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List of works by Yves Van de Peer

'Horizontal' plant biology on the rise

scientific article

'Natural selection merely modified while redundancy created'--Susumu Ohno's idea of the evolutionary importance of gene and genome duplications.

scientific article published in January 2003

2R or not 2R is not the question anymore

A Comprehensive Analysis of Genes Encoding Small Secreted Proteins Identifies Candidate Effectors inMelampsora larici-populina(Poplar Leaf Rust)

article

A Cytoscape app for motif enumeration with ISMAGS.

scientific article

A genome for gnetophytes and early evolution of seed plants

scientific article

A greedy, graph-based algorithm for the alignment of multiple homologous gene lists

scientific article

A haploid system of sex determination in the brown alga Ectocarpus sp.

scientific article published on 28 August 2014

A high quality draft consensus sequence of the genome of a heterozygous grapevine variety

scientific article

A metabolic perspective on polyploid invasion and the emergence of life histories: Insights from a mechanistic model

scientific article published on 7 August 2024

A model-based approach to study nearest-neighbor influences reveals complex substitution patterns in non-coding sequences.

scientific article published in October 2008

A mystery unveiled ⬇️

scientific article published on May 30, 2011

A novel approach to identifying regulatory motifs in distantly related genomes

scientific article published on 30 December 2005

A panoramic view of the genomic landscape of the genus Streptomyces

scientific article published in 2023

A review of estimation of distribution algorithms in bioinformatics

scientific article published on 11 September 2008

A transgenic mouse marking live replicating cells reveals in vivo transcriptional program of proliferation

scientific article published on 20 September 2012

AFLPinSilico, simulating AFLP fingerprints

scientific article published on 01 April 2003

AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling

scientific article published on 23 December 2009

ASP-G: an ASP-based method for finding attractors in genetic regulatory networks

scientific article published on 15 July 2014

Agulhas Current properties shape microbial community diversity and potential functionality.

scientific article published on 12 July 2018

An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies

scientific article

Analysis of 41 plant genomes supports a wave of successful genome duplications in association with the Cretaceous-Paleogene boundary

scientific article

Analysis of a Gibbs sampler method for model-based clustering of gene expression data

scientific article

Analysis of the evolutionary relationships of HIV-1 and SIVcpz sequences using bayesian inference: implications for the origin of HIV-1.

scientific article published on 29 August 2003

Analyzing text in search of bio-molecular events

article

Ancient duplication of cereal genomes

scientific article

And then there were many: MADS goes genomic

scientific article published on October 2003

Application of the EVEX resource to event extraction and network construction: Shared Task entry and result analysis

scientific article published on 30 October 2015

Arabidopsis ensemble reverse-engineered gene regulatory network discloses interconnected transcription factors in oxidative stress

scientific article published on 30 December 2014

Are all fishes ancient polyploids?

scientific article

Author Correction: The Apostasia genome and the evolution of orchids

scientific article published on 17 July 2020

Author Correction: The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants

scientific article published on 16 July 2020

Building genomic profiles for uncovering segmental homology in the twilight zone

scientific article

Canalization without flux sensors: a traveling-wave hypothesis

scientific article published on 31 August 2007

Candida bombicola as a platform organism for the production of tailor-made biomolecules

scientific article published in May 2013

Cell line name recognition in support of the identification of synthetic lethality in cancer from text

scientific article published on October 2015

Characterizing regulatory path motifs in integrated networks using perturbational data

scientific article

Choose your partners: dimerization in eukaryotic transcription factors

scientific article

Chromosome-level genome assembly of a parent species of widely cultivated azaleas

scientific article published on 19 October 2020

Comparative Metagenomic Analysis Reveals Mechanisms for Stress Response in Hypoliths from Extreme Hyperarid Deserts

scientific article published on 8 August 2016

Comparative genomics of the pathogenic ciliate Ichthyophthirius multifiliis, its free-living relatives and a host species provide insights into adoption of a parasitic lifestyle and prospects for disease control

scientific article

Comparative in silico analysis of EST-SSRs in angiosperm and gymnosperm tree genera

scientific article

Comparative in silico analysis of SSRs in coding regions of high confidence predicted genes in Norway spruce (Picea abies) and Loblolly pine (Pinus taeda).

