RNAi screening: new approaches, understandings, and organisms

Design and evaluation of genome-wide libraries for RNA interference screens

(2012) Thomas Horn et al.   GENOME BIOLOGY

Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software

(2011) Lee Kamentsky et al.   BIOINFORMATICS

Microfluidics-based devices: New tools for studying cancer and cancer stem cell migration

(2011) Yu Huang et al.   Biomicrofluidics

RNAi screen of the druggable genome identifies modulators of proteasome inhibitor sensitivity in myeloma including CDK5

(2011) Y. X. Zhu et al.   BLOOD

Reliability analysis of the Ahringer Caenorhabditis elegans RNAi feeding library: a guide for genome-wide screens

(2011) Wubin Qu et al.   BMC GENOMICS

A comprehensive platform for highly multiplexed mammalian functional genetic screens

(2011) Troy Ketela et al.   BMC GENOMICS

False negative rates in Drosophila cell-based RNAi screens: a case study

(2011) Matthew Booker et al.   BMC GENOMICS

RNAi-induced off-target effects in Drosophila melanogaster: frequencies and solutions

(2011) E. Seinen et al.   Briefings in Functional Genomics

A High-Resolution C. elegans Essential Gene Network Based on Phenotypic Profiling of a Complex Tissue

(2011) Rebecca A. Green et al.   CELL

A Rapid and Scalable System for Studying Gene Function in Mice Using Conditional RNA Interference

(2011) Prem K. Premsrirut et al.   CELL

A Genome-wide Multidimensional RNAi Screen Reveals Pathways Controlling MHC Class II Antigen Presentation

(2011) Petra Paul et al.   CELL

Genome-Wide Analysis of Self-Renewal in Drosophila Neural Stem Cells by Transgenic RNAi

(2011) Ralph A. Neumüller et al.   Cell Stem Cell

The Many Faces of RNAi

(2011) René F. Ketting   DEVELOPMENTAL CELL

Disturbance of the microRNA pathway by commonly used lentiviral shRNA libraries limits the application for screening host factors involved in hepatitis C virus infection

(2011) Qiuwei Pan et al.   FEBS LETTERS

Overcoming Redundancy: An RNAi Enhancer Screen for Morphogenesis Genes inCaenorhabditis elegans

(2011) Jacob M. Sawyer et al.   GENETICS

Genome-scale RNAi on living-cell microarrays identifies novel regulators of Drosophila melanogaster TORC1-S6K pathway signaling

(2011) R. A. Lindquist et al.   GENOME RESEARCH

Large Scale RNAi Screen Reveals That the Inhibitor of DNA Binding 2 (ID2) Protein Is Repressed by p53 Family Member p63 and Functions in Human Keratinocyte Differentiation

(2011) Ning Wu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cofilin regulator 14-3-3  is an evolutionarily conserved protein required for phagocytosis and microbial resistance

(2011) J. Ulvila et al.   JOURNAL OF LEUKOCYTE BIOLOGY

RNAi pathways in parasitic protists and worms

(2011) Thiago Mafra Batista et al.   Journal of Proteomics

A genome-wide RNAi screen identifies novel targets of neratinib sensitivity leading to neratinib and paclitaxel combination drug treatments

(2011) Attila A. Seyhan et al.   Molecular BioSystems

Functional Identification of Optimized RNAi Triggers Using a Massively Parallel Sensor Assay

(2011) Christof Fellmann et al.   MOLECULAR CELL

Asymmetric cell divisions promote Notch-dependent epidermal differentiation

(2011) Scott E. Williams et al.   NATURE

A new way to look at fat

(2011) Joerg Bewersdorf et al.   NATURE METHODS

Mapping of signaling networks through synthetic genetic interaction analysis by RNAi

(2011) Thomas Horn et al.   NATURE METHODS

A parallel microfluidic flow cytometer for high-content screening

(2011) Brian K McKenna et al.   NATURE METHODS

RNAi screening for fat regulatory genes with SRS microscopy

(2011) Meng C Wang et al.   NATURE METHODS

A genome-scale shRNA resource for transgenic RNAi in Drosophila

(2011) Jian-Quan Ni et al.   NATURE METHODS

Biotechnological application of functional genomics towards plant-parasitic nematode control

(2011) Jiarui Li et al.   PLANT BIOTECHNOLOGY JOURNAL

RNA Interference of Four Genes in Adult Bactrocera dorsalis by Feeding Their dsRNAs

