

A Distal Mutation Perturbs Dynamic Amino Acid Networks in Dihydrofolate Reductase

(2013) David D. Boehr et al.   BIOCHEMISTRY

Optimized atomic statistical potentials: assessment of protein interfaces and loops

(2013) Guang Qiang Dong et al.   BIOINFORMATICS

Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples

(2013) Kristian Cibulskis et al.   NATURE BIOTECHNOLOGY

Control of apoptosis by the BCL-2 protein family: implications for physiology and therapy

(2013) Peter E. Czabotar et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Bcl-2, Bcl-xL, and Bcl-w are not equivalent targets of ABT-737 and navitoclax (ABT-263) in lymphoid and leukemic cells

(2012) D. Merino et al.   BLOOD

Bcl-w promotes cell invasion by blocking the invasion-suppressing action of Bax

(2012) Eun Mi Kim et al.   CELLULAR SIGNALLING

Molecular Determinants of Bim(BH3) Peptide Binding to Pro-Survival Proteins

(2012) Laura Delgado-Soler et al.   Journal of Chemical Information and Modeling

Mechanisms of Intramolecular Communication in a Hyperthermophilic Acylaminoacyl Peptidase: A Molecular Dynamics Investigation

(2012) Elena Papaleo et al.   PLoS One

Evolution of Bcl-2 homology motifs: homology versus homoplasy

(2012) Abdel Aouacheria et al.   TRENDS IN CELL BIOLOGY

The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data: Figure 1.

(2012) Ethan Cerami et al.   Cancer Discovery

Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

BCL2A1: the underdog in the BCL2 family

(2011) M Vogler   CELL DEATH AND DIFFERENTIATION

Targeting NR4A1 (TR3) in cancer cells and tumors

(2011) Syng-Ook Lee et al.   EXPERT OPINION ON THERAPEUTIC TARGETS

Acquired resistance to ABT-737 in lymphoma cells that up-regulate MCL-1 and BFL-1

(2010) D. Yecies et al.   BLOOD

Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments

(2010) James H Bullard et al.   BMC BIOINFORMATICS

A survey of the anti-apoptotic Bcl-2 subfamily expression in cancer types provides a platform to predict the efficacy of Bcl-2 antagonists in cancer therapy

(2010) W J Placzek et al.   Cell Death & Disease

The Many Roles of FAS Receptor Signaling in the Immune System

(2009) Andreas Strasser et al.   IMMUNITY

A Short Nur77-Derived Peptide Converts Bcl-2 from a Protector to a Killer

(2008) Siva Kumar Kolluri et al.   CANCER CELL

Classification of cell death: recommendations of the Nomenclature Committee on Cell Death 2009

(2008) G Kroemer et al.   CELL DEATH AND DIFFERENTIATION

Structure of the BH3 Domains from the p53-Inducible BH3-Only Proteins Noxa and Puma in Complex with Mcl-1

(2008) Catherine L. Day et al.   JOURNAL OF MOLECULAR BIOLOGY