Genome-wide CRISPR screen for PARKIN regulators reveals transcriptional repression as a determinant of mitophagy

PARK2 Depletion Connects Energy and Oxidative Stress to PI3K/Akt Activation via PTEN S-Nitrosylation

(2017) Amit Gupta et al.   MOLECULAR CELL

Fanconi Anemia Proteins Function in Mitophagy and Immunity

(2016) Rhea Sumpter et al.   CELL

Parkinson’s Disease-Related Proteins PINK1 and Parkin Repress Mitochondrial Antigen Presentation

(2016) Diana Matheoud et al.   CELL

CRISPR knockout screening outperforms shRNA and CRISPRi in identifying essential genes

(2016) Bastiaan Evers et al.   NATURE BIOTECHNOLOGY

Systematic comparison of CRISPR/Cas9 and RNAi screens for essential genes

(2016) David W Morgens et al.   NATURE BIOTECHNOLOGY

The exon quantification pipeline (EQP): a comprehensive approach to the quantification of gene, exon and junction expression from RNA-seq data

(2016) Sven Schuierer et al.   NUCLEIC ACIDS RESEARCH

Phosphorylation of OPTN by TBK1 enhances its binding to Ub chains and promotes selective autophagy of damaged mitochondria

(2016) Benjamin Richter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RONIN Is an Essential Transcriptional Regulator of Genes Required for Mitochondrial Function in the Developing Retina

(2016) Ross A. Poché et al.   Cell Reports

Functional CRISPR screening identifies the ufmylation pathway as a regulator of SQSTM1/p62

(2016) Rowena DeJesus et al.   eLife

Highly Multiplexed Quantitative Mass Spectrometry Analysis of Ubiquitylomes

(2016) Christopher M. Rose et al.   Cell Systems

Chemogenomic Profiling of Endogenous PARK2 Expression Using a Genome-Edited Coincidence Reporter

(2015) Samuel A. Hasson et al.   ACS Chemical Biology

Parkin Regulates Mitosis and Genomic Stability through Cdc20/Cdh1

(2015) Seung Baek Lee et al.   MOLECULAR CELL

The PINK1-PARKIN Mitochondrial Ubiquitylation Pathway Drives a Program of OPTN/NDP52 Recruitment and TBK1 Activation to Promote Mitophagy

(2015) Jin-Mi Heo et al.   MOLECULAR CELL

The ubiquitin kinase PINK1 recruits autophagy receptors to induce mitophagy

(2015) Michael Lazarou et al.   NATURE

Haploinsufficiency of TBK1 causes familial ALS and fronto-temporal dementia

(2015) Axel Freischmidt et al.   NATURE NEUROSCIENCE

The Roles of PINK1, Parkin, and Mitochondrial Fidelity in Parkinson’s Disease

(2015) Alicia M. Pickrell et al.   NEURON

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

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

RSAT 2015: Regulatory Sequence Analysis Tools

(2015) Alejandra Medina-Rivera et al.   NUCLEIC ACIDS RESEARCH

Parkin-mediated mitophagy directs perinatal cardiac metabolic maturation in mice

(2015) G. Gong et al.   SCIENCE

Exome sequencing in amyotrophic lateral sclerosis identifies risk genes and pathways

(2015) E. T. Cirulli et al.   SCIENCE

Identification and characterization of essential genes in the human genome

(2015) T. Wang et al.   SCIENCE

Parkin is activated by PINK1-dependent phosphorylation of ubiquitin at Ser65

(2014) Agne Kazlauskaite et al.   BIOCHEMICAL JOURNAL

PINK1 phosphorylates ubiquitin to activate Parkin E3 ubiquitin ligase activity

(2014) Lesley A. Kane et al.   JOURNAL OF CELL BIOLOGY

Quantitative Proteomics Reveal a Feedforward Mechanism for Mitochondrial PARKIN Translocation and Ubiquitin Chain Synthesis

(2014) Alban Ordureau et al.   MOLECULAR CELL

Ubiquitin is phosphorylated by PINK1 to activate parkin

(2014) Fumika Koyano et al.   NATURE

Pan-cancer genetic analysis identifies PARK2 as a master regulator of G1/S cyclins