scientific article published on 26 December 2015

Comparative network analysis reveals that tissue specificity and gene function are important factors influencing the mode of expression evolution in Arabidopsis and rice

scientific article

Complete mitochondrial genome of the Verticillium-wilt causing plant pathogen Verticillium nonalfalfae

scientific article published on 3 February 2016

Computational approaches to identify promoters and cis-regulatory elements in plant genomes

scientific article

Computational approaches to unveiling ancient genome duplications

scientific article

Context-dependent codon partition models provide significant increases in model fit in atpB and rbcL protein-coding genes

scientific article

Contrasting Rates of Molecular Evolution and Patterns of Selection among Gymnosperms and Flowering Plants

scientific article

Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants

scientific article published on 4 February 2013

Coordinated Functional Divergence of Genes after Genome Duplication in Arabidopsis thaliana

scientific article

Corrigendum: Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts

scientific article published on 30 July 2015

CyClus3D: a Cytoscape plugin for clustering network motifs in integrated networks

scientific article

Database on the structure of small ribosomal subunit RNA

scientific article published on 01 September 1994

Dealing with saturation at the amino acid level: a case study based on anciently duplicated zebrafish genes

scientific article

Decoding plant and animal genome plasticity from differential paleo-evolutionary patterns and processes

scientific article published on 24 July 2012

Deconstruction of the (paleo)polyploid grapevine genome based on the analysis of transposition events involving NBS resistance genes

scientific article (publication date: 2012)

Detection of 91 potential conserved plant microRNAs in Arabidopsis thaliana and Oryza sativa identifies important target genes

scholarly article

Development and implementation of a highly-multiplexed SNP array for genetic mapping in maritime pine and comparative mapping with loblolly pine

scientific article

Diffany: an ontology-driven framework to infer, visualise and analyse differential molecular networks

scientific article published on 5 January 2016

Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts

scientific article published on 25 June 2015

Discriminative and informative features for biomolecular text mining with ensemble feature selection

scientific article

Dissecting plant genomes with the PLAZA comparative genomics platform

scientific article published on 23 December 2011

Distinct expression and methylation patterns for genes with different fates following a single whole-genome duplication in flowering plant

scientific article published on 28 April 2020

Draft Genome Assembly of the False Spider Mite

scientific article published on 07 February 2019

Draft Genome Sequences of Two Unclassified Bacteria, Hydrogenophaga sp. Strains IBVHS1 and IBVHS2, Isolated from Environmental Samples

scientific article published on 24 August 2017

Draft Genome Sequences of Two Unclassified Bacteria, Sphingomonas sp. Strains IBVSS1 and IBVSS2, Isolated from Environmental Samples

scientific article published on 24 August 2017

Draft Genome Sequences of Two Unclassified Chitinophagaceae Bacteria, IBVUCB1 and IBVUCB2, Isolated from Environmental Samples

scientific article published on 17 August 2017

Draft genome sequence of the sexually transmitted pathogen Trichomonas vaginalis

scientific article

Dual RNA Sequencing of Vitis vinifera during Lasiodiplodia theobromae Infection Unveils Host-Pathogen Interactions

scientific article published on 03 December 2019

EST data suggest that poplar is an ancient polyploid

scientific article

Efficient context-dependent model building based on clustering posterior distributions for non-coding sequences

scientific article

Emergent adaptive behaviour of GRN-controlled simulated robots in a changing environment

scientific article

Enrichment and aggregation of topological motifs are independent organizational principles of integrated interaction networks

article published in 2011

Erratum for Orr et al., "Draft Genome Sequences of Two Unclassified Bacteria, Hydrogenophaga sp. Strains IBVHS1 and IBVHS2, Isolated from Environmental Samples".

scientific article published on 5 October 2017

Erratum for Orr et al., "Draft Genome Sequences of Two Unclassified Bacteria, Sphingomonas sp. Strains IBVSS1 and IBVSS2, Isolated from Environmental Samples".

