Antonis Rokas

Antonis Rokas's AcademicInfluence.com Rankings

Antonis Rokas

Biology

#9486

World Rank

#12699

Historical Rank

Evolutionary Biology

#214

World Rank

#235

Historical Rank

Genetics

#971

World Rank

#1067

Historical Rank

biology Degrees

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Biology

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Antonis Rokas's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

Genome-scale approaches to resolving incongruence in molecular phylogenies (2003) (1466)
The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes (2012) (1355)
The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans (2008) (1032)
Rare genomic changes as a tool for phylogenetics. (2000) (660)
Inferring ancient divergences requires genes with strong phylogenetic signals (2013) (547)
Dynamics of Pseudomonas aeruginosa genome evolution (2008) (481)
Repeated morphological evolution through cis-regulatory changes in a pleiotropic gene (2006) (476)
Highly evolvable malaria vectors: The genomes of 16 Anopheles mosquitoes (2014) (463)
Bayesian estimation of concordance among gene trees. (2006) (455)
More genes or more taxa? The relative contribution of gene number and taxon number to phylogenetic accuracy. (2005) (356)
Contentious relationships in phylogenomic studies can be driven by a handful of genes (2017) (324)
Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum (2018) (298)
The Awesome Power of Yeast Evolutionary Genetics: New Genome Sequences and Strain Resources for the Saccharomyces sensu stricto Genus (2011) (293)
Comparing bootstrap and posterior probability values in the four-taxon case. (2003) (289)
The origins of multicellularity and the early history of the genetic toolkit for animal development. (2008) (276)
Bushes in the Tree of Life (2006) (275)
Animal Evolution and the Molecular Signature of Radiations Compressed in Time (2005) (268)
Animal mitochondrial DNA recombination revisited (2003) (265)
Comparative genomics of biotechnologically important yeasts (2016) (257)
Horizontal Transfer of a Large and Highly Toxic Secondary Metabolic Gene Cluster between Fungi (2011) (231)
Regulation of Body Pigmentation by the Abdominal-B Hox Protein and Its Gain and Loss in Drosophila Evolution (2006) (229)
Novel information theory-based measures for quantifying incongruence among phylogenetic trees. (2014) (229)
Parallel inactivation of multiple GAL pathway genes and ecological diversification in yeasts. (2004) (192)
Phylogenetic and Transcriptomic Analysis of Chemosensory Receptors in a Pair of Divergent Ant Species Reveals Sex-Specific Signatures of Odor Coding (2012) (181)
Transcriptome profiling of chemosensory appendages in the malaria vector Anopheles gambiae reveals tissue- and sex-specific signatures of odor coding (2011) (174)
Reconstructing the Backbone of the Saccharomycotina Yeast Phylogeny Using Genome-Scale Data (2016) (168)
Non-optimal codon usage is a mechanism to achieve circadian clock conditionality (2013) (164)
A Global Coexpression Network Approach for Connecting Genes to Specialized Metabolic Pathways in Plants (2017) (160)
Benchmarking next-generation transcriptome sequencing for functional and evolutionary genomics. (2009) (160)
The Evolution of Fungal Metabolic Pathways (2014) (151)
Harnessing genomics for evolutionary insights. (2009) (150)
The Evolutionary Imprint of Domestication on Genome Variation and Function of the Filamentous Fungus Aspergillus oryzae (2012) (149)
Drivers of genetic diversity in secondary metabolic gene clusters within a fungal species (2017) (144)
Out of Anatolia: longitudinal gradients in genetic diversity support an eastern origin for a circum‐Mediterranean oak gallwasp Andricus quercustozae (2003) (143)
Remarkably ancient balanced polymorphisms in a multi-locus gene network (2010) (136)
Blood meal-induced changes to antennal transcriptome profiles reveal shifts in odor sensitivities in Anopheles gambiae (2013) (136)
Multiple GAL pathway gene clusters evolved independently and by different mechanisms in fungi (2010) (135)
Recurrent Tissue-Specific mtDNA Mutations Are Common in Humans (2013) (132)
Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets (2017) (126)
The birth, evolution and death of metabolic gene clusters in fungi (2018) (120)
ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference (2020) (118)
