Research Explorer

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Project

ELIXIR Infrastructure for Data and Services to strengthen Life-Sciences Research in Flanders

Outputs and Outcomes

Publications

Application of orthology and network biology to infer gene functions in non‐model plants

Klaas VandepoeleSander ThierensMichiel Van Bel

A1 Journal Article in PHYSIOLOGIA PLANTARUM

Discovering and exploring cases of educational source code plagiarism with Dolos

Rien MaertensMaarten Van NeyghemMaxiem GeldhofCharlotte Van PetegemNiko StrijbolPeter DawyndtBart Mesuere

A1 Journal Article in SOFTWAREX

Reproducing predictive learning analytics in CS1 : toward generalizable and explainable models for enhancing student retention

Denis ZhidkikhVille HeilalaCharlotte Van PetegemPeter DawyndtMiitta JärvinenSami ViitanenBram De WeverBart MesuereVesa LappalainenLauri KettunenRaija Hämäläinen et al.

A2 Journal Article in JOURNAL OF LEARNING ANALYTICS

Dodona : learn to code with a virtual co-teacher that supports active learning

Charlotte Van PetegemRien MaertensNiko StrijbolJorg Van RenterghemFelix Van der JeugtBram De WeverPeter DawyndtBart Mesuere

A1 Journal Article in SOFTWAREX

Unipept Desktop 2.0 : construction of targeted reference protein databases for metaproteogenomics analyses

Pieter VerschaffeltAlessandro TancaMarcello AbbondioTim Van Den BosscheTibo Vande MoortelePeter DawyndtLennart MartensBart Mesuere

A1 Journal Article in JOURNAL OF PROTEOME RESEARCH

Characterization of gene regulatory networks in plants using new methods and data types

Klaas VandepoeleKerstin Kaufmann

Bookchapter in Plant gene regulatory networks : methods and protocols

TESTed : an educational testing framework with language-agnostic test suites for programming exercises

Niko StrijbolCharlotte Van PetegemRien MaertensBoris SelsChristophe ScholliersPeter DawyndtBart Mesuere

A1 Journal Article in SOFTWAREX

Toward reporting standards for the pathogenicity of variant combinations involved in multilocus/oligogenic diseases

Sofia PapadimitriouBarbara GravelCharlotte NachtegaelElfride De BaereBart LoeysMiikka VikkulaGuillaume SmitsTom Lenaerts

A2 Journal Article in HUMAN GENETICS AND GENOMICS ADVANCES

Galaxy Training : a powerful framework for teaching!

Saskia HiltemannHelena RascheSimon GladmanHans-Rudolf HotzDelphine LarivièreDaniel BlankenbergPratik D. JagtapThomas WollmannAnthony BretaudeauNadia GouéTimothy J. GriffinColine RoyauxYvan Le BrasSubina MehtaAnna SymeFrederik CoppensBert DroesbekeNicola SoranzoWendi BaconFotis PsomopoulosCristóbal Gallardo-AlbaJohn DavisMelanie Christine FöllMatthias FahrnerMaria A. DoyleBeatriz Serrano-SolanoAnne Claire FouillouxPeter van HeusdenWolfgang MaierDave ClementsFlorian Heyl[ missing ] on behalf of the Galaxy Training NetworkBjörn GrüningBérénice Batut et al.

A1 Journal Article in PLOS COMPUTATIONAL BIOLOGY

SMAP design : a multiplex PCR amplicon and gRNA design tool to screen for natural and CRISPR-induced genetic variation

Ward DeveltereEvelien WaegneerKevin DebrayJonas De SaegerSabine Van GlabekeSteven MaereTom RuttinkThomas B. Jacobs

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Rhizogenic agrobacterium protein RolB interacts with the TOPLESS repressor proteins to reprogram plant immunity and development

Lore GryffroyEvi CeulemansNicolás Manosalva PérezJhon Jairo Venegas MolinaAna JaramilloSavio D. RodriguesLiesbeth De MildeVeronique JonckheereMarc Van MontaguBarbara De ConinckKlaas VandepoelePetra Van DammeAlain Goossens et al.

A1 Journal Article in PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Galaxy : a decade of realising CWFR concepts

Beatriz Serrano-SolanoAnne FouillouxIgnacio EguinoaMatúš KalašBjörn GrüningFrederik Coppens

A2 Journal Article in DATA INTELLIGENCE

Expanding the Galaxy’s reference data

Nagampalli VijayKrishnaJayadev JoshiNate CoraorJennifer Hillman-JacksonDave BouvierMarius van den BeekIgnacio EguinoaFrederik CoppensJohn DavisMichał StolarczykNathan C SheffieldSimon GladmanGianmauro CuccuruBjörn GrüningNicola SoranzoHelena RascheBradley W LanghorstMatthias BerntDan FornikaDavid Anderson de Lima MoraisMichel BarrettePeter van HeusdenMauro PetrilloAntonio Puertas-GallardoAlex PatakHans-Rudolf HotzDaniel Blankenberg et al.

A2 Journal Article in BIOINFORMATICS ADVANCES

Ten simple rules for making a software tool workflow-ready

Paul BrackPeter CrowtherStian Soiland-ReyesStuart OwenDouglas LoweAlan R. WilliamsQuentin GroomMathias DillenFrederik CoppensBjörn GrüningIgnacio EguinoaPhilip EwelsCarole Goble et al.

Editorial material

ELIXIR biovalidator for semantic validation of life science metadata

Isuru LiyanageTony BurdettBert DroesbekeKaroly ErdosRolando FernandezAlasdair GrayMuhammad HaseebSimon JuppFlavia PenimCyril PommierPhilippe Rocca-SerraMélanie CourtotFrederik Coppens et al.

A1 Journal Article in BIOINFORMATICS

Dolos : language‐agnostic plagiarism detection in source code

Rien MaertensCharlotte Van PetegemNiko StrijbolToon BaeyensArne JacobsPeter DawyndtBart Mesuere

A1 Journal Article in JOURNAL OF COMPUTER ASSISTED LEARNING

PLAZA 5.0 : extending the scope and power of comparative and functional genomics in plants

Michiel Van BelFrancesca SilvestriEric M WeitzLukasz KreftAlexander BotzkiFrederik CoppensKlaas Vandepoele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

A SARS-CoV-2 sequence submission tool for the European Nucleotide Archive

Miguel RoncoroniBert DroesbekeIgnacio EguinoaKim De RuyckFlora D'AnnaDilmurat YusufBjörn GrüningRolf BackofenFrederik Coppens

A1 Journal Article in BIOINFORMATICS