Mark A. Ragan

Q: What Schools Are Affiliated With Mark A. Ragan

Mark A. Ragan is affiliated with the following schools: University of California, Berkeley, University of Queensland, University of Victoria, Stanford University

Mark A. Ragan's AcademicInfluence.com Rankings

Mark A. Ragan

Computer Science

#6066

World Rank

#6396

Historical Rank

Computational Linguistics

#972

World Rank

#986

Historical Rank

Machine Learning

#1842

World Rank

#1866

Historical Rank

Artificial Intelligence

#2092

World Rank

#2127

Historical Rank

computer-science Degrees

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Computer Science

Mark A. Ragan's Degrees

PhD Computer Science Stanford University
Masters Computer Science University of California, Berkeley

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Mark A. Ragan'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

Chytridiomycosis causes amphibian mortality associated with population declines in the rain forests of Australia and Central America. (1998) (1874)
The complete genome of the crenarchaeon Sulfolobus solfataricus P2 (2001) (808)
Phlorotannins, brown algal polyphenols (1986) (585)
Highways of gene sharing in prokaryotes. (2005) (510)
Phylogenetic inference based on matrix representation of trees. (1992) (497)
Identification of domoic acid, a neuroexcitatory amino acid, in toxic mussels from eastern Prince Edward Island (1989) (421)
Visualization of image data from cells to organisms (2010) (271)
Dynamics of Genome Rearrangement in Bacterial Populations (2008) (221)
A molecular phylogeny of the marine red algae (Rhodophyta) based on the nuclear small-subunit rRNA gene. (1994) (212)
Evolution of gene function and regulatory control after whole-genome duplication: comparative analyses in vertebrates. (2009) (193)
On surrogate methods for detecting lateral gene transfer. (2001) (190)
A novel clade of protistan parasites near the animal-fungal divergence. (1996) (179)
Evolutionary conservation of a core root microbiome across plant phyla along a tropical soil chronosequence (2017) (178)
Detection of lateral gene transfer among microbial genomes. (2001) (169)
Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database (2016) (161)
Nitrogen fertilizer dose alters fungal communities in sugarcane soil and rhizosphere (2015) (158)
Lateral genetic transfer and the construction of genetic exchange communities. (2011) (157)
Supervised, semi-supervised and unsupervised inference of gene regulatory networks (2013) (156)
Next-generation phylogenomics (2013) (152)
The mammalian PYHIN gene family: Phylogeny, evolution and expression (2012) (150)
Gene regulatory network inference: evaluation and application to ovarian cancer allows the prioritization of drug targets (2012) (142)
Quantitative studies on brown algal phenols. II. Seasonal variation in polyphenol content of Ascophyllum nodosum (L.) Le Jol. and Fucus vesiculosus (L.) (1978) (140)
Microbial genescapes: phyletic and functional patterns of ORF distribution among prokaryotes. (1998) (140)
The core root microbiome of sugarcanes cultivated under varying nitrogen fertilizer application. (2016) (137)
Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis (2018) (133)
Inferring Genome Trees by Using a Filter To Eliminate Phylogenetically Discordant Sequences and a Distance Matrix Based on Mean Normalized BLASTP Scores (2002) (125)
A genomic view of the reef-building coral Porites lutea and its microbial symbionts (2019) (120)
Chelation of divalent metal ions by brown algal polyphenols (1979) (111)
Trees and networks before and after Darwin (2009) (109)
Identification of human haploinsufficient genes and their genomic proximity to segmental duplications (2008) (109)
A Biochemical Phylogeny of the Protists (1979) (107)
Molecular Epidemiology of Clinical Cryptococcus neoformans Strains from India (2005) (99)
A genomic survey of the fish parasite Spironucleus salmonicida indicates genomic plasticity among diplomonads and significant lateral gene transfer in eukaryote genome evolution (2007) (95)
Do different surrogate methods detect lateral genetic transfer events of different relative ages? (2006) (92)
Lateral genetic transfer: open issues (2009) (91)
Is Multiple-Sequence Alignment Required for Accurate Inference of Phylogeny? (2007) (91)
Phylogenetic relationships in the Gracilariales (Rhodophyta) as determined by 18S rDNA sequences (1992) (90)