Evidence for a high frequency of simultaneous double-nucleotide substitutions. (2000) (114)
EVOLUTIONARY SHIFTS BETWEEN HOST OAK SECTIONS AND HOST‐PLANT ORGANS IN ANDRICUS GALLWASPS (2002) (114)
Chemoreceptor Evolution in Hymenoptera and Its Implications for the Evolution of Eusociality (2015) (114)
Collagen IV and basement membrane at the evolutionary dawn of metazoan tissues (2017) (112)
Conflicting phylogenetic signals at the base of the metazoan tree (2003) (109)
Fungal metabolic gene clusters—caravans traveling across genomes and environments (2015) (108)
A maximum-likelihood analysis of eight phylogenetic markers in gallwasps (Hymenoptera: Cynipidae): implications for insect phylogenetic studies. (2002) (108)
Frequent and widespread parallel evolution of protein sequences. (2008) (108)
Leveraging skewed transcript abundance by RNA-Seq to increase the genomic depth of the tree of life (2010) (106)
Global Transcriptome Changes Underlying Colony Growth in the Opportunistic Human Pathogen Aspergillus fumigatus (2011) (104)
Horizontal Transfer and Death of a Fungal Secondary Metabolic Gene Cluster (2012) (99)
Embracing Uncertainty in Reconstructing Early Animal Evolution (2017) (99)
Complete Bacteriophage Transfer in a Bacterial Endosymbiont (Wolbachia) Determined by Targeted Genome Capture (2011) (95)
Transcriptome-wide analysis of small RNA expression in early zebrafish development. (2012) (95)
Toward a Fully Resolved Fungal Tree of Life. (2020) (94)
Genomics and the making of yeast biodiversity. (2015) (94)
What can comparative genomics tell us about species concepts in the genus Aspergillus? (2007) (93)
The triple helix of collagens – an ancient protein structure that enabled animal multicellularity and tissue evolution (2018) (89)
Differential success in northwards range expansion between ecotypes of the marble gallwasp Andricuskollari: a tale of two lifecycles (2001) (89)
In silico characterization and molecular evolutionary analysis of a novel superfamily of fungal effector proteins. (2012) (89)
Risk factors and outcome of pulmonary aspergillosis in critically ill coronavirus disease 2019 patients—a multinational observational study by the European Confederation of Medical Mycology (2021) (86)
Evaluating Ortholog Prediction Algorithms in a Yeast Model Clade (2011) (85)
Understanding patterns of genetic diversity in the oak gallwasp Biorhiza pallida: demographic history or a Wolbachia selective sweep? (2001) (84)
The function and evolution of the Aspergillus genome. (2013) (82)
The influence of evolutionary history on human health and disease (2021) (82)
Antennal transcriptome profiles of anopheline mosquitoes reveal human host olfactory specialization in Anopheles gambiae (2013) (80)
Gene Essentiality Analyzed by In Vivo Transposon Mutagenesis and Machine Learning in a Stable Haploid Isolate of Candida albicans (2018) (80)
Physical linkage of metabolic genes in fungi is an adaptation against the accumulation of toxic intermediate compounds (2013) (77)
A genome-scale phylogeny of the kingdom Fungi (2021) (76)
A Robust Phylogenomic Time Tree for Biotechnologically and Medically Important Fungi in the Genera Aspergillus and Penicillium (2019) (75)
The Molecular Evolution of the p120-Catenin Subfamily and Its Functional Associations (2010) (75)
Lifecycle closure, lineage sorting, and hybridization revealed in a phylogenetic analysis of European oak gallwasps (Hymenoptera: Cynipidae: Cynipini) using mitochondrial sequence data. (2003) (75)
The molecular origins of multicellular transitions. (2008) (75)
The phylogeographical clade trade: tracing the impact of human‐mediated dispersal on the colonization of northern Europe by the oak gallwasp Andricus kollari (2007) (70)
Computing the Internode Certainty and Related Measures from Partial Gene Trees (2015) (68)
Evolution of a Heavy Metal Homeostasis/Resistance Island Reflects Increasing Copper Stress in Enterobacteria (2016) (67)
Horizontally acquired genes in early-diverging pathogenic fungi enable the use of host nucleosides and nucleotides (2016) (62)
The diversity and evolution of circadian clock proteins in fungi (2010) (62)
Intron insertion as a phylogenetic character: the engrailed homeobox of Strepsiptera does not indicate affinity with Diptera (1999) (60)
Examining the Evolution of the Regulatory Circuit Controlling Secondary Metabolism and Development in the Fungal Genus Aspergillus (2015) (60)