scientific article published on 12 October 2017

Erratum for Orr et al., "Draft Genome Sequences of Two Unclassified Chitinophagaceae Bacteria, IBVUCB1 and IBVUCB2, Isolated from Environmental Samples"

scientific article published on 12 October 2017

Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes

scientific article

Evaluation and properties of the budding yeast phosphoproteome

scientific article published on 27 January 2012

Evaluation of the impact of Illumina error correction tools on de novo genome assembly

scientific article

Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences

scientific article published on 24 June 2004

Evidence that rice and other cereals are ancient aneuploids

scientific article published in September 2003

Evolution and taxonomic distribution of nonribosomal peptide and polyketide synthases

scientific article published on June 2008

Evolutionary Relationships Among the Eukaryotic Crown Taxa Taking into Account Site-to-Site Rate Variation in 18S rRNA ⬇️

scientific article published on December 1, 1997

Evolutionary divergence of duplicated genomes in newly described allotetraploid cottons

scientific article published in 2022

Exoproteome analysis of Starmerella bombicola results in the discovery of an esterase required for lactonization of sophorolipids

scientific article

Expanding the repertoire of secretory peptides controlling root development with comparative genome analysis and functional assays. ⬇️

scientific article published on 20 July 2015

Exploration of alternative splicing events in ten different grapevine cultivars

scientific article published on 17 September 2015

Exploring Biomolecular Literature with EVEX: Connecting Genes through Events, Homology, and Indirect Associations

scientific article

Fast feature selection using a simple estimation of distribution algorithm: a case study on splice site prediction

scientific article

Feature selection for splice site prediction: a new method using EDA-based feature ranking

scientific article

Feature subset selection for splice site prediction

scientific article

Fern genomes elucidate land plant evolution and cyanobacterial symbioses

article

From 2R to 3R: evidence for a fish-specific genome duplication (FSGD).

scientific article

From DNA- to NA-centrism and the conditions for gene-centrism revisited

article

FunSiP: a modular and extensible classifier for the prediction of functional sites in DNA.

scientific article

GOLVEN secretory peptides regulate auxin carrier turnover during plant gravitropic responses

scientific article

Gamma paleohexaploidy in the stem lineage of core eudicots: significance for MADS-box gene and species diversification

scientific article published on 20 July 2012

Gene duplication and biased functional retention of paralogs in bacterial genomes

scientific article published in April 2004

Gene functionalities and genome structure in Bathycoccus prasinos reflect cellular specializations at the base of the green lineage

scientific article

Generic eukaryotic core promoter prediction using structural features of DNA.

scientific article

Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features

scientific article

Genome and Metabolome MS-Based Mining of a Marine Strain of Aspergillus affinis

scientific article published in 2021

Genome duplication and the origin of angiosperms

scientific article

Genome duplication, a trait shared by 22000 species of ray-finned fish

scientific article

Genome dynamics of the human embryonic kidney 293 (HEK293) lineage in response to cell biology manipulations

scholarly article by Morgane Boone published in July 2014

Genome dynamics of the human embryonic kidney 293 lineage in response to cell biology manipulations

scientific article

Genome of , a close relative of , shows ecological adaptation to high altitude

scientific article published on 20 March 2019

Genome sequence of the recombinant protein production host Pichia pastoris

scientific article

Genome streamlining in a minute herbivore that manipulates its host plant

scientific article published on 23 October 2020

Genome-wide analysis of the diatom cell cycle unveils a novel type of cyclins involved in environmental signaling

scientific article

Genome-wide analysis reveals diverged patterns of codon bias, gene expression, and rates of sequence evolution in picea gene families

scientific article

Genome-wide characterization of the lignification toolbox in Arabidopsis

scientific article published in November 2003

Genome-wide identification of potential plant E2F target genes

scientific article

GenomeView: a next-generation genome browser

scientific article

Genomes of leafy and leafless Platanthera orchids illuminate the evolution of mycoheterotrophy

scientific article published on 21 April 2022

Genomes shed light on the evolution of Begonia, a mega-diverse genus

scientific article published on 09 February 2022

Genomes: the truth is in there

scientific article

Genomewide structural annotation and evolutionary analysis of the type I MADS-box genes in plants

scientific article published in May 2003

Genomic Insights into Adaptation to Karst Limestone and Incipient Speciation in East Asian <i>Platycarya</i> spp. (Juglandaceae)

scientific article published in 2023

Germline copy number variation associated with Mendelian inheritance of CLL in two families

scientific article published on 7 February 2012

Getting up to speed

scientific article published on 04 April 2012

Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress

scientific article published on 16 June 2009

HIGH-PRECISION BIO-MOLECULAR EVENT EXTRACTION FROM TEXT USING PARALLEL BINARY CLASSIFIERS

Higher intron loss rate in Arabidopsis thaliana than A. lyrata is consistent with stronger selection for a smaller genome

scientific article published on 13 October 2011

Highlights of the BioTM 2010 workshop on advances in bio text mining.