Physodes and the Phenolic Compounds of Brown Algae. Composition and Significance of Physodes in vivo (1976) (90)
Protein contact prediction using patterns of correlation (2004) (87)
The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome (2016) (86)
Organizational characteristics and information content of an archaeal genome: 156kb of sequence from Sulfolobus solfataricus P2 (1996) (86)
Research resource: nuclear receptors as transcriptome: discriminant and prognostic value in breast cancer. (2013) (85)
A preliminary investigation of the order Bangiales (Bangiophycidae, Rhodophyta) based on sequences of nuclear small‐subunit ribosomal RNA genes (1995) (84)
Matrix representation in reconstructing phylogenetic relationships among the eukaryotes. (1992) (81)
A new species of Burkholderia isolated from sugarcane roots promotes plant growth (2013) (81)
Quantitative Prediction of miRNA-mRNA Interaction Based on Equilibrium Concentrations (2011) (81)
Annotated genes and nonannotated genomes: cross‐species use of Gene Ontology in ecology and evolution research (2013) (80)
The use of concept maps during knowledge elicitation in ontology development processes – the nutrigenomics use case (2006) (77)
Phylogenetic and molecular characterization of a 23S rRNA gene positions the genus Campylobacter in the epsilon subdivision of the Proteobacteria and shows that the presence of transcribed spacers is common in Campylobacter spp (1994) (74)
A fine-scale dissection of the DNA double-strand break repair machinery and its implications for breast cancer therapy (2014) (74)
Protein-protein interaction as a predictor of subcellular location (2009) (73)
Gene Ontology-driven inference of protein-protein interactions using inducers (2012) (71)
Are red algae plants (1995) (71)
The MRP Method (2004) (69)
Crosstalk between sugarcane and a plant-growth promoting Burkholderia species (2016) (69)
Quantitative studies on brown algal phenols. I. Estimation of absolute polyphenol content of Ascophyllum nodosum (L.) Le Jol. and Fucus vesiculosus (L.) (1977) (69)
Inferring phylogenies of evolving sequences without multiple sequence alignment (2014) (69)
Systematic tracking of dysregulated modules identifies novel genes in cancer (2013) (67)
Are Protein Domains Modules of Lateral Genetic Transfer? (2009) (66)
Constructing multigenome views of whole microbial genomes. (1998) (64)
Physodes and the phenolic compounds of brown algae. Isolation and characterization of phloroglucinol polymers from Fucus vesiculosus (L.) (1976) (62)
Searching for convergence in phylogenetic Markov chain Monte Carlo. (2006) (62)
Lateral Transfer of Genes and Gene Fragments in Prokaryotes (2009) (62)
Alignment-free inference of hierarchical and reticulate phylogenomic relationships (2017) (61)
Lateral Transfer of Genes and Gene Fragments in Staphylococcus Extends beyond Mobile Elements (2011) (60)
The ReFuGe 2020 Consortium—using “omics” approaches to explore the adaptability and resilience of coral holobionts to environmental change (2015) (60)
Evolution of Biochemical Pathways: Evidence From Comparative Biochemistry (1980) (59)
Phenol sulfate esters: ultraviolet, infrared, 1H and 13C nuclear magnetic resonance spectroscopic investigation (1978) (59)
Completing the sequence of the Sulfolobus solfataricus P2 genome (1998) (58)
Alignment-free microbial phylogenomics under scenarios of sequence divergence, genome rearrangement and lateral genetic transfer (2016) (58)
Quantitative studies on brown algal phenols. III. Light-mediated exudation of polyphenols from Ascophyllum nodosum (L.) Le Jol (1979) (58)
Molecular relationships among the Gracilariaceae (Rhodophyta): further observations on some undetermined species (1994) (56)
A hybrid clustering approach to recognition of protein families in 114 microbial genomes (2004) (54)
Breast cancer classification: linking molecular mechanisms to disease prognosis (2015) (51)
Variant forms of a group I intron in nuclear small-subunit rRNA genes of the marine red alga Porphyra spiralis var. amplifolia. (1994) (51)
Pattern-Based Phylogenetic Distance Estimation and Tree Reconstruction (2006) (51)
Detecting recombination in evolving nucleotide sequences (2006) (50)
Inferring synthetic lethal interactions from mutual exclusivity of genetic events in cancer (2015) (49)
Evolutionary Dynamics of Small RNAs in 27 Escherichia coli and Shigella Genomes (2012) (49)