Gestational tissue transcriptomics in term and preterm human pregnancies: a systematic review and meta-analysis (2015) (60)
Eukaryotic Acquisition of a Bacterial Operon (2018) (59)
Evidence for genetic differentiation and variable recombination rates among Dutch populations of the opportunistic human pathogen Aspergillus fumigatus (2012) (58)
Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota (2020) (57)
Phylogenetic Analysis of Protein Sequence Data Using the Randomized Axelerated Maximum Likelihood (RAXML) Program (2011) (57)
Variation and selection on codon usage bias across an entire subphylum (2019) (57)
Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts (2019) (56)
Wolbachia as a speciation agent. (2000) (55)
Evolutionary instability of CUG-Leu in the genetic code of budding yeasts (2018) (55)
Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts (2018) (54)
Investigation of Aspergillus fumigatus biofilm formation by various “omics” approaches (2013) (53)
Rooting the Animal Tree of Life (2020) (51)
Systematic Dissection of the Evolutionarily Conserved WetA Developmental Regulator across a Genus of Filamentous Fungi (2018) (51)
Regulation of Secondary Metabolism by the Velvet Complex Is Temperature-Responsive in Aspergillus (2016) (50)
Evidence for widespread cryptic sexual generations in apparently purely asexual Andricus gallwasps (2007) (50)
Biosynthetic gene clusters and the evolution of fungal chemodiversity. (2020) (50)
Longitudinal range expansion and cryptic eastern species in the western Palaearctic oak gallwasp, Andricus coriarius (2007) (49)
A Genome-Scale Investigation of How Sequence, Function, and Tree-Based Gene Properties Influence Phylogenetic Inference (2016) (48)
The incidence and diversity of Wolbachia in gallwasps (Hymenoptera; Cynipidae) on oak (2002) (47)
Fragmentation of an aflatoxin-like gene cluster in a forest pathogen. (2013) (47)
Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage (2018) (45)
Extensive Copy Number Variation in Fermentation-Related Genes Among Saccharomyces cerevisiae Wine Strains (2017) (45)
The effect of domestication on the fungal proteome. (2009) (44)
The Fumagillin Gene Cluster, an Example of Hundreds of Genes under veA Control in Aspergillus fumigatus (2013) (44)
Functional divergence for every paralog. (2014) (44)
Nutritional Heterogeneity Among Aspergillus fumigatus Strains Has Consequences for Virulence in a Strain- and Host-Dependent Manner (2019) (41)
Extensive loss of cell cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts (2019) (39)
Transcriptome of the adult female malaria mosquito vector Anopheles albimanus (2012) (39)
An LaeA- and BrlA-Dependent Cellular Network Governs Tissue-Specific Secondary Metabolism in the Human Pathogen Aspergillus fumigatus (2018) (39)
Repeated loss of an anciently horizontally transferred gene cluster in Botrytis (2013) (38)
Whole exome sequencing reveals HSPA1L as a genetic risk factor for spontaneous preterm birth (2018) (36)
Characterizing the Pathogenic, Genomic, and Chemical Traits of Aspergillus fischeri, a Close Relative of the Major Human Fungal Pathogen Aspergillus fumigatus (2019) (36)
In Silico Whole Genome Sequencer and Analyzer (iWGS): a Computational Pipeline to Guide the Design and Analysis of de novo Genome Sequencing Studies (2016) (35)
WetA bridges cellular and chemical development in Aspergillus flavus (2017) (35)
Dynamic Evolution of Nitric Oxide Detoxifying Flavohemoglobins, a Family of Single-Protein Metabolic Modules in Bacteria and Eukaryotes. (2016) (35)
Fungal Isocyanide Synthases and Xanthocillin Biosynthesis in Aspergillus fumigatus (2018) (34)
PhyKIT: a broadly applicable UNIX shell toolkit for processing and analyzing phylogenomic data (2021) (34)
Ecology Drives the Distribution of Specialized Tyrosine Metabolism Modules in Fungi (2014) (33)
Comprehensive RNA profiling of villous trophoblast and decidua basalis in pregnancies complicated by preterm birth following intra-amniotic infection. (2016) (33)
Copy Number Variation in Fungi and Its Implications for Wine Yeast Genetic Diversity and Adaptation (2017) (33)
The ASP3 locus in Saccharomyces cerevisiae originated by horizontal gene transfer from Wickerhamomyces. (2012) (32)
Clustering of Two Genes Putatively Involved in Cyanate Detoxification Evolved Recently and Independently in Multiple Fungal Lineages (2015) (30)
