Tbx2a Modulates Switching of RH2 and LWS Opsin Gene Expression

Chromosome-scale assemblies reveal the structural evolution of African cichlid genomes

(2019) Matthew A Conte et al.   GigaScience

Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real‐time PCR analyses

(2019) Miranda R Yourick et al.   Molecular Ecology Resources

Multiple trans QTL and one cis-regulatory deletion are associated with the differential expression of cone opsins in African cichlids

(2018) Sri Pratima Nandamuri et al.   BMC GENOMICS

Perspectives on Gene Regulatory Network Evolution

(2017) Marc S. Halfon   TRENDS IN GENETICS

Proximate and ultimate causes of variable visual sensitivities: Insights from cichlid fish radiations

(2016) Karen L. Carleton et al.   GENESIS

Retinal specialization through spatially varying cell densities and opsin coexpression in cichlid fish

(2016) Brian E. Dalton et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Mechanisms of Photoreceptor Patterning in Vertebrates and Invertebrates

(2016) Kayla Viets et al.   TRENDS IN GENETICS

Color vision varies more among populations than among species of live-bearing fish from South America

(2015) Benjamin A. Sandkam et al.   BMC EVOLUTIONARY BIOLOGY

Spatially differentiated expression of quadruplicated green-sensitive RH2 opsin genes in zebrafish is determined by proximal regulatory regions and gene order to the locus control region

(2015) Taro Tsujimura et al.   BMC GENETICS

An improved genome reference for the African cichlid, Metriaclima zebra

(2015) Matthew A. Conte et al.   BMC GENOMICS

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Beauty in the eyes of the beholders: colour vision is tuned to mate preference in the Trinidadian guppy (Poecilia reticulata)

(2015) Benjamin Sandkam et al.   MOLECULAR ECOLOGY

JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles

(2015) Anthony Mathelier et al.   NUCLEIC ACIDS RESEARCH

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Interspecific Variation in Rx1 Expression Controls Opsin Expression and Causes Visual System Diversity in African Cichlid Fishes

(2014) Jane E. Schulte et al.   MOLECULAR BIOLOGY AND EVOLUTION

The genomic substrate for adaptive radiation in African cichlid fish

(2014) David Brawand et al.   NATURE

A Gateway for Phylogenetic Analysis Powered by Grid Computing Featuring GARLI 2.0

(2014) Adam L. Bazinet et al.   SYSTEMATIC BIOLOGY

Evolution of cichlid vision via trans-regulatory divergence

(2012) Kelly E O’Quin et al.   BMC EVOLUTIONARY BIOLOGY

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Primer3—new capabilities and interfaces

(2012) Andreas Untergasser et al.   NUCLEIC ACIDS RESEARCH

TBX2 expression is regulated by PAX3 in the melanocyte lineage

(2012) Fang Liu et al.   Pigment Cell & Melanoma Research

Divergence in cis-regulatory sequences surrounding the opsin gene arrays of African cichlid fishes

(2011) Kelly E O'Quin et al.   BMC EVOLUTIONARY BIOLOGY

New evidence for the role of heterochrony in the repeated evolution of cichlid opsin expression

(2011) Kelly E. O'Quin et al.   EVOLUTION & DEVELOPMENT

Rapid light-induced shifts in opsin expression: finding new opsins, discerning mechanisms of change, and implications for visual sensitivity

(2011) REBECCA C. FULLER et al.   MOLECULAR ECOLOGY

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Regulatory function of conserved sequences upstream of the long-wave sensitive opsin genes in teleost fishes

(2011) Kevin J. Tam et al.   VISION RESEARCH

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

DNA Transposons: Nature and Applications in Genomics

(2010) Martin Munoz-Lopez et al.   CURRENT GENOMICS

Transcriptional regulation of photoreceptor development and homeostasis in the mammalian retina

(2010) Anand Swaroop et al.   NATURE REVIEWS NEUROSCIENCE

A Single Enhancer Regulating the Differential Expression of Duplicated Red-Sensitive Opsin Genes in Zebrafish

(2010) Taro Tsujimura et al.   PLoS Genetics

Loss of Tbx2 delays optic vesicle invagination leading to small optic cups

(2009) Hourinaz Behesti et al.   DEVELOPMENTAL BIOLOGY

Tbx2b is required for ultraviolet photoreceptor cell specification during zebrafish retinal development

(2009) Karen Alvarez-Delfin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Eyes Have It: Regulatory and Structural Changes Both Underlie Cichlid Visual Pigment Diversity

(2009) Christopher M. Hofmann et al.   PLOS BIOLOGY

Visual sensitivities tuned by heterochronic shifts in opsin gene expression

(2008) Karen L Carleton et al.   BMC BIOLOGY

The influence of ontogeny and light environment on the expression of visual pigment opsins in the retina of the black bream, Acanthopagrus butcheri

(2008) J. Shand et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Speciation through sensory drive in cichlid fish

(2008) Ole Seehausen et al.   NATURE

NCBI BLAST: a better web interface

(2008) M. Johnson et al.   NUCLEIC ACIDS RESEARCH