Phylogenetic Supertrees (2004) (48)
Reply to A. G. Rodrigo's "A Comment on Baum's Method for Combining Phylogenetic Trees" (1993) (47)
Phenolic compounds in brown and red algae (1978) (47)
Prototheca richardsi, a pathogen of anuran larvae, is related to a clade of protistan parasites near the animal-fungal divergence. (1999) (45)
Protistan parasite QPX of hard-shell clam Mercenaria mercenaria is a member of Labyrinthulomycota. (2000) (45)
Whole-genome sequence of the bovine blood fluke Schistosoma bovis supports interspecific hybridization with S. haematobium (2019) (44)
Bayesian and maximum likelihood phylogenetic analyses of protein sequence data under relative branch-length differences and model violation (2005) (41)
The network of life: genome beginnings and evolution (2009) (41)
Genomes of the dinoflagellate Polarella glacialis encode tandemly repeated single-exon genes with adaptive functions (2020) (41)
Are rRNA sequence comparisons the Rosetta stone of phylogenetics? (1986) (41)
The 16S-like, 5.8S and 23S-like rRNAs of the two varieties of Cryptococcus neoformans: sequence, secondary structure, phylogenetic analysis and restriction fragment polymorphisms. (1994) (40)
Workflows in bioinformatics: meta-analysis and prototype implementation of a workflow generator (2005) (39)
Natural chelators in sea water: Detoxification of Zn2+ by brown algal polyphenols (1980) (38)
Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium (2021) (37)
Mineralocorticoid receptors: evolutionary and pathophysiological considerations. (2011) (37)
PHYLOGENETIC RELATIONSHIPS OF SPECIES OF UNCERTAIN TAXONOMIC POSITION WITHIN THE ACROCHAETIALES‐PALMARIALES COMPLEX (RHODOPHYTA): INFERENCES FROM PHENOTYPIC AND 18S rDNA SEQUENCE DATA1 (1995) (36)
Distributional profiles of homologous open reading frames among bacterial phyla: implications for vertical and lateral transmission. (2002) (35)
Expressed sequence tags (ESTs) from the marine red alga Gracilaria gracilis (2004) (35)
The Lobster Parasite Anophryoides haemophila (Scuticociliatida: Orchitophryidae): Nuclear 18S rDNA Sequence, Phylogeny and Detection Using Oligonucleotide Primers (1996) (35)
Automatic, context-specific generation of Gene Ontology slims (2010) (35)
Whole-genome sequence of the oriental lung fluke Paragonimus westermani (2018) (34)
Core genes in diverse dinoflagellate lineages include a wealth of conserved dark genes with unknown functions (2018) (34)
Nucleotide sequences of 18S ribosomal RNA genes from the red algae Gracilaria tikvahiae McLachlan, Gracilaria verrucosa (Hudson) Papenfuss and Gracilariopsis sp (1990) (34)
The 5S rRNA and the rRNA intergenic spacer of the two varieties of Cryptococcus neoformans. (1995) (33)
A novel alignment-free method for detection of lateral genetic transfer based on TF-IDF (2016) (33)
Detecting lateral genetic transfer : a phylogenetic approach. (2008) (33)
Microbial phylogenomics: Branching out (2003) (32)
Signatures of adaptation and symbiosis in genomes and transcriptomes of Symbiodinium (2017) (32)
Phylogeny rather than ecology or lifestyle biases the construction of Escherichia coli–Shigella genetic exchange communities (2012) (32)
Genome Evolution of Coral Reef Symbionts as Intracellular Residents. (2019) (32)
Whole-genome sequencing reveals clinically relevant insights into the aetiology of familial breast cancers (2019) (32)
Yeast as a Biofertilizer Alters Plant Growth and Morphology (2014) (31)
Deciphering the nature of the coral–Chromera association (2018) (31)
The high molecular weight polyphloroglucinols of the marine brown alga Fucusvesiculosus L.: degradative analysis (1985) (31)
Palmitoylation: a protein S-acylation with implications for breast cancer (2016) (30)
Advanced computing for systems biology (2006) (30)
Chemical constituents of seaweeds (1981) (30)
Transcriptome-Wide Prediction of miRNA Targets in Human and Mouse Using FASTH (2009) (29)
k-mer Similarity, Networks of Microbial Genomes, and Taxonomic Rank (2018) (29)
Connected Coloring Completion for General Graphs: Algorithms and Complexity (2007) (29)
Whole-genome sequencing reveals clinically relevant insights into the aetiology of familial breast cancers. (2019) (28)
Phylogenetic position and ultrastructure of two Dermocystidium species (Ichthyosporea) from the common perch (Perca fluviatilis) (2003) (28)
