Published in Comput Syst Bioinformatics Conf on January 01, 2008
Multichromosomal median and halving problems under different genomic distances. BMC Bioinformatics (2009) 2.38
The minimum information about a genome sequence (MIGS) specification. Nat Biotechnol (2008) 31.04
Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project. Nat Biotechnol (2008) 12.96
Ancestral polyploidy in seed plants and angiosperms. Nature (2011) 7.00
Polyploidy and angiosperm diversification. Am J Bot (2009) 4.41
Widespread genome duplications throughout the history of flowering plants. Genome Res (2006) 4.07
Structural dynamics of eukaryotic chromosome evolution. Science (2003) 3.57
The banana (Musa acuminata) genome and the evolution of monocotyledonous plants. Nature (2012) 3.53
Genome-scale data, angiosperm relationships, and "ending incongruence": a cautionary tale in phylogenetics. Trends Plant Sci (2004) 3.53
The Selaginella genome identifies genetic changes associated with the evolution of vascular plants. Science (2011) 3.10
Comparison of next generation sequencing technologies for transcriptome characterization. BMC Genomics (2009) 2.60
Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA). OMICS (2006) 2.57
Identification of shared single copy nuclear genes in Arabidopsis, Populus, Vitis and Oryza and their phylogenetic utility across various taxonomic levels. BMC Evol Biol (2010) 2.50
Multichromosomal median and halving problems under different genomic distances. BMC Bioinformatics (2009) 2.38
Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol Biol Evol (2005) 2.18
A genome triplication associated with early diversification of the core eudicots. Genome Biol (2012) 1.80
A TCP domain transcription factor controls flower type specification along the radial axis of the Gerbera (Asteraceae) inflorescence. Proc Natl Acad Sci U S A (2008) 1.71
PlantTribes: a gene and gene family resource for comparative genomics in plants. Nucleic Acids Res (2007) 1.65
Poisson adjacency distributions in genome comparison: multichromosomal, circular, signed and unsigned cases. Bioinformatics (2008) 1.63
Architecture and evolution of a minute plant genome. Nature (2013) 1.57
Adaptive evolution of cytochrome c oxidase: Infrastructure for a carnivorous plant radiation. Proc Natl Acad Sci U S A (2004) 1.56
Floral gene resources from basal angiosperms for comparative genomics research. BMC Plant Biol (2005) 1.54
Medians seek the corners, and other conjectures. BMC Bioinformatics (2012) 1.45
Patterns of gene duplication in the plant SKP1 gene family in angiosperms: evidence for multiple mechanisms of rapid gene birth. Plant J (2007) 1.44
Phylogeny and diversification of B-function MADS-box genes in angiosperms: evolutionary and functional implications of a 260-million-year-old duplication. Am J Bot (2004) 1.43
The ABCs of MGR with DCJ. Evol Bioinform Online (2008) 1.41
ChloroplastDB: the Chloroplast Genome Database. Nucleic Acids Res (2006) 1.39
Meeting Report from the Second "Minimum Information for Biological and Biomedical Investigations" (MIBBI) workshop. Stand Genomic Sci (2010) 1.35
Gene capture prediction and overlap estimation in EST sequencing from one or multiple libraries. BMC Bioinformatics (2005) 1.35
The impact of multiple protein sequence alignment on phylogenetic estimation. IEEE/ACM Trans Comput Biol Bioinform (2011) 1.31
Assembly and validation of the genome of the nonmodel basal angiosperm Amborella. Science (2013) 1.31
Insights into the Musa genome: syntenic relationships to rice and between Musa species. BMC Genomics (2008) 1.30
Origin of the Hawaiian endemic mints within North American Stachys (Lamiaceae). Am J Bot (2002) 1.29
Missing links: the genetic architecture of flowers [correction of flower] and floral diversification. Trends Plant Sci (2002) 1.29
Large-scale identification of microRNAs from a basal eudicot (Eschscholzia californica) and conservation in flowering plants. Plant J (2007) 1.28
Genome halving with an outgroup. Evol Bioinform Online (2007) 1.27
Activation of anthocyanin biosynthesis in Gerbera hybrida (Asteraceae) suggests conserved protein-protein and protein-promoter interactions between the anciently diverged monocots and eudicots. Plant Physiol (2003) 1.26
Stability of rearrangement measures in the comparison of genome sequences. J Comput Biol (2006) 1.24
Use of genomic history to improve phylogeny and understanding of births and deaths in a gene family. Plant J (2005) 1.21
Transcriptomics and molecular evolutionary rate analysis of the bladderwort (Utricularia), a carnivorous plant with a minimal genome. BMC Plant Biol (2011) 1.21
The signal in the genomes. PLoS Comput Biol (2006) 1.18
Guided genome halving: hardness, heuristics and the history of the Hemiascomycetes. Bioinformatics (2008) 1.17
On the PATHGROUPS approach to rapid small phylogeny. BMC Bioinformatics (2011) 1.17
