Natural variation in stochastic photoreceptor specification and color preference in Drosophila

Genome-wide prediction of minor-groove electrostatic potential enables biophysical modeling of protein–DNA binding

(2017) Tsu-Pei Chiu et al.   NUCLEIC ACIDS RESEARCH

The insulator protein BEAF-32 is required for Hippo pathway activity in the terminal differentiation of neuronal subtypes

(2016) David Jukam et al.   DEVELOPMENT

Genomic Evidence for Adaptive Inversion Clines inDrosophila melanogaster

(2016) Martin Kapun et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Thousand Fly Genomes: An ExpandedDrosophilaGenome Nexus

(2016) Justin B. Lack et al.   MOLECULAR BIOLOGY AND EVOLUTION

Secondary contact and local adaptation contribute to genome-wide patterns of clinal variation inDrosophila melanogaster

(2016) Alan O. Bergland et al.   MOLECULAR ECOLOGY

Stochastic left–right neuronal asymmetry inCaenorhabditis elegans

(2016) Amel Alqadah et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Mechanisms of Photoreceptor Patterning in Vertebrates and Invertebrates

(2016) Kayla Viets et al.   TRENDS IN GENETICS

Deconvolving the Recognition of DNA Shape from Sequence

(2015) Namiko Abe et al.   CELL

Low Affinity Binding Site Clusters Confer Hox Specificity and Regulatory Robustness

(2015) Justin Crocker et al.   CELL

The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

(2015) Justin B. Lack et al.   GENETICS

Quantitative modeling of transcription factor binding specificities using DNA shape

(2015) Tianyin Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Suboptimization of developmental enhancers

(2015) E. K. Farley et al.   SCIENCE

The evolutionary diversity of insect retinal mosaics: common design principles and emerging molecular logic

(2015) Mathias F. Wernet et al.   TRENDS IN GENETICS

Conservation of transcription factor binding specificities across 600 million years of bilateria evolution

(2015) Kazuhiro R Nitta et al.   eLife

The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

(2015) Justin B. Lack et al.   GENETICS

Sexual dimorphism and natural variation within and among species in the Drosophilaretinal mosaic

(2014) Maarten Hilbrant et al.   BMC EVOLUTIONARY BIOLOGY

Interchromosomal Communication Coordinates Intrinsically Stochastic Expression Between Alleles

(2014) R. J. Johnston et al.   SCIENCE

Genomic Evidence of Rapid and Stable Adaptive Oscillations over Seasonal Time Scales in Drosophila

(2014) Alan O. Bergland et al.   PLoS Genetics

Lessons about terminal differentiation from the specification of color-detecting photoreceptors in theDrosophilaretina

(2013) Robert J. Johnston   Annals of the New York Academy of Sciences

The neuronal transcription factor erect wing regulates specification and maintenance of Drosophila R8 photoreceptor subtypes

(2013) Hui-Yi Hsiao et al.   DEVELOPMENTAL BIOLOGY

Regional Modulation of a Stochastically Expressed Factor Determines Photoreceptor Subtypes in the Drosophila Retina

(2013) Shivani U. Thanawala et al.   DEVELOPMENTAL CELL

CRISPR/Cas9-mediated genome engineering and the promise of designer flies on demand

(2013) Scott J Gratz et al.   FLY

Global analysis of Drosophila Cys2-His2 zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants

(2013) M. S. Enuameh et al.   GENOME RESEARCH

Low-affinity transcription factor binding sites shape morphogen responses and enhancer evolution

(2013) A. I. Ramos et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Opposite Feedbacks in the Hippo Pathway for Growth Control and Neural Fate

(2013) D. Jukam et al.   SCIENCE

Stochastic gene expression in mammals: lessons from olfaction

(2013) Angeliki Magklara et al.   TRENDS IN CELL BIOLOGY

rehh: an R package to detect footprints of selection in genome-wide SNP data from haplotype structure

(2012) Mathieu Gautier et al.   BIOINFORMATICS

The Drosophila melanogaster Genetic Reference Panel

(2012) Trudy F. C. Mackay et al.   NATURE

A GAL4-Driver Line Resource for Drosophila Neurobiology

(2012) Arnim Jenett et al.   Cell Reports

Dissection and Immunohistochemistry of Larval, Pupal and Adult Drosophila Retinas

(2012) Hui-Yi Hsiao et al.   Jove-Journal of Visualized Experiments

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

MEME-ChIP: motif analysis of large DNA datasets

(2011) Philip Machanick et al.   BIOINFORMATICS

Interlocked Feedforward Loops Control Cell-Type-Specific Rhodopsin Expression in the Drosophila Eye

(2011) Robert J. Johnston et al.   CELL

Binary Regulation of Hippo Pathway by Merlin/NF2, Kibra, Lgl, and Melted Specifies and Maintains Postmitotic Neuronal Fate

(2011) David Jukam et al.   DEVELOPMENTAL CELL

Catecholamine receptor polymorphisms affect decision-making in C. elegans

(2011) Andres Bendesky et al.   NATURE

Stochastic Mechanisms of Cell Fate Specification that Yield Random or Robust Outcomes

(2010) Robert J. Johnston et al.   Annual Review of Cell and Developmental Biology

Precise temporal control of the eye regulatory gene Pax6 via enhancer-binding site affinity

(2010) S. Rowan et al.   GENES & DEVELOPMENT

FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system

(2010) Lihua Julie Zhu et al.   NUCLEIC ACIDS RESEARCH

Maintaining a stochastic neuronal cell fate decision

(2009) D. Vasiliauskas et al.   GENES & DEVELOPMENT

Klumpfuss is involved in the determination of sensory organ precursors in Drosophila

(2008) Markus Kaspar et al.   DEVELOPMENTAL BIOLOGY

piggyBac-Based Mosaic Screen Identifies a Postmitotic Function for Cohesin in Regulating Developmental Axon Pruning

(2008) Oren Schuldiner et al.   DEVELOPMENTAL CELL

Iroquois Complex Genes Induce Co-Expression of rhodopsins in Drosophila

(2008) Esteban O Mazzoni et al.   PLOS BIOLOGY