An evaluation of DNA-damage response and cell-cycle pathways for breast cancer classification (2015) (27)
Gallotannins of the freshwater green alga Spirogyra sp. (1985) (27)
Ichthyophonus irregularis sp. nov. from the yellowtail flounder Limanda ferruginea from the Nova Scotia shelf. (2000) (26)
The high molecular weight polyphloroglucinols of the marine brown alga Fucusvesiculosus L. 1H and 13C nuclear magnetic resonance spectroscopy (1985) (26)
Rewiring the dynamic interactome. (2012) (26)
Fucus ‘lignin’: A reassessment (1984) (25)
Characterizing cancer subtypes as attractors of Hopfield networks (2014) (25)
Within-species lateral genetic transfer and the evolution of transcriptional regulation in Escherichia coli and Shigella (2011) (25)
18S RIBOSOMAL DNA SEQUENCES INDICATE A MONOPHYLETIC ORIGIN OF CHAROPHYCEAE 1 (1994) (25)
Morphological stasis masks ecologically divergent coral species on tropical reefs (2021) (25)
cDNA cloning and characterization of the nuclear gene encoding chloroplast glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa (1993) (25)
Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts (2020) (25)
Functional implications of the emergence of alternative splicing in hnRNP A/B transcripts. (2010) (25)
Nucleotide sequence of the 18S ribosomal RNA genes from the marine dinoflagellate Alexandrium tamarense (Gonyaulacales, Dinophyta) (1992) (24)
A word-oriented approach to alignment validation (2005) (24)
Are Ichthyosporea animals or fungi? Bayesian phylogenetic analysis of elongation factor 1alpha of Ichthyophonus irregularis. (2003) (24)
Quantitative studies on brown algal phenols IV. Ultraviolet spectrophotometry of extracted polyphenols and implications for measuring dissolved organic matter in sea water (1980) (24)
An archaebacterial homolog of pelota, a meiotic cell division protein in eukaryotes. (1996) (23)
Untangling hybrid phylogenetic signals: horizontal gene transfer and artifacts of phylogenetic reconstruction. (2009) (23)
The metastasis suppressor RARRES3 as an endogenous inhibitor of the immunoproteasome expression in breast cancer cells (2017) (22)
Understanding the functional impact of copy number alterations in breast cancer using a network modeling approach. (2016) (22)
Recapitulating phylogenies using k-mers: from trees to networks (2016) (21)
Quadratic Kernelization for Convex Recoloring of Trees (2007) (21)
A visual framework for sequence analysis using n-grams and spectral rearrangement (2010) (21)
mCOPA: analysis of heterogeneous features in cancer expression data (2012) (20)
High-molecular-weight phloroglucinol-based tannins from brown algae: Structural variants (2004) (19)
A Semantic Web Ontology for Small Molecules and Their Biological Targets (2010) (19)
Microbial genescapes: a prokaryotic view of the yeast genome. (1998) (19)
MACHOS: Markov clusters of homologous subsequences (2008) (19)
Evolution and Controllability of Cancer Networks: A Boolean Perspective (2013) (19)
The Sulfolobus solfataricus P2 genome project (1996) (19)
Personalised pathway analysis reveals association between DNA repair pathway dysregulation and chromosomal instability in sporadic breast cancer (2016) (18)
Not just a colourful metaphor: modelling the landscape of cellular development using Hopfield networks (2016) (18)
Chemical constituents of the physodes of brown algae. Characterization by 1H and 13C nuclear magnetic resonance spectroscopy of oligomers of phloroglucinol from Fucus vesiculosus (L.) (1977) (18)
Cloning and characterization of a nuclear gene encoding a starch-branching enzyme from the marine red alga Gracilaria gracilis (1998) (18)
Towards the mammalian interactome: Inference of a core mammalian interaction set in mouse (2009) (18)
A two-phase strategy for detecting recombination in nucleotide sequences (2007) (18)
Ribosomal RNA and the major lines of evolution: a perspective. (1988) (18)
Visualization of image data from cells to organisms (2010) (18)
Modeling the Attractor Landscape of Disease Progression: a Network-Based Approach (2017) (18)
A Novel Heuristic for Local Multiple Alignment of Interspersed DNA Repeats (2009) (17)
The nuclear 18S ribosomal RNA gene of the red alga Hildenbrandia rubra contains a group I intron. (1993) (17)
Characterization of a galactose-1-phosphate uridylyltransferase gene from the marine red alga Gracilaria gracilis (1998) (16)