Cytokinin signaling regulates cambial development in poplar. Proc Natl Acad Sci U S A (2008) 1.16
Phase change for the accuracy of the median value in estimating divergence time. BMC Bioinformatics (2013) 1.14
Tests for gene clustering. J Comput Biol (2003) 1.13
Genomic features in the breakpoint regions between syntenic blocks. Bioinformatics (2004) 1.12
Natural selection on gene function drives the evolution of LTR retrotransposon families in the rice genome. Genome Res (2008) 1.12
Life history evolution and genome size in subtribe Oncidiinae (Orchidaceae). Ann Bot (2005) 1.09
Fractionation statistics. BMC Bioinformatics (2011) 1.09
Highly heterogeneous rates of evolution in the SKP1 gene family in plants and animals: functional and evolutionary implications. Mol Biol Evol (2003) 1.08
Evolution of plant MADS box transcription factors: evidence for shifts in selection associated with early angiosperm diversification and concerted gene duplications. Mol Biol Evol (2009) 1.08
Phylogenomic analysis of transcriptome data elucidates co-occurrence of a paleopolyploid event and the origin of bimodal karyotypes in Agavoideae (Asparagaceae). Am J Bot (2012) 1.08
Genome aliquoting with double cut and join. BMC Bioinformatics (2009) 1.07
EST database for early flower development in California poppy (Eschscholzia californica Cham., Papaveraceae) tags over 6,000 genes from a basal eudicot. Plant Mol Biol (2006) 1.07
Integration of reproductive meristem fates by a SEPALLATA-like MADS-box gene. Proc Natl Acad Sci U S A (2004) 1.06
Evolution and diversification of the CYC/TB1 gene family in Asteraceae--a comparative study in Gerbera (Mutisieae) and sunflower (Heliantheae). Mol Biol Evol (2011) 1.05
Scaffold filling, contig fusion and comparative gene order inference. BMC Bioinformatics (2010) 1.03
The floral genome: an evolutionary history of gene duplication and shifting patterns of gene expression. Trends Plant Sci (2007) 1.03
Parallel loss of plastid introns and their maturase in the genus Cuscuta. PLoS One (2009) 1.02
Gene loss under neighborhood selection following whole genome duplication and the reconstruction of the ancestral Populus genome. J Bioinform Comput Biol (2009) 1.00
Analysis of gene order evolution beyond single-copy genes. Methods Mol Biol (2012) 0.99
Descendants of whole genome duplication within gene order phylogeny. J Comput Biol (2008) 0.98
Adaptive evolution of chloroplast genome structure inferred using a parametric bootstrap approach. BMC Evol Biol (2006) 0.98
Dynamic distribution patterns of ribosomal DNA and chromosomal evolution in Paphiopedilum, a lady's slipper orchid. BMC Plant Biol (2011) 0.97
The Amborella genome: an evolutionary reference for plant biology. Genome Biol (2008) 0.95
Floral homeotic C function genes repress specific B function genes in the carpel whorl of the basal eudicot California poppy (Eschscholzia californica). Evodevo (2010) 0.94
The Fragaria vesca homolog of suppressor of overexpression of constans1 represses flowering and promotes vegetative growth. Plant Cell (2013) 0.94
The statistical analysis of spatially clustered genes under the maximum gap criterion. J Comput Biol (2005) 0.94
Conservation and canalization of gene expression during angiosperm diversification accompany the origin and evolution of the flower. Proc Natl Acad Sci U S A (2010) 0.94
Functional characterization of B class MADS-box transcription factors in Gerbera hybrida. J Exp Bot (2010) 0.94
Rearrangement phylogeny of genomes in contig form. IEEE/ACM Trans Comput Biol Bioinform (2010) 0.94
Sets of medians in the non-geodesic pseudometric space of unsigned genomes with breakpoints. BMC Genomics (2014) 0.94
Genome halving with double cut and join. J Bioinform Comput Biol (2009) 0.94
A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure. Genome Biol (2011) 0.93
Comparative transcriptomics among floral organs of the basal eudicot Eschscholzia californica as reference for floral evolutionary developmental studies. Genome Biol (2010) 0.92
Ancient eudicot hexaploidy meets ancestral eurosid gene order. BMC Genomics (2013) 0.92
Common intervals and symmetric difference in a model-free phylogenomics, with an application to streptophyte evolution. J Comput Biol (2007) 0.91
Natural parameter values for generalized gene adjacency. J Comput Biol (2010) 0.90
Functional diversification of duplicated chalcone synthase genes in anthocyanin biosynthesis of Gerbera hybrida. New Phytol (2013) 0.90
Advancing data reuse in phyloinformatics using an ontology-driven Semantic Web approach. BMC Med Genomics (2013) 0.89
Phylogenetic diversification of glycogen synthase kinase 3/SHAGGY-like kinase genes in plants. BMC Plant Biol (2006) 0.89
Large scale interaction analysis predicts that the Gerbera hybrida floral E function is provided both by general and specialized proteins. BMC Plant Biol (2010) 0.88