Prevention, diagnosis and treatment of high‐throughput sequencing data pathologies (2014) (29)
Rapid Phenotypic and Metabolomic Domestication of Wild Penicillium Molds on Cheese (2019) (29)
Factors driving metabolic diversity in the budding yeast subphylum (2018) (28)
Mapping the Fungal Battlefield: Using in situ Chemistry and Deletion Mutants to Monitor Interspecific Chemical Interactions Between Fungi (2019) (28)
Divergent and Conserved Elements Comprise the Chemoreceptive Repertoire of the Nonblood-Feeding Mosquito Toxorhynchites amboinensis (2014) (28)
Permanent Genetic Resources added to Molecular Ecology Resources Database 1 October 2009–30 November 2009 (2010) (27)
Evolving moldy murderers: Aspergillus section Fumigati as a model for studying the repeated evolution of fungal pathogenicity (2020) (27)
Variation Among Biosynthetic Gene Clusters, Secondary Metabolite Profiles, and Cards of Virulence Across Aspergillus Species (2020) (27)
Functional Characterization of Clinical Isolates of the Opportunistic Fungal Pathogen Aspergillus nidulans (2020) (27)
Unearthing fungal chemodiversity and prospects for drug discovery. (2019) (26)
What is a character (2001) (25)
Multiple Reinventions of Mating-type Switching during Budding Yeast Evolution (2019) (25)
A Bioinformatics Approach for Integrated Transcriptomic and Proteomic Comparative Analyses of Model and Non-sequenced Anopheline Vectors of Human Malaria Parasites* (2012) (25)
Into the wild: new yeast genomes from natural environments and new tools for their analysis. (2020) (24)
Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates (2020) (24)
MybA, a transcription factor involved in conidiation and conidial viability of the human pathogen Aspergillus fumigatus (2017) (23)
Genomics and the Tree of Life (2006) (23)
Genomic and Phenotypic Heterogeneity of Clinical Isolates of the Human Pathogens Aspergillus fumigatus, Aspergillus lentulus, and Aspergillus fumigatiaffinis (2020) (23)
Is preterm birth a human-specific syndrome? (2015) (23)
Quartet-based computations of internode certainty provide robust measures of phylogenetic incongruence. (2020) (23)
Pathogenic Allodiploid Hybrids of Aspergillus Fungi (2020) (22)
Longitudinal patterns in species richness and genetic diversity in European oaks and oak gallwasps (2007) (22)
Comparative and functional characterization of intragenic tandem repeats in 10 Aspergillus genomes. (2008) (22)
HGT is widespread in insects and contributes to male courtship in lepidopterans (2022) (21)
Evolution of the human pathogenic lifestyle in fungi (2022) (20)
PhyloFisher: A phylogenomic package for resolving eukaryotic relationships (2021) (20)
Genomic and phenotypic heterogeneity of clinical isolates of the human pathogens Aspergillus fumigatus, Aspergillus lentulus and Aspergillus fumigatiaffinis (2020) (20)
The genome of the choanoflagellate Monosiga brevicollis and the origins of metazoan multicellularity (2008) (19)
Gliotoxin, a Known Virulence Factor in the Major Human Pathogen Aspergillus fumigatus, Is Also Biosynthesized by Its Nonpathogenic Relative Aspergillus fischeri (2020) (19)
Genomic features and evolution of the conditionally dispensable chromosome in the tangerine pathotype of Alternaria alternata (2017) (19)
Transcriptional Rewiring: The Proof Is in the Eating (2007) (18)
An investigation of irreproducibility in maximum likelihood phylogenetic inference (2020) (18)
The diverse applications of RNA‐seq for functional genomic studies in Aspergillus fumigatus (2012) (17)
Comparing human and macaque placental transcriptomes to disentangle preterm birth pathology from gestational age effects. (2016) (17)
A global co-expression network approach for connecting genes to specialized metabolic pathways in plants (2016) (17)
Aspergillus nidulans Genome and a Comparative Analysis of Genome Evolution in Aspergillus (2007) (16)
From gene-scale to genome-scale phylogenetics: the data flood in, but the challenges remain. (2008) (16)
Mammalian pregnancy (2017) (16)
Transcriptomic, Protein-DNA Interaction, and Metabolomic Studies of VosA, VelB, and WetA in Aspergillus nidulans Asexual Spores (2020) (15)
The Aspergillus fumigatus transcription factor RglT is important for gliotoxin biosynthesis and self-protection, and virulence (2020) (15)