(2014) Yongxing Gong et al.   NATURE GENETICS

Easy quantitative assessment of genome editing by sequence trace decomposition

(2014) Eva K. Brinkman et al.   NUCLEIC ACIDS RESEARCH

STRING v10: protein–protein interaction networks, integrated over the tree of life

(2014) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Genome-wide RNAi screen identifies the Parkinson disease GWAS risk locus SREBF1 as a regulator of mitophagy

(2014) R. M. Ivatt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional epigenetics approach identifies BRM/SMARCA2 as a critical synthetic lethal target in BRG1-deficient cancers

(2014) G. R. Hoffman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MUL1 acts in parallel to the PINK1/parkin pathway in regulating mitofusin and compensates for loss of PINK1/parkin

(2014) Jina Yun et al.   eLife

Genome-wide RNAi screen identifies ATPase inhibitory factor 1 (ATPIF1) as essential for PARK2 recruitment and mitophagy

(2013) Valerie Lefebvre et al.   Autophagy

Super-Enhancers in the Control of Cell Identity and Disease

(2013) Denes Hnisz et al.   CELL

Hexokinase activity is required for recruitment of parkin to depolarized mitochondria

(2013) Melissa K. McCoy et al.   HUMAN MOLECULAR GENETICS

Regulation of mitophagy by the Gp78 E3 ubiquitin ligase

(2013) Min Fu et al.   MOLECULAR BIOLOGY OF THE CELL

Wapl is an essential regulator of chromatin structure and chromosome segregation

(2013) Antonio Tedeschi et al.   NATURE

High-content genome-wide RNAi screens identify regulators of parkin upstream of mitophagy

(2013) Samuel A. Hasson et al.   NATURE

Rapid Single-Step Induction of Functional Neurons from Human Pluripotent Stem Cells

(2013) Yingsha Zhang et al.   NEURON

Genome-Scale CRISPR-Cas9 Knockout Screening in Human Cells

(2013) Ophir Shalem et al.   SCIENCE

Genetic Screens in Human Cells Using the CRISPR-Cas9 System

(2013) Tim Wang et al.   SCIENCE

Mitochondrial quality control: a matter of life and death for neurons

(2012) Elena I Rugarli et al.   EMBO JOURNAL

Phosphatase and Tensin Homolog (PTEN)-induced Putative Kinase 1 (PINK1)-dependent Ubiquitination of Endogenous Parkin Attenuates Mitophagy

(2012) Aleksandar Rakovic et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Transcriptional Regulatory Role of the THAP11-HCF-1 Complex in Colon Cancer Cell Function

(2012) J. B. Parker et al.   MOLECULAR AND CELLULAR BIOLOGY

Inferring direct DNA binding from ChIP-seq

(2012) Timothy L. Bailey et al.   NUCLEIC ACIDS RESEARCH

O-GlcNAc Transferase Catalyzes Site-Specific Proteolysis of HCF-1

(2011) Francesca Capotosti et al.   CELL

p62/SQSTM1 is required for Parkin-induced mitochondrial clustering but not mitophagy; VDAC1 is dispensable for both

(2010) Derek Narendra et al.   Autophagy

Ronin/Hcf-1 binds to a hyperconserved enhancer element and regulates genes involved in the growth of embryonic stem cells

(2010) M. Dejosez et al.   GENES & DEVELOPMENT

Proteasome and p97 mediate mitophagy and degradation of mitofusins induced by Parkin

(2010) Atsushi Tanaka et al.   JOURNAL OF CELL BIOLOGY

PINK1 stabilized by mitochondrial depolarization recruits Parkin to damaged mitochondria and activates latent Parkin for mitophagy

(2010) Noriyuki Matsuda et al.   JOURNAL OF CELL BIOLOGY

An Efficient and Reversible Transposable System for Gene Delivery and Lineage-Specific Differentiation in Human Embryonic Stem Cells

(2009) Arnaud Lacoste et al.   Cell Stem Cell

Genome-wide association study reveals genetic risk underlying Parkinson's disease

(2009) Javier Simón-Sánchez et al.   NATURE GENETICS

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Ronin Is Essential for Embryogenesis and the Pluripotency of Mouse Embryonic Stem Cells

(2008) Marion Dejosez et al.   CELL