Selected Publications

Making Bioinformatics Training Events and Material More Discoverable Using TeSS, the ELIXIR Training Portal

Finn Bacall, Aitor Apaolaza, Munazah Andrabi, Chris Child, Carole Goble, Olivier Sand, Alexander Botzki

Community-driven ELIXIR activities in single-cell omics

Paulo Czarnewski; Ahmed Mahfouz; Raffaele A. Calogero; Patricia M. Palagi; Laura Portell-Silva; Asier Gonzalez-Uriarte; Charlotte Soneson; Tony Burdett; Barbara Szomolay; Pavankumar Videm; Alexander Botzki et al.

F1000

A framework to assess the quality and impact of bioinformatics training across ELIXIR

DOI: 10.1371/journal.pcbi.1007976

PhyD3: a phylogenetic tree viewer with extended phyloXML support for functional genomics data visualization

Łukasz Kreft, Alexander Botzki, Frederik Coppens, Klaas Vandepoele, Michiel Van Bel

DOI 10.1101/107276

Navigating the Global Protein-Protein Interaction Landscape Using iRefWeb

Turinsky Andrei, Dupont Sam, Botzki Alexander, Razick Sabry, Turner Brian, Donaldson Ian, Wodak Shoshana

DOI: 10.1007/978-1-0716-0892-0_12

ADAR1 prevents autoinflammation by suppressing spontaneous ZBP1 activation

Richard de Reuver, Simon Verdonck, Evelien Dierick, Josephine Nemegeer, Eline Hessmann, Sadeem Ahmad, Maude Jans, Gillian Blancke, Filip Van Nieuwerburgh, Alexander Botzki, Lars Vereecke, Geert van Loo, Wim Declercq, Sun Hur, Peter Vandenabeele, Jonathan Maelfait

DOI: 10.1038/s41586-022-04974-w

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

Van Bel Michiel, Silvestri Francesca, Weitz Eric, Kreft Lukasz, Botzki Alexander, Coppens Frederik, Vandepoele Klaas

10.1093/nar/gkab1024

ADAR1 interaction with Z-RNA promotes editing of endogenous double-stranded RNA and prevents MDA5-dependent immune activation

De Reuver Richard, Dierick Evelien, Wiernicki Bartosz, Staes Katrien, Seys Leen, De Meester Ellen, Muyldermans Tuur, Botzki Alexander, Lambrecht Bart, Van Nieuwerburgh Filip, Vandenabeele Peter, Maelfait Jonathan

https://doi.org/10.1016/j.celrep.2021.109500

Unipept Visualizations: An Interactive Visualization Library For Biological Data

Verschaffelt Pieter, Collier James, Botzki Alexander, Martens Lennart, Dawyndt Peter, Mesuere Bart

https://doi.org/10.1093/bioinformatics/btab590

AutoSpill is a principled framework that simplifies the analysis of multichromatic flow cytometry data

Roca Carlos, Burton Oliver, Gergelits Vaclav, Prezzemolo Teresa, Whyte Carly, Halpert Richard, Kreft Lukasz, Collier James, Botzki Alexander, Spidlen Josef, Humblet-baron Stephanie, Liston Adrian

DOI: 10.1038/s41467-021-23126-8

A single-cell catalogue of regulatory states in the ageing Drosophila brain

Kristofer Davie, Jasper Janssens, Duygu Koldere, Uli Pech, Sara Aibar, Maxime De Waegeneer, Samira Makhzami, Valerie Christiaens, Carmen Bravo González-Blas, Gert Hulselmans, Katina I. Spanier, Thomas Moerman, Bram Vanspauwen, Jeroen Lammertyn, Bernard Thienpont, Sha Liu, Patrik Verstreken, Stein Aerts

DOI 10.1101/237420

TRAPID 2.0: a web application for taxonomic and functional analysis of de novo transcriptomes

Bucchini Francois, Del Cortona Andrea, Kreft Lukasz, Botzki Alexander, Van Bel Michiel, Vandepoele Klaas

DOI: 10.1093/nar/gkab565

A workflow for streamlined acquisition and correlation of serial regions of interest in array tomography

Gabarre Sergio, Vernaillen Frank, Baatsen Pieter, Vints Katlijn, Cawthorne Christopher, Boeynaems Steven, Michiels Emiel, Vandael Dorien, Gounko Natalia, Munck Sebastian

DOI: 10.1186/s12915-021-01072-7

Capsid-Labelled HIV To Investigate the Role of Capsid during Nuclear Import and Integration

Zurnic Bonisch Irena, Dirix Lieve, Lemmens Veerle, Borrenberghs Doortje, De Wit Flore, Vernaillen Frank, Rocha Susana, Christ Frauke, Hendrix Jelle, Hofkens Johan, Debyser Zeger

DOI: 10.1128/JVI.01024-19

VIB Technology Training