Quartet-based computations of internode certainty provide accurate and robust measures of phylogenetic incongruence (2017) (15)
A robust phylogenomic timetree for biotechnologically and medically important fungi from Aspergillaceae (Eurotiomycetes, Ascomycota) (2018) (14)
Signatures of Recent Positive Selection in Enhancers Across 41 Human Tissues (2019) (14)
Selective base excision repair of DNA damage by the non‐base‐flipping DNA glycosylase AlkC (2018) (14)
Evolution: Different paths to the same end (2006) (14)
in silico Whole Genome Sequencer & Analyzer (iWGS): a computational pipeline to guide the design and analysis of de novo genome sequencing studies (2015) (14)
ggpubfigs: Colorblind-Friendly Color Palettes and ggplot2 Graphic System Extensions for Publication-Quality Scientific Figures (2021) (12)
Dissecting incongruence between concatenation- and quartet-based approaches in phylogenomic data. (2021) (12)
The evolution of the GALactose utilization pathway in budding yeasts. (2021) (12)
A genome-scale phylogeny of Fungi; insights into early evolution, radiations, and the relationship between taxonomy and phylogeny (2020) (12)
The Aspergillus fumigatus Mismatch Repair MSH2 Homolog Is Important for Virulence and Azole Resistance (2019) (12)
Treehouse: a user-friendly application to obtain subtrees from large phylogenies (2019) (12)
Genomic and phenotypic analysis of COVID-19-associated pulmonary aspergillosis isolates of Aspergillus fumigatus (2020) (11)
Orthogonal Method for Double-Bond Placement via Ozone-Induced Dissociation Mass Spectrometry (OzID-MS). (2019) (11)
Developing a theoretical evolutionary framework to solve the mystery of parturition initiation (2020) (11)
Two Different Secondary Metabolism Gene Clusters Occupied the Same Ancestral Locus in Fungal Dermatophytes of the Arthrodermataceae (2012) (11)
Recurrent Loss of abaA, a Master Regulator of Asexual Development in Filamentous Fungi, Correlates with Changes in Genomic and Morphological Traits (2019) (11)
The transformative potential of an integrative approach to pregnancy. (2017) (11)
Putting Pleiotropy and Selection Into Context Defines a New Paradigm for Interpreting Genetic Data (2013) (11)
Regulation of gliotoxin biosynthesis and protection in Aspergillus species (2021) (10)
Chlamydomonas reinhardtii LFO1 Is an IsdG Family Heme Oxygenase (2017) (10)
Genomic and Phenotypic Analysis of COVID-19-Associated Pulmonary Aspergillosis Isolates of Aspergillus fumigatus (2021) (10)
Draft Genome Sequence of the Griseofulvin-Producing Fungus Xylaria flabelliformis Strain G536 (2019) (10)
Signatures of optimal codon usage in metabolic genes inform budding yeast ecology (2021) (10)
Examination of Gene Loss in the DNA Mismatch Repair Pathway and Its Mutational Consequences in a Fungal Phylum (2021) (10)
Lining Up to Avoid Bias (2008) (9)
Inverted formin 2 regulates intracellular trafficking, placentation, and pregnancy outcome (2018) (9)
Variation Among Biosynthetic Gene Clusters, Secondary Metabolite Profiles, and Cards of Virulence Across Aspergillus Species. (2020) (9)
Examination of Signatures of Recent Positive Selection on Genes Involved in Human Sialic Acid Biology (2018) (9)
Accounting for diverse evolutionary forces reveals mosaic patterns of selection on human preterm birth loci (2020) (9)
Aspergillus fumigatus G-Protein Coupled Receptors GprM and GprJ Are Important for the Regulation of the Cell Wall Integrity Pathway, Secondary Metabolite Production, and Virulence (2020) (9)
Repeated horizontal gene transfer of GALactose metabolism genes violates Dollo’s law of irreversible loss (2020) (9)
ClipKIT: a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference (2020) (8)
My Oldest Sister Is a Sea Walnut? (2013) (8)
A Genome-Scale Investigation of Incongruence in Culicidae Mosquitoes (2015) (8)
Genome-wide analysis of Fusarium verticillioides reveals inter-kingdom contribution of horizontal gene transfer to the expansion of metabolism. (2019) (8)
Disentangling biological and analytical factors that give rise to outlier genes in phylogenomic matrices (2020) (8)
GEneSTATION 1.0: a synthetic resource of diverse evolutionary and functional genomic data for studying the evolution of pregnancy-associated tissues and phenotypes (2015) (8)
Wheldone: Characterization of a Unique Scaffold from the Coculture of Aspergillus fischeri and Xylaria flabelliformis (2020) (7)