scientific article published on 6 October 2010

Horsetails Are Ancient Polyploids: Evidence from Equisetum giganteum

scientific article

How many genes are there in plants (... and why are they there)?

scientific article

Hydrogen peroxide-induced gene expression across kingdoms: a comparative analysis

scientific article published on 10 January 2008

Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics

scientific article (publication date: 2006)

Improving the adaptability of simulated evolutionary swarm robots in dynamically changing environments.

scientific article

In search of the small ones: improved prediction of short exons in vertebrates, plants, fungi and protists

scientific article

In situ analysis of cross-hybridisation on microarrays and the inference of expression correlation

scientific article

Inference of genome duplications from age distributions revisited

scientific article published on 30 August 2012

Integrative genomic analysis implicates gain of PIK3CA at 3q26 and MYC at 8q24 in chronic lymphocytic leukemia

scientific article published on 23 May 2012

Interspecific transfer of genetic information through polyploid bridges

scientific article published on 15 May 2024

Investigating ancient duplication events in the Arabidopsis genome

scientific article

Jabba: hybrid error correction for long sequencing reads

scientific article published on 3 May 2016

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

scientific article published on April 2011

Large-Scale Gene and Ancient Genome Duplications

article

Large-scale event extraction from literature with multi-level gene normalization

scientific article

Large-scale structural analysis of the core promoter in mammalian and plant genomes

scientific article

Legume genome evolution viewed through the Medicago truncatula and Lotus japonicus genomes

scholarly article

MANTIS: a phylogenetic framework for multi-species genome comparisons

scientific article

Major events in the genome evolution of vertebrates: paranome age and size differ considerably between ray-finned fishes and land vertebrates

scientific article (publication date: 10 February 2004)

Meta Analysis of Gene Expression Data within and Across Species

scientific article

Microarray analysis of E2Fa-DPa-overexpressing plants uncovers a cross-talking genetic network between DNA replication and nitrogen assimilation

scientific article published on 2 September 2003

Modeling gene and genome duplications in eukaryotes

scientific article

Modelling the ancestral sequence distribution and model frequencies in context-dependent models for primate non-coding sequences

scientific article

Module network inference from a cancer gene expression data set identifies microRNA regulated modules

scientific article

Module networks revisited: computational assessment and prioritization of model predictions

scientific article

Multi-faceted analysis provides little evidence for recurrent whole-genome duplications during hexapod evolution

scientific article published on 27 May 2020

Network Modeling Unravels Mechanisms of Crosstalk between Ethylene and Salicylate Signaling in Potato

scientific article published on 22 June 2018

Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana

scientific article (publication date: 2006)

Novel Insights into Evolution of Protistan Polyketide Synthases through Phylogenomic Analysis

article

ORCAE: online resource for community annotation of eukaryotes

Obligate biotrophy features unraveled by the genomic analysis of rust fungi

scientific article

Of dups and dinos: evolution at the K/Pg boundary

scientific article

On Adaptive Self-Organization in Artificial Robot Organisms

Open-ended on-board Evolutionary Robotics for robot swarms

Opinion: Re-evaluating prokaryotic species

scientific article

Orthology Guided Assembly in highly heterozygous crops: creating a reference transcriptome to uncover genetic diversity in Lolium perenne

scientific article published on 21 February 2013

Overview of tomato (Solanum lycopersicum) candidate pathogen recognition genes reveals important Solanum R locus dynamics.

scientific article

PLAZA: a comparative genomics resource to study gene and genome evolution in plants

scientific article published on 29 December 2009

Pan genome of the phytoplankton Emiliania underpins its global distribution.

scientific article

Peakbin selection in mass spectrometry data using a consensus approach with estimation of distribution algorithms.

scientific article

Pelistega europaea gen. nov., sp. nov., a bacterium associated with respiratory disease in pigeons: taxonomic structure and phylogenetic allocation ⬇️

scientific article published on April 1, 1998

Phylogenetic analyses suggest lateral gene transfer from the mitochondrion to the apicoplast

article

Phylogeny branches out

scientific article published in Nature

Plants with double genomes might have had a better chance to survive the Cretaceous-Tertiary extinction event

scientific article (publication date: 7 April 2009)