Faculty Opinions recommendation of Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. (2013) (16)
Robust Inference of Genetic Exchange Communities from Microbial Genomes Using TF-IDF (2017) (16)
TOWARDS COORDINATED INTERNATIONAL SUPPORT OF CORE DATA RESOURCES FOR THE LIFE SCIENCES (2017) (16)
Automatic selection of reference taxa for protein-protein interaction prediction with phylogenetic profiling (2012) (15)
A third kingdom of eukaryotic life: History of an idea - ISEP president's address (1997) (15)
PhySortR: a fast, flexible tool for sorting phylogenetic trees in R (2016) (15)
Exploring lateral genetic transfer among microbial genomes using TF-IDF (2016) (15)
Widespread Distribution of Sulfated Polyphenols in Brown Algae (1979) (14)
IllouraTM: a software tool for analysis, visualization and semantic querying of cellular and other spatial biological data (2009) (14)
Reconciling the many faces of lateral gene transfer - Response from Ragan (2002) (13)
Characterization of the polyubiquitin gene in the marine red alga Gracilaria verrucosa. (1995) (13)
Gene content and organization of a 281-kbp contig from the genome of the extremely thermophilic archaeon, Sulfolobus solfataricus P2. (2000) (13)
Information Integration in Molecular Bioscience (2005) (12)
Cloning and characterization of the nuclear gene encoding plastid glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa (2004) (12)
Paired-ion reversed-phase high-performance liquid chromatography of phenol sulfates in synthetic mixtures, algal extracts and urine. (1979) (12)
Oligomeric polyphloroglucinols from Fucus vesiculosus: Photoplate mass spectrometric investigation (1982) (12)
Characterization of the nuclear gene encoding mitochondrial aconitase in the marine red alga Gracilaria verrucosa (1995) (11)
On the delineation and higher-level classification of algae (1998) (11)
Brown algal polyphenols: synthesis of "fucophlorethol A" octamethyl ether (2,2',4,6,6'-pentamethoxy-4'-(2,4,6-trimethoxyphenoxy)biphenyl) (1985) (11)
Biological Intuition in Alignment-Free Methods: Response to Posada (2013) (11)
Relationships among Eucheuma denticulatum, Eucheuma isiforme and Kappaphycus alvarezii (Gigartinales, Rhodophyta) based on nuclear ssu-rRNA gene sequences (1995) (11)
Eleventh International Seaweed Symposium (1984) (11)
Signatures of selection in the coral holobiont reveal complex adaptations to inshore environments driven by Holocene climate change (2020) (11)
12 – A Biochemical Phylogeny (1978) (10)
An efficient parallel implementation of Markov clustering algorithm for large-scale protein-protein interaction networks that uses MPI (2009) (10)
INsPeCT: INtegrative Platform for Cancer Transcriptomics (2014) (10)
Cloning and characterization of the nuclear gene and cDNAs for triosephosphate isomerase of the marine red alga Gracilaria verrucosa (2004) (10)
1,2,3,5-tetrahydroxybenzene 2,5-disulfate ester: The “phenolic precursor” in gelbstoff-forming exudates from the marine brown alga Ascophyllum nodosum (L.) Lejol. (1978) (10)
Cognitive support for an argumentative structure during the ontology development process (2006) (10)
Clustering evolving proteins into homologous families (2013) (9)
Integrating Multi-omics Data to Dissect Mechanisms of DNA repair Dysregulation in Breast Cancer (2016) (9)
Darwin's Pictures: Views of Evolutionary Theory, 1837-1874 (2011) (9)
Biochemical pathways and the phylogeny of the eukaryotes. (1989) (8)
Making Phylogenetic Sense of Biochemical and Morphological Diversity Among the Protists (1991) (8)
Molecular phylogenetics before sequences (2014) (7)
Bioactivities in marine genera of Atlantic Canada: The unexplored potential (1984) (7)
Kernelization for Convex Recoloring (2006) (7)
Complex-based analysis of dysregulated cellular processes in cancer (2014) (7)
Evolution and Controllability of CancerNetworks: A Boolean Perspective (2013) (7)
L-3,4-dihydroxyphenylalanine-3-sulfate from the brown alga, Ascophyllum nodosum (1984) (6)
The 18S rRNA gene sequences of four commercially important seaweeds (2004) (6)
Visualization of image data from cells to (2010) (6)
Seevolution: visualizing chromosome evolution (2009) (6)
Extracting reaction networks from databases–opening Pandora’s box (2013) (6)
Understanding cellular function and disease with comparative pathway analysis (2013) (6)
RMaNI: Regulatory Module Network Inference framework (2013) (6)