Enabling precision medicine in neonatology, an integrated repository for preterm birth research (2018) (7)
Structural Biology of the HEAT‐Like Repeat Family of DNA Glycosylases (2018) (7)
Assessing the Genome-Wide Effect of Promoter Region Tandem Repeat Natural Variation on Gene Expression (2012) (7)
Dense phenotyping from electronic health records enables machine learning-based prediction of preterm birth (2020) (7)
Signatures of Recent Positive Selection in Enhancers Across 41 Human Tissues (2019) (7)
An evolutionary genomic approach reveals both conserved and species-specific genetic elements related to human disease in closely related Aspergillus fungi (2021) (6)
Non-productive DNA damage binding by DNA glycosylase-like protein Mag2 from Schizosaccharomyces pombe. (2013) (6)
Correction: The Evolution of Fungal Metabolic Pathways (2015) (6)
An evolutionary genomic approach reveals both conserved and species-specific genetic elements related to human disease in closely related Aspergillus fungi. (2021) (6)
The population genetic consequences of range expansion: oak gall wasps as a model system. (2003) (6)
Immune Regulation in Eutherian Pregnancy: Live Birth Coevolved with Novel Immune Genes and Gene Regulation. (2019) (6)
Genetic effects on the timing of parturition and links to fetal birth weight (2022) (6)
The Impact of Natural Selection on the Evolution and Function of Placentally Expressed Galectins (2018) (6)
Heterogeneity in the transcriptional response of the human pathogen Aspergillus fumigatus to the antifungal agent caspofungin. (2021) (6)
Tree-thinking, molecules and gallwasps : analysing evolutionary patterns in European gallwasps using a molecular phylogenetic approach (2001) (5)
BioKIT: a versatile toolkit for processing and analyzing diverse types of sequence data (2021) (5)
Shared Selective Pressures on Fungal and Human Metabolic Pathways Lead to Divergent yet Analogous Genetic Responses. (2015) (5)
Aspergillus (2013) (5)
Gene Selection and Evolutionary Modeling Affect Phylogenomic Inference of Neuropterida Based on Transcriptome Data (2019) (5)
Recurrent loss of abaA, a master regulator of asexual development in filamentous fungi, correlates with changes in genomic and morphological traits. (2020) (5)
Beyond the Biosynthetic Gene Cluster Paradigm: Genome-Wide Coexpression Networks Connect Clustered and Unclustered Transcription Factors to Secondary Metabolic Pathways (2020) (5)
CTDGFinder: A Novel Homology-Based Algorithm for Identifying Closely Spaced Clusters of Tandemly Duplicated Genes (2017) (5)
Heterogeneity in the transcriptional response of the human pathogen Aspergillus fumigatus to the antifungal agent caspofungin (2021) (5)
Genome-wide association analysis uncovers variants for reproductive variation across dog breeds and links to domestication (2019) (5)
Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus (2022) (5)
Genomics. Genomics and the tree of life. (2006) (4)
orthofisher: a broadly applicable tool for automated gene identification and retrieval (2021) (4)
Draft Genome Sequences of Four Aspergillus Section Fumigati Clinical Strains (2020) (4)
RNAseq in the mosquito maxillary palp: a little antennal RNA goes a long way (2015) (4)
Characterizing the pathogenic, genomic, and chemical traits of Aspergillus fischeri, the closest sequenced relative of the major human fungal pathogen Aspergillus fumigatus (2018) (4)
PhyKIT: a UNIX shell toolkit for processing and analyzing phylogenomic data (2020) (4)
Revised Transcriptome-Based Gene Annotation for Aspergillus flavus Strain NRRL 3357 (2020) (4)
Aspergillus fumigatus Acetate Utilization Impacts Virulence Traits and Pathogenicity (2021) (4)
Feature frequency profile-based phylogenies are inaccurate (2020) (4)
Gliotoxin, a known virulence factor in the major human pathogen Aspergillus fumigatus, is also biosynthesized by the non-pathogenic relative A. fischeri (2019) (3)
Getting it right for the wrong reason (2001) (3)
Integrating Diverse Types of Genomic Data to Identify Genes that Underlie Adverse Pregnancy Phenotypes (2015) (3)
Genome wide association analysis uncovers variants for reproductive variation across dog breeds and links to domestication (2018) (3)
A Bayesian guide to tree felling. (2000) (3)
integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth (2018) (3)
Selfish element wars in a wasp battleground. (2001) (3)
