Temporally dynamic antagonism between transcription and chromatin compaction controls stochastic photoreceptor specification in flies

Emergence of a geometric pattern of cell fates from tissue-scale mechanics in the Drosophila eye

(2022) Kevin D Gallagher et al.   eLife

Identification of genomic enhancers through spatial integration of single‐cell transcriptomics and epigenomics

(2020) Carmen Bravo González‐Blas et al.   Molecular Systems Biology

Combinatorial Action of Temporally Segregated Transcription Factors

(2020) Julien Charest et al.   DEVELOPMENTAL CELL

Optimal Decoding of Cellular Identities in a Genetic Network

(2019) Mariela D. Petkova et al.   CELL

Characterization of Button Loci that Promote Homologous Chromosome Pairing and Cell-Type-Specific Interchromosomal Gene Regulation

(2019) Kayla Viets et al.   DEVELOPMENTAL CELL

Condensin II drives large-scale folding and spatial partitioning of interphase chromosomes in Drosophila nuclei

(2018) Leah F. Rosin et al.   PLoS Genetics

Differential context-specific impact of individual core promoter elements on transcriptional dynamics

(2017) Oliver Hendy et al.   MOLECULAR BIOLOGY OF THE CELL

Refined sgRNA efficacy prediction improves large- and small-scale CRISPR–Cas9 applications

(2017) Maurice Labuhn et al.   NUCLEIC ACIDS RESEARCH

Natural variation in stochastic photoreceptor specification and color preference in Drosophila

(2017) Caitlin Anderson et al.   eLife

Transcription of the non-coding RNA upperhand controls Hand2 expression and heart development

(2016) Kelly M. Anderson et al.   NATURE

Transient transcription in the early embryo sets an epigenetic state that programs postnatal growth

(2016) Maxim V C Greenberg et al.   NATURE GENETICS

CHOPCHOP v2: a web tool for the next generation of CRISPR genome engineering

(2016) Kornel Labun et al.   NUCLEIC ACIDS RESEARCH

Stochastic left–right neuronal asymmetry inCaenorhabditis elegans

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

Noise Expands the Response Range of the Bacillus subtilis Competence Circuit

(2016) Andrew Mugler et al.   PLoS Computational Biology

Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes

(2015) Brian J. Beliveau et al.   Nature Communications

Highly Specific and Efficient CRISPR/Cas9-Catalyzed Homology-Directed Repair inDrosophila

(2014) Scott J. Gratz et al.   GENETICS

Nuclear compartmentalization of odorant receptor genes

(2014) L. M. Armelin-Correa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Optimized CRISPR/Cas tools for efficient germline and somatic genome engineering in Drosophila

(2014) F. Port et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Interchromosomal Communication Coordinates Intrinsically Stochastic Expression Between Alleles

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

An Epigenetic Trap Stabilizes Singular Olfactory Receptor Expression

(2013) David B. Lyons et al.   CELL

Precise Developmental Gene Expression Arises from Globally Stochastic Transcriptional Activity

(2013) Shawn C. Little et al.   CELL

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

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

Remodeling of the Enhancer Landscape during Macrophage Activation Is Coupled to Enhancer Transcription

(2013) Minna U. Kaikkonen et al.   MOLECULAR CELL

Embryonic Priming of a miRNA Locus Predetermines Postmitotic Neuronal Left/Right Asymmetry in C. elegans

(2012) Luisa Cochella et al.   CELL

Nuclear Aggregation of Olfactory Receptor Genes Governs Their Monogenic Expression

(2012) E. Josephine Clowney et al.   CELL

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes

(2012) B. J. Beliveau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Activation-Induced B Cell Fates Are Selected by Intracellular Stochastic Competition

(2012) K. R. Duffy et al.   SCIENCE

Identification of Genes That Promote or Antagonize Somatic Homolog Pairing Using a High-Throughput FISH–Based Screen

(2012) Eric F. Joyce et al.   PLoS Genetics

Retinal differentiation in Drosophila

(2012) Jessica E. Treisman   Wiley Interdisciplinary Reviews-Developmental Biology

An Epigenetic Signature for Monoallelic Olfactory Receptor Expression

(2011) Angeliki Magklara et al.   CELL

High-throughput mapping of the promoters of the mouse olfactory receptor genes reveals a new type of mammalian promoter and provides insight into olfactory receptor gene regulation

(2011) E. Josephine Clowney et al.   GENOME RESEARCH

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

Lateralized Gustatory Behavior of C. elegans Is Controlled by Specific Receptor-Type Guanylyl Cyclases

(2009) Christopher O. Ortiz et al.   CURRENT BIOLOGY

Unlocking the secrets of the genome

(2009) Susan E. Celniker et al.   NATURE

Design of 240,000 orthogonal 25mer DNA barcode probes

(2009) Q. Xu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transient-mediated fate determination in a transcriptional circuit of HIV

(2008) Leor S Weinberger et al.   NATURE GENETICS

Iroquois Complex Genes Induce Co-Expression of rhodopsins in Drosophila

(2008) Esteban O Mazzoni et al.   PLOS BIOLOGY