Polyploidy and genome evolution in plants

scientific article published on 2 December 2015

Polyploidy breaks speciation barriers in Australian burrowing frogs Neobatrachus

scientific article published on 11 May 2020

Posttranslational regulation impacts the fate of duplicated genes

scientific article

Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression

scientific article

Prediction of a gene regulatory network linked to prostate cancer from gene expression, microRNA and clinical data

scientific article

ProSOM: core promoter prediction based on unsupervised clustering of DNA physical profiles

scientific article

Reannotation and extended community resources for the genome of the non-seed plant Physcomitrella patens provide insights into the evolution of plant gene structures and functions

scientific article (publication date: 23 July 2013)

Recent developments in computational approaches for uncovering genomic homology

scientific article published in November 2004

Reciprocal responses in the interaction between Arabidopsis and the cell-content-feeding chelicerate herbivore spider mite

scientific article published on 27 November 2013

Reciprocally Retained Genes in the Angiosperm Lineage Show the Hallmarks of Dosage Balance Sensitivity.

scientific article

Redundancy and rewiring of genetic networks following genome-wide duplication events

scientific article published on 02 February 2012

Reverse-engineering transcriptional modules from gene expression data

scientific article

Revisiting ancestral polyploidy in plants

scientific article published on 05 July 2017

Robust biomarker identification for cancer diagnosis with ensemble feature selection methods

scientific article published on 25 November 2009

SILAC-based proteome analysis of Starmerella bombicola sophorolipid production

scientific article published on 11 September 2013

Seagrass genomes reveal ancient polyploidy and adaptations to the marine environment

scientific article published on 26 January 2024

Semantically linking molecular entities in literature through entity relationships

scientific article

Sequencing and Analyzing the Transcriptomes of a Thousand Species Across the Tree of Life for Green Plants

scientific article published on 18 December 2019

Single-Copy Genes as Molecular Markers for Phylogenomic Studies in Seed Plants

scientific article published on 27 April 2017

SpliceMachine: predicting splice sites from high-dimensional local context representations

scientific article

Structural and functional organization of RNA regulons in the post-transcriptional regulatory network of yeast

scientific article

Structural diversification and neo-functionalization during floral MADS-box gene evolution by C-terminal frameshift mutations

scientific article

Systematic structural characterization of metabolites in Arabidopsis via candidate substrate-product pair networks

scientific article published on 31 March 2014

TAPIR, a web server for the prediction of plant microRNA targets, including target mimics

scientific article published on 28 April 2010

Tangled up in two: a burst of genome duplications at the end of the Cretaceous and the consequences for plant evolution

scientific article (publication date: 5 August 2014)

Targeted interactomics reveals a complex core cell cycle machinery in Arabidopsis thaliana

scientific article

Tetraodon genome confirms Takifugu findings: most fish are ancient polyploids

scientific article

The (r)evolution of gene regulatory networks controlling Arabidopsis plant reproduction: a two-decade history

scientific article published on 9 June 2014

The 18S rRNA from Odontophrynus americanus 2n and 4n (Amphibia, Anura) reveals unusual extra sequences in the variable region V2

The Apostasia genome and the evolution of orchids

scientific article published on 13 September 2017

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

scientific article

The Cycas genome and the early evolution of seed plants

scientific article published on 18 April 2022

The Ectocarpus genome and the independent evolution of multicellularity in brown algae

scientific article

The European database on small subunit ribosomal RNA.

scientific article published on January 2002

The European ribosomal RNA database

scientific article

The FTO Gene, Implicated in Human Obesity, Is Found Only in Vertebrates and Marine Algae

article

The Global Invertebrate Genomics Alliance (GIGA): developing community resources to study diverse invertebrate genomes

scientific article

The Medicago genome provides insight into the evolution of rhizobial symbioses

scientific article

The Mycobacterium tuberculosis regulatory network and hypoxia

scientific article

The Norway spruce genome sequence and conifer genome evolution

scientific article

The Phaeodactylum genome reveals the evolutionary history of diatom genomes

scientific article

The Plant Genome Integrative Explorer Resource: PlantGenIE.org

scientific article published on 20 July 2015

The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice

scientific article published on November 2002

The biosynthetic gene cluster for sophorolipids: a biotechnological interesting biosurfactant produced by Starmerella bombicola

scientific article published on 21 March 2013

The complex intron landscape and massive intron invasion in a picoeukaryote provides insights into intron evolution

scientific article published on January 2013

The evolutionary conundrum of whole-genome duplication

scientific article published on 20 August 2020

The evolutionary significance of polyploidy

scientific article published on 15 May 2017

The flowering world: a tale of duplications

scientific article published on 07 October 2009

The future for plants and plants for the future

scientific article (publication date: 2007)