Author response: Collagen IV and basement membrane at the evolutionary dawn of metazoan tissues (2017) (2)
Molecular Evolution and Phylogenetics. By M. Nei and S. Kumar. Oxford University Press. 2000. ISBN: 0-19-513584-9 (hbk); 0-19-513585-7 (pbk). xiv+333 pages. Price: £65 (hbk); £32.50 (pbk). (2001) (2)
Functional variants of the melanocortin-4 receptor associated with the Odontoceti and Mysticeti suborders of cetaceans (2017) (2)
The birth, evolution and death of metabolic gene clusters in fungi (2018) (2)
Future-Proofing Your Microbiology Resource Announcements Genome Assembly for Reproducibility and Clarity (2019) (2)
Correction: Whole exome sequencing reveals HSPA1L as a genetic risk factor for spontaneous preterm birth (2018) (2)
Evaluating Rare Amino Acid Substitutions (RGC_CAMs) in a Yeast Model Clade (2014) (2)
A LaeA- and BrlA-dependent cellular network governs tissue-specific secondary metabolism in the human pathogen Aspergillus fumigatus (2017) (2)
BioKIT: a versatile toolkit for processing and analyzing diverse types of sequence data. (2022) (2)
The power of discussion: Support for women at the fungal Gordon Research Conference. (2018) (2)
Accounting for diverse evolutionary forces reveals the mosaic nature of selection on genomic regions associated with human preterm birth (2019) (2)
Evolutionary biology meets genomics. (2001) (2)
Evidence for loss and adaptive reacquisition of alcoholic fermentation in an early-derived fructophilic yeast lineage (2017) (2)
Genomic and Phenotypic Trait Variation of the Opportunistic Human Pathogen Aspergillus flavus and Its Close Relatives (2022) (2)
Microbiome-associated human genetic variants impact phenome-wide disease risk (2022) (2)
Rapid Phenotypic and Metabolomic Domestication of Wild <italic toggle='yes'>Penicillium</italic> Molds on Cheese (2019) (1)
Aspergillus fumigatus FhdA Transcription Factor Is Important for Mitochondrial Activity and Codon Usage Regulation during the Caspofungin Paradoxical Effect (2022) (1)
Perspective: Systematics in the age of genomics (2016) (1)
COVID-19-Associated Pulmonary Aspergillosis Isolates Are Genomically Diverse but Similar to Each Other in Their Responses to Infection-Relevant Stresses (2022) (1)
Mosaic patterns of selection in genomic regions associated with diverse human traits (2022) (1)
An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function (2021) (1)
Evolution and codon usage bias of mitochondrial and nuclear genomes in Aspergillus section Flavi (2022) (1)
Aspergillus fumigatus acetate utilisation impacts virulence traits and pathogenicity (2021) (1)
Bacteria altering reproduction in gall wasps or what happens if you don't take your antibiotics! (2000) (1)
Contrasting modes of macro and microsynteny evolution in a eukaryotic subphylum (2022) (1)
Examining Signatures of Natural Selection in Antifungal Resistance Genes Across Aspergillus Fungi (2021) (1)
182: Signature placental and kidney-specific transcripts in the urinary misfoldome of women with preeclampsia (PE) (2016) (1)
The dawn of relaxed phylogenetics (2023) (1)
Transcriptome of the adult female malaria mosquito vector Anopheles albimanus (2012) (1)
EVOLUTIONARY SHIFTS BETWEEN HOST OAK SECTIONS AND HOST-PLANT ORGANS IN ANDRICUS GALLWASPS (2002) (1)
Author Correction: Enabling precision medicine in neonatology, an integrated repository for preterm birth research (2018) (1)
OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees (2021) (1)
Resistance-Guided Mining of Bacterial Genotoxins Defines a Family of DNA Glycosylases (2021) (1)
274: Next generation sequencing (RNA-seq) of the human decidual and placental villous transcriptomes in intra-amniotic infection (IAI) induced preterm birth (PTB) (2015) (0)
Codon optimization, not gene content, predicts XYLose metabolism in budding yeasts (2022) (0)
Extensive sequence divergence of non-coding regions between Aspergillus fumigatus, a major fungal pathogen of humans, and its relatives (2021) (0)
Correction: Variation and selection on codon usage bias across an entire subphylum (2021) (0)
Lack of universal mutational biases in a fungal phylum (2022) (0)
Author response: Inverted formin 2 regulates intracellular trafficking, placentation, and pregnancy outcome (2017) (0)
The ImpactofNatural Selectionon theEvolutionandFunction of Placentally Expressed Galectins (2019) (0)
Genomic Evolution of the Ascomycete Yeasts (2015) (0)
