Evolution of DNA-Binding Sites of a Floral Master Regulatory Transcription Factor

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StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

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The causes and molecular consequences of polyploidy in flowering plants

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Inference of Transcriptional Networks inArabidopsisthrough Conserved Noncoding Sequence Analysis

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Extensive amplification of the E2F transcription factor binding sites by transposons during evolution ofBrassicaspecies

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Ancestral repeats have shaped epigenome and genome composition for millions of years in Arabidopsis thaliana

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The Functional Consequences of Variation in Transcription Factor Binding

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Dynamics of chromatin accessibility and gene regulation by MADS-domain transcription factors in flower development

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Cooperativity and Rapid Evolution of Cobound Transcription Factors in Closely Related Mammals

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Exaptation of Transposable Elements into Novel Cis-Regulatory Elements: Is the Evidence Always Strong?

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Conservation and Functional Element Discovery in 20 Angiosperm Plant Genomes

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Signaling in Pollen Tube Growth: Crosstalk, Feedback, and Missing Links

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An atlas of over 90,000 conserved noncoding sequences provides insight into crucifer regulatory regions

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Structural determinants of DNA recognition by plant MADS-domain transcription factors

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Control of Reproductive Floral Organ Identity Specification in Arabidopsis by the C Function Regulator AGAMOUS

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TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

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Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages

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Gene Duplication and the Evolution of Plant MADS-box Transcription Factors

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Conserved Noncoding Sequences Highlight Shared Components of Regulatory Networks in Dicotyledonous Plants

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Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA

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Characterization of MADS-domain transcription factor complexes in Arabidopsis flower development

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Adaptive Evolution and the Birth of CTCF Binding Sites in the Drosophila Genome

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The selfing syndrome: a model for studying the genetic and evolutionary basis of morphological adaptation in plants

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The Repatterning of Eukaryotic Genomes by Random Genetic Drift

(2011) Michael Lynch et al.   Annual Review of Genomics and Human Genetics

Animal Transcription Networks as Highly Connected, Quantitative Continua

(2011) Mark D. Biggin   DEVELOPMENTAL CELL

High conservation of transcription factor binding and evidence for combinatorial regulation across six Drosophila species

(2011) Qiye He et al.   NATURE GENETICS

The Arabidopsis lyrata genome sequence and the basis of rapid genome size change

(2011) Tina T Hu et al.   NATURE GENETICS

POD1 Regulates Pollen Tube Guidance in Response to Micropylar Female Signaling and Acts in Early Embryo Patterning inArabidopsis

(2011) Hong-Ju Li et al.   PLANT CELL

Journey through the past: 150 million years of plant genome evolution

(2011) Sebastian Proost et al.   PLANT JOURNAL

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Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata

(2011) J. D. Hollister et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Repetitive Elements May Comprise Over Two-Thirds of the Human Genome

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Studying the Evolution of Promoter Sequences: A Waiting Time Problem

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Transposable elements have rewired the core regulatory network of human embryonic stem cells

(2010) Galih Kunarso et al.   NATURE GENETICS

Chromatin immunoprecipitation (ChIP) of plant transcription factors followed by sequencing (ChIP-SEQ) or hybridization to whole genome arrays (ChIP-CHIP)

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Regulation of transcription in plants: mechanisms controlling developmental switches

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Orchestration of Floral Initiation by APETALA1

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Differential expression analysis for sequence count data

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SOAP2: an improved ultrafast tool for short read alignment

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In planta localisation patterns of MADS domain proteins during floral development in Arabidopsis thaliana

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Multiple whole-genome alignments without a reference organism

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Floral and insect-induced volatile formation in Arabidopsis lyrata ssp. petraea, a perennial, outcrossing relative of A. thaliana

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Rapid DNA loss as a counterbalance to genome expansion through retrotransposon proliferation in plants

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Target Genes of the MADS Transcription Factor SEPALLATA3: Integration of Developmental and Hormonal Pathways in the Arabidopsis Flower

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Transposable elements and the evolution of regulatory networks

(2008) Cédric Feschotte   NATURE REVIEWS GENETICS

Improved plant transformation vectors for fluorescent protein tagging

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