The gain and loss of genes during 600 million years of vertebrate evolution

scientific article published on 24 May 2006

The genome of Eucalyptus grandis

scientific article

The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis

scientific article

The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants

scientific article published on 22 June 2020

The genome of Tetranychus urticae reveals herbivorous pest adaptations

scientific article

The genome of the domesticated apple (Malus × domestica Borkh.)

scientific article

The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

scientific article published on 31 August 2021

The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea.

scientific article published on 27 January 2016

The genome sequence of the orchid Phalaenopsis equestris

scientific article

The heterothallic sugarbeet pathogen Cercospora beticola contains exon fragments of both MAT genes that are homogenized by concerted evolution

scientific article

The hidden duplication past of Arabidopsis thaliana

scientific article

The hidden duplication past of the plant pathogen Phytophthora and its consequences for infection

scientific article

The hornwort genome and early land plant evolution

scientific article published on 10 February 2020

The membrane-bound NAC transcription factor ANAC013 functions in mitochondrial retrograde regulation of the oxidative stress response in Arabidopsis

scientific article

The phylogeny of the Hyphochytriomycota as deduced from ribosomal RNA sequences of Hyphochytrium catenoides ⬇️

scientific article published on July 1, 1995

The potential for pathogenicity was present in the ancestor of the Ascomycete subphylum Pezizomycotina

scientific article

The potential of text mining in data integration and network biology for plant research: a case study on Arabidopsis

scientific article (publication date: March 2013)

The small RNA world of plants

scientific article published on January 2006

The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation

scientific article

Together we stand: genes cluster to coordinate regulation

scientific article published in May 2008

Toward a gold standard for promoter prediction evaluation

scientific article published on June 2009

Towards a prokaryotic genomic taxonomy

scientific article

Transcription regulatory networks in Caenorhabditis elegans inferred through reverse-engineering of gene expression profiles constitute biological hypotheses for metazoan development

scientific article published on 17 July 2009

Transcriptional profiling of Plasmodium falciparum parasites from patients with severe malaria identifies distinct low vs. high parasitemic clusters

scientific article

Transcriptomic analysis of the poultry red mite, Dermanyssus gallinae, across all stages of the lifecycle

scientific article published on 07 April 2021

Transcriptomic responses of a simplified soil microcosm to a plant pathogen and its biocontrol agent reveal a complex reaction to harsh habitat

scientific article

U-Compare bio-event meta-service: compatible BioNLP event extraction services

scientific article (publication date: 18 December 2011)

Understanding polyploid establishment: temporary persistence or stable coexistence?

scientific article published on 11 January 2024

Unraveling transcriptional control in Arabidopsis using cis-regulatory elements and coexpression networks

scientific article published on 08 April 2009

Unravelling cis-regulatory elements in the genome of the smallest photosynthetic eukaryote: phylogenetic footprinting in Ostreococcus

scientific article published on 20 August 2009

Using digital organisms to study the evolutionary consequences of whole genome duplication and polyploidy

scientific article published on 31 July 2019

Using non-reversible context-dependent evolutionary models to study substitution patterns in primate non-coding sequences

scientific article

Validating module network learning algorithms using simulated data

scientific article

Virus-host coexistence in phytoplankton through the genomic lens

scientific article published on 01 April 2020

Wanda: a database of duplicated fish genes

scientific article

Whole-genome analysis reveals molecular innovations and evolutionary transitions in chromalveolate species

scholarly article

Whole-genome microsynteny-based phylogeny of angiosperms

scientific article published on 09 June 2021

hfAIM: A reliable bioinformatics approach for in silico genome-wide identification of autophagy-associated Atg8-interacting motifs in various organisms

scientific article published on 12 April 2016

i-ADHoRe 2.0: an improved tool to detect degenerated genomic homology using genomic profiles

scientific article published on 17 October 2007

i-ADHoRe 3.0--fast and sensitive detection of genomic homology in extremely large data sets

scientific article

miRNA profiling in leaf and cork tissues of Quercus suber reveals novel miRNAs and tissue-specific expression patterns

pico-PLAZA, a genome database of microbial photosynthetic eukaryotes

scientific article

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