Cryptic diversity masks ecologically distinct coral species on tropical reefs (2020) (6)
Twelfth International Seaweed Symposium (1987) (6)
Symbiodinium genomes reveal adaptive evolution of functions related to symbiosis (2017) (6)
Variant forms of a self-splicing group i introns in nuclear small-subunit rrna genes (18s rdna) of the marine red alga porphyra spiralis var. Amplifolia (1994) (5)
Characterization of the UDP-glucose pyrophosphorylase gene from the marine red alga Gracilaria gracilis (2004) (5)
Publisher Correction: Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis (2018) (5)
Genome-Scale Computational Biology and Bioinformatics in Australia (2008) (5)
The use of conceptual maps for two ontology developments: nutrigenomics, and a management system for genealogies. (2005) (5)
Sequencing the Genome of Sulfolobus solfataricus P2 (1998) (5)
2 – Biochemistry and Evolution (1978) (4)
Nuclear-encoded protein-coding genes of the agarophyte Gracilaria verrucosa (Gracilariales, Rhodophyta) (1996) (4)
Integrating Hierarchical Controlled Vocabularies With OWL Ontology: A Case Study from the Domain of Molecular Interactions (2008) (4)
Position Paper for Semantic Web Life Sciences Workshop (2004) (4)
Structural rearrangements drive extensive genome divergence between symbiotic and free-living Symbiodinium (2019) (4)
Genome-powered classification of microbial eukaryotes: focus on coral algal symbionts. (2022) (4)
The nuclear gene and cDNAs encoding cytosolic glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa: cloning, characterization and phylogenetic analysis (2004) (4)
Kernelization for convex recoloring of trees (2006) (4)
Erratum to: Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database (2017) (4)
Biotechnology potential for hoshi-nori production (1990) (3)
Correction: Transcriptome-Wide Prediction of miRNA Targets in Human and Mouse Using FASTH (2009) (3)
Genomes of Symbiodiniaceae reveal extensive sequence divergence but conserved functions at family and genus levels (2019) (3)
Scaling Up the Phylogenetic Detection of Lateral Gene Transfer Events. (2017) (3)
Polarella glacialis genomes encode tandem repeats of single-exon genes with functions critical to adaptation of dinoflagellates (2019) (3)
Comparative transcriptomic analyses of Chromera and Symbiodiniaceae. (2020) (3)
A Parallel Plasma Membrane Simulation (2009) (2)
More bright ideas (1986) (2)
Net Community Production in a Productive Coastal Ocean From an Autonomous Buoyancy‐Driven Glider (2019) (2)
Eleventh International Seaweed Symposium : proceedings of the Eleventh International Seaweed Symposium, held in Qingdao, People's Republic of China, June 19-25, 1983 (1984) (2)
Advanced computing for systems (2006) (2)
Advanced computing for systems (2006) (2)
Gapped Extension for Local Multiple Alignment of Interspersed DNA Repeats (2008) (2)
Thinking laterally about genomes. (2009) (2)
Genomics and evolution of microbial eukaryotes (2008) (2)
Quantitative Modelling of the Waddington Epigenetic Landscape. (2019) (2)
Recapitulating phylogenies using k-mers: from trees to networks. (2016) (2)
A two-phase approach for detecting recombination in nucleotide sequences (2007) (1)
The mammalian PYHIN gene family: Phylogeny, evolution and expression (2012) (1)
Computing Pathways to Systems Biology: Key Contributions of Computational Methods in Pathway Identification (2013) (1)
Automated Inference Pipeline for Assessment of Lateral Gener Transfer among Microbial Genomes (2003) (1)
ARC CENTER IN BIOINFORMATICS (2006) (1)
Automatic, context-specific generation of Gene (2010) (1)
143 Prokaryote genomes (2016) (1)
Large-scale detection of recombination in nucleotide sequences (2008) (1)
2‐Nitrosofluorene and N‐hydroxy‐2‐aminofluorene react with the ubiquinone‐reduction center (center N) of the mitochondrial cytochrome bc1 complex (2003) (1)
Genome assemblies and the associated annotations for seven Symbiodinium isolates (2021) (1)
RMaNI: Regulatory Module Network Inference framework (2013) (1)
Gene regulatory network inference: evaluation and application to ovarian cancer allows the prioritization of drug targets (2012) (1)
Clustering evolving proteins into homologous families (2013) (1)
Lateral Genetic Transfer and Cellular Networks (2013) (1)
Automating the Search for Lateral Gene Transfer (2005) (1)
Alignment-free network of 143 Prokaryote genomes (2016) (1)
Units Of Genetic Transfer In Prokaryotes (2007) (1)