(2011) Xiaoxue Li et al.   PLoS One

Visual Genome-Wide RNAi Screening to Identify Human Host Factors Required for Trypanosoma cruzi Infection

(2011) Auguste Genovesio et al.   PLoS One

Second-Generation Sequencing Supply an Effective Way to Screen RNAi Targets in Large Scale for Potential Application in Pest Insect Control

(2011) Yubing Wang et al.   PLoS One

Time-Resolved Human Kinome RNAi Screen Identifies a Network Regulating Mitotic-Events as Early Regulators of Cell Proliferation

(2011) Jitao David Zhang et al.   PLoS One

Reversible suppression of an essential gene in adult mice using transgenic RNA interference

(2011) K. McJunkin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The pINDUCER lentiviral toolkit for inducible RNA interference in vitro and in vivo

(2011) Kristen L. Meerbrey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An RNAi-based chemical genetic screen identifies three small-molecule inhibitors of the Wnt/wingless signaling pathway

(2011) F. C. Gonsalves et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Where gene discovery turns into systems biology: genome-scale RNAi screens in Drosophila

(2011) Ralph A. Neumüller et al.   Wiley Interdisciplinary Reviews-Systems Biology and Medicine

Genome-wide screen for modifiers of Parkinson's disease genes in Drosophila

(2011) Caroline Fernandes et al.   Molecular Brain

A Genome-Wide RNAi Screen for Factors Involved in Neuronal Specification in Caenorhabditis elegans

(2011) Richard J. Poole et al.   PLoS Genetics

Vigilance and Validation: Keys to Success in RNAi Screening

(2010) Frederic D. Sigoillot et al.   ACS Chemical Biology

Some highlights of research on aging with invertebrates, 2010

(2010) Linda Partridge   AGING CELL

Genomic Screening with RNAi: Results and Challenges

(2010) Stephanie Mohr et al.   Annual Review of Biochemistry

Miniaturization of biological assays — Overview on microwell devices for single-cell analyses

(2010) Sara Lindström et al.   BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS

Detecting host factors involved in virus infection by observing the clustering of infected cells in siRNA screening images

(2010) Apichat Suratanee et al.   BIOINFORMATICS

High-throughput RNAi screening to dissect cellular pathways: A how-to guide

(2010) Christina Falschlehner et al.   Biotechnology Journal

A direct comparison of strategies for combinatorial RNA interference

(2010) Luke S Lambeth et al.   BMC MOLECULAR BIOLOGY

RNAi screens to identify components of gene networks that modulate aging in Caenorhabditis elegans

(2010) Z. Ni et al.   Briefings in Functional Genomics

RNAi for functional genomics in plants

(2010) K. M. McGinnis   Briefings in Functional Genomics

Reverse genetics techniques: engineering loss and gain of gene function in plants

(2010) E. Gilchrist et al.   Briefings in Functional Genomics

Drosophila Genome-wide Obesity Screen Reveals Hedgehog as a Determinant of Brown versus White Adipose Cell Fate

(2010) J. Andrew Pospisilik et al.   CELL

A Global In Vivo Drosophila RNAi Screen Identifies NOT3 as a Conserved Regulator of Heart Function

(2010) G. Gregory Neely et al.   CELL

A Genome-wide Drosophila Screen for Heat Nociception Identifies α2δ3 as an Evolutionarily Conserved Pain Gene

(2010) G. Gregory Neely et al.   CELL

RNA interference: a chemist's perspective

(2010) James W. Gaynor et al.   CHEMICAL SOCIETY REVIEWS

Pooled RNAi Screens - Technical and Biological Aspects

(2010) M. Boettcher et al.   CURRENT GENOMICS

Protein kinase signaling networks in cancer

(2010) John Brognard et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

RNAi Screening for the Discovery of Novel Modulators of Human Disease

(2010) Attila A. Seyhan et al.   CURRENT PHARMACEUTICAL BIOTECHNOLOGY

Communicating subcellular distributions

(2010) Robert F. Murphy   CYTOMETRY PART A

A Combined Ex Vivo and In Vivo RNAi Screen for Notch Regulators in Drosophila Reveals an Extensive Notch Interaction Network

(2010) Abil Saj et al.   DEVELOPMENTAL CELL

A genetic screen identifies the Triple T complex required for DNA damage signaling and ATM and ATR stability