Accelerated fungal evolution with metabolic gene clusters (2012) (0)
A global phylogenomic analysis of the shiitake genus Lentinula. (2023) (0)
A comprehensive map of hotspots of de novo telomere addition in Saccharomyces cerevisiae. (2023) (0)
Genomic and phenotypic trait variation of the opportunistic human pathogen Aspergillus flavus and its non-pathogenic close relatives (2022) (0)
115: A comprehensive analysis of the human decidual and placental villous transcriptomes in women with preeclampsia (PE) using next generation sequencing (RNA-seq) (2015) (0)
Extensive Non-Coding Sequence Divergence Between the Major Human Pathogen Aspergillus fumigatus and its Relatives (2022) (0)
The gene family that cheats Mendel (2017) (0)
Signatures of optimal codon usage predict metabolic ecology in budding yeasts (2020) (0)
Functional variants of the melanocortin-4 receptor associated with the Odontoceti and Mysticeti suborders of cetaceans (2017) (0)
Draft Genome Sequence of an Aspergillus Strain Isolated from a Honey Bee Pupa (2022) (0)
Whole exome sequencing reveals HSPA1L as a genetic risk factor for spontaneous preterm (2018) (0)
Fungal Isocyanide Synthases and Xanthocillin Biosynthesis in <named-content content-type='genus-species'>Aspergillus fumigatus</named-content> (2018) (0)
Biosynthetic gene clusters, secondary metabolite profiles, and cards of virulence in the closest nonpathogenic relatives of Aspergillus fumigatus (2020) (0)
Genes involved in human sialic acid biology do not harbor signatures of recent positive selection (2017) (0)
Antennal transcriptome profiles of anopheline mosquitoes reveal human host olfactory specialization in Anopheles gambiae (2013) (0)
A novel homology-based algorithm for the identification of physically linked clusters of paralogous genes (2016) (0)
What determines the direction of evolutionary change?: Biased Embryos and Evolution By Wallace Arthur. Cambridge University Press, 2004. £50.00/£18.95 hbk/pbk (252 pages) ISBN 0 52183 3825/0 52154 1611 (2004) (0)
ComputingtheInternodeCertainty andRelatedMeasuresfrom Partial Gene Trees (2016) (0)
Sexual selection driving spider diversification (2002) (0)
Genetic Data Putting Pleiotropy and Selection Into Context Defines a New Paradigm for Interpreting (2013) (0)
NEW TENURED AND TENURE-TRACK FACULTY, COLLEGE OF ARTS AND SCIENCE, 2007~2008 ACADEMIC YEAR Program in African American and Diaspora Studies (2008) (0)
Gestational tissue transcriptomics in term and preterm human pregnancies: a systematic review and meta-analysis (2015) (0)
The genomic geography and evolution of clusters of tandemly duplicated genes in the human and mammal genomes (2018) (0)
Best Practices for Successfully Writing and Publishing a Genome Announcement in Microbiology Resource Announcements (2020) (0)
Rapid phenotypic and metabolomic domestication of wild Penicillium 1 molds on cheese 2 3 (2019) (0)
How has horizontal gene transfer shaped the evolution of insect genomes? (2022) (0)
Editorial overview: Genomes and evolution: "Seq-ing" answers in life's genomes. (2015) (0)
Treehouse: a user-friendly application to obtain subtrees from large phylogenies (2019) (0)
Conservation and Divergence in the Asexual Sporulation Gene Regulatory Network Across a Genus of Filamentous Fungi (2018) (0)
A comprehensive map of hotspots of de novo telomere addition in Saccharomyces cerevisiae (2023) (0)
Correction: Heredity: The gene family that cheats Mendel (2017) (0)
Supplemental Science 2012 (2015) (0)
Factors driving metabolic diversity in the budding yeast subphylum (2018) (0)
P Preterm Birth (2018) (0)
Supplemental Material for Moon et al., 2019 (2019) (0)
Evolutionary instability of CUG-Leu in the genetic code of budding yeasts (2018) (0)
Radiations Compressed in Time Animal Evolution and the Molecular Signature of (2007) (0)
Author Correction: Enabling precision medicine in neonatology, an integrated repository for preterm birth research (2018) (0)
Preterm Birth (2021) (0)
Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus (2022) (0)
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi (2023) (0)
integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth (2018) (0)
GSEL: a fast, flexible python package for detecting signatures of diverse evolutionary forces on genomic regions (2023) (0)

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