Protein domains as units of genetic transfer (2007) (1)
Genome phylogenies based on the mean normalized BLAST score (2003) (0)
K-mer similarity, networks of microbial genomes and taxonomic rank (2017) (0)
10 – Metabolites: IV (1978) (0)
Plant growth promoting rhizobacteria (PGPR) for use in horticulture. (2014) (0)
In memoriam: Jack Lamont McLachlan (2012) (0)
13 – Conclusions and Speculations (1978) (0)
Parallel Markov Clustering for PPI networks using MPI 1 Parallel Markov Clustering for Large-scale Protein-Protein Interaction Networks using MPI (2008) (0)
The Sulfolobus solfataricus P2 genome project (vol 389, pg 88, 1996) (1996) (0)
Lateral genetic transferand the constructionofgenetic exchange communities (2011) (0)
11 – Miscellaneous Simple Molecules (1978) (0)
4 – Nucleic Acids (1978) (0)
A Fast, Flexible Tool for Sorting Phylogenetic Trees (2016) (0)
Evolutionary conservation of a core root microbiome across plant phyla along a tropical soil chronosequence (2017) (0)
Selection on genome arrangement in a recently emerged bacterial pathogen (2007) (0)
JPIPE, a pipeline module for JEMBOSS (2003) (0)
Publisher Correction: Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis (2018) (0)
The Sulfolobus Genome Project: Process and Progress (1996) (0)
Oh Father Where Art Thou? Comparing Different Ways of Finding Recombination Events (2004) (0)
The significance of whole-genome duplications for vertebrate evolution (2009) (0)
7 – Metabolites: I (1978) (0)
Phylogenetic andMolecular Characterization ofa 23SrRNA GenePositions theGenusCampylobacter intheEpsilon Subdivision oftheProteobacteria andShowsthatthePresence ofTranscribed Spacers IsCommoninCampylobacter spp.t (1994) (0)
Identifying genetic vulnerabilities in cancers driven by defects in DNA-damage response (2016) (0)
Faculty Opinions recommendation of Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences. (2013) (0)
Evaluation of dye-based assay for mannuronan 5′-epimerase (1990) (0)
6 – Proteins: Enzymes (1978) (0)
Chemotaxonomy in the algae: a viewpoint (1980) (0)
Core genes in diverse dinoflagellate lineages include a wealth of conserved dark genes with unknown functions (2018) (0)
Genetic transfer in Staphylococcus: a case study of 13 genomes (2007) (0)
Aliases and catching errors AOF 2 is an alias for KDM 1 A . A search for KDM 1 A works fine . A search for AOF 2 using the search box on the website or using returns a blank (2019) (0)
Evaluation and expression of “drug-likeness” of small molecules using Semantic Web technologies. (2008) (0)
Symbiodinium genomes reveal positive selection of symbiosis-related genes (2017) (0)
Bioinformatics (2019) (0)
Improved Kernelization and Linear Time FPT for Convex Recoloring of Trees ? (0)
Twelfth International Seaweed Symposium : proceedings of the Twelfth International Seaweed Symposium, held in San Paulo, Brazil, July 27-August 1, 1986 (1987) (0)
Postgraduate bioinformatics education initiatives in Australia (2004) (0)
Faculty Opinions recommendation of No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini. (2016) (0)
Deciphering the nature of the coral–Chromera association (2018) (0)
A ﬁne-scale dissection of the DNA double-strand break repair machinery and its implications for breast cancer therapy (2014) (0)
Faculty of 1000 evaluation for Coming full circle-from endless complexity to simplicity and back again. (2015) (0)
Bioinformatics: a glimpse of the future (2003) (0)
Faculty Opinions recommendation of Tracking a hospital outbreak of carbapenem-resistant Klebsiella pneumoniae with whole-genome sequencing. (2012) (0)
Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis (2018) (0)
Recapitulating phylogenies using-mers : from trees to networks k (2016) (0)
Lateral genetic transfer and the evolution of cellular networks in Escherichia coli. (2010) (0)
The 5S Ribosomal-Rna and the Ribosomal-Rna Intergenic Spacer of the 2 Varieties of Cryptococcus-Neoformans (1995) (0)
Plant-wide nomenclature of nuclear genes encoding cytosolic and chloroplast glyceraldehyde-3-phosphate dehydrogenases (1994) (0)
Abstract PD6-05: Identifying genetic vulnerabilities in cancers driven by defects in DNA-damage response (2016) (0)
Bioinformatic workflows: G-PIPE as an implementation (2005) (0)
Erratum: The Sulfolobus solfataricus P2 genome project (FEBS letters 389 (1996) (88-91)) (PII S001457939600525X) (1996) (0)