(2010) K. E. Hurov et al.   GENES & DEVELOPMENT

Wnt signaling regulates mitochondrial physiology and insulin sensitivity

(2010) J. C. Yoon et al.   GENES & DEVELOPMENT

Inference of RhoGAP/GTPase regulation using single-cell morphological data from a combinatorial RNAi screen

(2010) O. Nir et al.   GENOME RESEARCH

RNA Interference in Ageing Research – A Mini-Review

(2010) Nadège Minois et al.   GERONTOLOGY

Automated microscopy for high-content RNAi screening

(2010) Christian Conrad et al.   JOURNAL OF CELL BIOLOGY

RNA interference in Lepidoptera: An overview of successful and unsuccessful studies and implications for experimental design

(2010) Olle Terenius et al.   JOURNAL OF INSECT PHYSIOLOGY

High-throughput RNAi screening in mammalian cells with esiRNAs

(2010) Mirko Theis et al.   METHODS

Genome-wide RNAi screens in African trypanosomes identify the nifurtimox activator NTR and the eflornithine transporter AAT6

(2010) Nicola Baker et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Genome-wide RNAi screens in bloodstream form trypanosomes identify drug transporters

(2010) Gabriela Schumann Burkard et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Clustering phenotype populations by genome-wide RNAi and multiparametric imaging

(2010) Florian Fuchs et al.   Molecular Systems Biology

Systems survey of endocytosis by multiparametric image analysis

(2010) Claudio Collinet et al.   NATURE

Live-cell imaging RNAi screen identifies PP2A–B55α and importin-β1 as key mitotic exit regulators in human cells

(2010) Michael H. A. Schmitz et al.   NATURE CELL BIOLOGY

Small molecules discovered in a pathway screen target the Rho pathway in cytokinesis

(2010) Adam B Castoreno et al.   Nature Chemical Biology

Rapid functional dissection of genetic networks via tissue-specific transduction and RNAi in mouse embryos

(2010) Slobodan Beronja et al.   NATURE MEDICINE

CellCognition: time-resolved phenotype annotation in high-throughput live cell imaging

(2010) Michael Held et al.   NATURE METHODS

In Vivo RNAi Rescue in Drosophila melanogaster with Genomic Transgenes from Drosophila pseudoobscura

(2010) Christoph C. H. Langer et al.   PLoS One

RNAi Experiments in D. melanogaster: Solutions to the Overlooked Problem of Off-Targets Shared by Independent dsRNAs

(2010) Erwin Seinen et al.   PLoS One

Vectors and parameters that enhance the efficacy of RNAi-mediated gene disruption in transgenic Drosophila

(2010) B. Haley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Genome-Scale DNA Repair RNAi Screen Identifies SPG48 as a Novel Gene Associated with Hereditary Spastic Paraplegia

(2010) Mikołaj Słabicki et al.   PLOS BIOLOGY

Multivesicular Body Formation Requires OSBP–Related Proteins and Cholesterol

(2010) Hiroyuki Kobuna et al.   PLoS Genetics

MISSION esiRNA for RNAi Screening in Mammalian Cells

(2010) Mirko Theis et al.   Jove-Journal of Visualized Experiments

Beyond Drosophila: RNAi In Vivo and Functional Genomics in Insects

(2009) Xavier Bellés   Annual Review of Entomology

RNAi and Functional Genomics in Plant Parasitic Nematodes

(2009) M. N. Rosso et al.   Annual Review of Phytopathology

Illuminating the host - How RNAi screens shed light on host-pathogen interactions

(2009) Miguel Prudêncio et al.   Biotechnology Journal

Functional Identification of Tumor-Suppressor Genes through an In Vivo RNA Interference Screen in a Mouse Lymphoma Model

(2009) Anka Bric et al.   CANCER CELL

A Genome-wide RNAi Screen Identifies Multiple Synthetic Lethal Interactions with the Ras Oncogene

(2009) Ji Luo et al.   CELL

Image Analysis in High Content Screening

(2009) Antje Niederlein et al.   COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING

Instrumental Considerations in High Content Screening

(2009) Chris Shumate et al.   COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING

Generating ‘Omic Knowledge’: The Role of Informatics in High Content Screening

(2009) Mark Collins   COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING

What have RNAi screens taught us about viral–host interactions?