India Strains from Cryptococcus neoformans Molecular Epidemiology of Clinical (2005) (0)
Faculty Opinions recommendation of Subclonal diversification of primary breast cancer revealed by multiregion sequencing. (2015) (0)
Faculty Opinions recommendation of Synthesis of phylogeny and taxonomy into a comprehensive tree of life. (2015) (0)
Faculty Opinions recommendation of How difficult is inference of mammalian causal gene regulatory networks (2015) (0)
Direct cosmid sequencing (1995) (0)
8 – Metabolites: II (1978) (0)
Photoplate high resolution mass spectrometry of high molecular weight algal tannin derivatives (1977) (0)
Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium (2021) (0)
Scalable phylogenomic approaches to study algal evolution (2015) (0)
Faculty Opinions recommendation of Panorama of ancient metazoan macromolecular complexes. (2015) (0)
K-mers: introduction and similarity metrics (2015) (0)
Genetic analyses of 15 species of yeast have shed new light on the divergence of gene regulation during evolution, with significant changes occurring after an event in which a whole genome was duplicated. (2013) (0)
Inferring synthetic lethal interactions from mutual exclusivity of genetic events in cancer (2015) (0)
Selected papers from the Eleventh Biennial Meeting of the International Society for Evolutionary Protistology (ISEP) - 8th-13th August 1996, Universitat Koln, Koln, Germany - Preface (1997) (0)
Faculty Opinions recommendation of MRSA epidemic linked to a quickly spreading colonization and virulence determinant. (2012) (0)
International seaweed association executive council (2004) (0)
Close relationship between coral-associated Chromera strains despite major differences within the Symbiodiniaceae (2019) (0)
Proceedings of the Twelfth International Seaweed Symposium, Sao Paulo, Brazil, 27 July-1 August, 1986. (1988) (0)
Automated computational genomics: a case study (2003) (0)
Genome Analysis of Two Symbiodinium Isolates (2015) (0)
Occurrence of closely spaced genes in the nuclear genome of the agarophyte Gracilaria gracilis (2004) (0)
Jack Lamont Mclachlan (1 April 1930–13 December 2010) (2011) (0)
International Seaweed Association (2004) (0)
The Canadian Bioinformatics Resource: new opportunities for bioinformatics in Canada. (2000) (0)
From genotype to phenotype: modeling knowledge in functional plant genomics (2004) (0)
9 – Metabolites: III (1978) (0)
Next-generation phylogenomics (2013) (0)
Assessing the effects of compositional heterogeneity on phylogenomic analyses (2005) (0)
Signatures of adaptation and symbiosis in genomes and transcriptomes of Symbiodinium (2017) (0)
Freeing phylogenies from alignments (2003) (0)
Biological Intuition in Alignment-Free Methods: Response to Posada (2013) (0)
Towards a Large Integrated Model of Signal Transduction and Gene Regulation Events in Mammalian Cells (2014) (0)
Genome assemblies and the associated annotations for Polarella glacialis CCMP1383 and CCMP2088 (2020) (0)
Benchmarking the Detection and Analysis of Recombination (2004) (0)
A Strategy for Genome Sequencing in Small Laboratories: Sulfolobus as an example (1998) (0)
A hybrid clustering approach to genome-scale recognition of protein families (2003) (0)
Abstract P5-10-01: Using whole genome sequencing and somatic mutation signatures to unravel insight into familial breast cancer aetiology (2019) (0)
Sequencing and Analysis of the Sulfolobus solfataricus P2 genome (1996) (0)
Modeling the landscape of cellular development using the Hopfield network (2015) (0)
SEMA, a semantic literature annotator (2003) (0)
Faculty Opinions recommendation of Gene network inference and visualization tools for biologists: application to new human transcriptome datasets. (2012) (0)
Origins of Algae and Their Plastids. (1998) (0)
Opening address by ISA president (1996) (0)
Harnessing DNA-damage response pathways for breast cancer therapy: a synthetic lethality paradigm (2013) (0)
The Visible Cell™ Project: Changing the Way We Think about Cells (2008) (0)
The Visible Cell™: changing the way we think about cells (2007) (0)
Understanding cellular function and disease with comparative pathway analysis (2013) (0)
Bioinformatics for the health sector: introduction (2015) (0)
Yeast rises to the occasion (2013) (0)
Recapitulating phylogenies using-mers : from trees to k networks (2016) (0)

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