(2009) Sara Cherry   CURRENT OPINION IN MICROBIOLOGY

Cross-Species RNAi Rescue Platform in Drosophila melanogaster

(2009) S. Kondo et al.   GENETICS

Mechanisms of dsRNA uptake in insects and potential of RNAi for pest control: A review

(2009) Hanneke Huvenne et al.   JOURNAL OF INSECT PHYSIOLOGY

Image analysis benchmarking methods for high-content screen design

(2009) C.J. FULLER et al.   JOURNAL OF MICROSCOPY

Automatic identification and clustering of chromosome phenotypes in a genome wide RNAi screen by time-lapse imaging

(2009) Thomas Walter et al.   JOURNAL OF STRUCTURAL BIOLOGY

Discovery of insect and human dengue virus host factors

(2009) October M. Sessions et al.   NATURE

Antiviral immunity in Drosophila requires systemic RNA interference spread

(2009) Maria-Carla Saleh et al.   NATURE

Gene silencing by synthetic U1 Adaptors

(2009) Rafal Goraczniak et al.   NATURE BIOTECHNOLOGY

In vivo RNAi screening identifies regulators of actin dynamics as key determinants of lymphoma progression

(2009) Corbin E Meacham et al.   NATURE GENETICS

RNAiCut: automated detection of significant genes from functional genomic screens

(2009) Irene M Kaplow et al.   NATURE METHODS

Statistical methods for analysis of high-throughput RNA interference screens

(2009) Amanda Birmingham et al.   NATURE METHODS

Culture of Drosophila primary cells dissociated from gastrula embryos and their use in RNAi screening

(2009) Jianwu Bai et al.   Nature Protocols

A novel method for tissue-specific RNAi rescue in Drosophila

(2009) Joachim G. Schulz et al.   NUCLEIC ACIDS RESEARCH

RNA interference in schistosomes: machinery and methodology

(2009) GREICE KRAUTZ-PETERSON et al.   PARASITOLOGY

Discovery ofPlasmodiummodulators by genome-wide analysis of circulating hemocytes inAnopheles gambiae

(2009) Sofia B. Pinto et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning

(2009) Thouis R. Jones et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide RNAi Screen Identifies Genes Involved in Intestinal Pathogenic Bacterial Infection

(2009) S. J. F. Cronin et al.   SCIENCE

Dissecting the Genetic Basis of Resistance to Malaria Parasites in Anopheles gambiae

(2009) S. A. Blandin et al.   SCIENCE

Crop improvement using small RNAs: applications and predictive ecological risk assessments

(2009) Carol Auer et al.   TRENDS IN BIOTECHNOLOGY

Host Cell Factors in HIV Replication: Meta-Analysis of Genome-Wide Studies

(2009) Frederic D. Bushman et al.   PLoS Pathogens

Using iterative cluster merging with improved gap statistics to perform online phenotype discovery in the context of high-throughput RNAi screens

(2008) Zheng Yin et al.   BMC BIOINFORMATICS

From sequence to function: using RNAi to elucidate mechanisms of human disease

(2008) N M Wolters et al.   CELL DEATH AND DIFFERENTIATION

Discovery of Novel Targets with High Throughput RNA Interference Screening

(2008) Paul Kassner   COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING

Genomic RNAi screening in Drosophila S2 cells: what have we learned about host–pathogen interactions?

(2008) Sara Cherry   CURRENT OPINION IN MICROBIOLOGY

RNA interference screening in Drosophila primary cells for genes involved in muscle assembly and maintenance

(2008) J. Bai et al.   DEVELOPMENT

Identification of SUMO-Dependent Chromatin-Associated Transcriptional Repression Components by a Genome-wide RNAi Screen

(2008) Bastian Stielow et al.   MOLECULAR CELL

BAC TransgeneOmics: a high-throughput method for exploration of protein function in mammals

(2008) Ina Poser et al.   NATURE METHODS

The art and design of genetic screens: RNA interference

(2008) Michael Boutros et al.   NATURE REVIEWS GENETICS

Phosphorylation Networks Regulating JNK Activity in Diverse Genetic Backgrounds

(2008) C. Bakal et al.   SCIENCE

Identification of Host Proteins Required for HIV Infection Through a Functional Genomic Screen

(2008) Abraham L. Brass et al.   SCIENCE

Identification of JAK/STAT pathway regulators—Insights from RNAi screens

(2008) Patrick Müller et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

RNAi-mediated crop protection against insects

(2008) Daniel R.G. Price et al.   TRENDS IN BIOTECHNOLOGY

Identification of Neural Outgrowth Genes using Genome-Wide RNAi

(2008) Katharine J. Sepp et al.   PLoS Genetics