Ghent University Academic Bibliography

Journal Article
A1
open access

Deterministic scRNA-seq captures variation in intestinal crypt and organoid composition

Johannes Bues, Marjan Biocanin, Joern Pezoldt, Riccardo Dainese, Antonius Chrisnandy, Saba Rezakhani, Wouter Saelens, Vincent Gardeux, Revant Gupta, Rita Sarkis, et al.

(2022) NATURE METHODS. 19(3). p.323-330

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Journal Article
A1
open access

MISpheroID : a knowledgebase and transparency tool for minimum information in spheroid identity

Arne Peirsman (UGent) , Eva Blondeel (UGent) , Tasdiq Ahmed, Jasper Anckaert (UGent) , Dominique Audenaert (UGent) , Tom Boterberg (UGent) , Krisztina Buzas, Neil Carragher, Gastone Castellani, Flávia Castro, et al.

(2021) NATURE METHODS. 18(11). p.1294-1303

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Journal Article
A1
open access

Universal Spectrum Identifier for mass spectra

Eric W. Deutsch, Yasset Perez-Riverol, Jeremy Carver, Shin Kawano, Luis Mendoza, Tim Van Den Bossche (UGent) , Ralf Gabriels (UGent) , Pierre-Alain Binz, Benjamin Pullman, Zhi Sun, et al.

(2021) NATURE METHODS. 18(7). p.768-770

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The power of imaging to understand extracellular vesicle biology in vivo

Frederik J. Verweij, Leonora Balaj, Chantal M. Boulanger, David R. F. Carter, Ewoud B. Compeer, Gisela D’Angelo, Samir El Andaloussi, Jacky G. Goetz, Julia Christina Gross, Vincent Hyenne, et al.

(2021) NATURE METHODS. 18(9). p.1013-1026

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Journal Article
A1
open access

DeepLC can predict retention times for peptides that carry as-yet unseen modifications

Robbin Bouwmeester (UGent) , Ralf Gabriels (UGent) , Niels Hulstaert (UGent) , Lennart Martens (UGent) and Sven Degroeve (UGent)

(2021) NATURE METHODS. 18(11). p.1363-+

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NicheNet : modeling intercellular communication by linking ligands to target genes

Robin Browaeys (UGent) , Wouter Saelens and Yvan Saeys (UGent)

(2020) NATURE METHODS. 17(2). p.159-162

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EV-TRACK : transparent reporting and centralizing knowledge in extracellular vesicle research

Jan Van Deun (UGent) , Pieter Mestdagh (UGent) , Patrizia Agostinis, Özden Akay, Sushma Anand, Jasper Anckaert, Zoraida Andreu Martinez, Tine Baetens, Els Beghein, Laurence Bertier (UGent) , et al.

(2017) NATURE METHODS. 14(3). p.228-232

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Miscellaneous

Human T cell development notched up a level

Anne-Catherine Dolens and Tom Taghon (UGent)

(2017) NATURE METHODS. 14(5). p.477-478

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Mass spectrometrists should search for all peptides, but assess only the ones they care about

Adriaan Sticker, Lennart Martens (UGent) and Lieven Clement (UGent)

(2017) NATURE METHODS. 14(7). p.643-644

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moFF : a robust and automated approach to extract peptide ion intensities

Andrea Argentini (UGent) , Ludger Goeminne, Kenneth Verheggen (UGent) , Niels Hulstaert (UGent) , An Staes (UGent) , Lieven Clement (UGent) and Lennart Martens (UGent)

(2016) NATURE METHODS. 13(12). p.962-965

Academic Bibliography

Deterministic scRNA-seq captures variation in intestinal crypt and organoid composition

MISpheroID : a knowledgebase and transparency tool for minimum information in spheroid identity

Universal Spectrum Identifier for mass spectra

The power of imaging to understand extracellular vesicle biology in vivo

DeepLC can predict retention times for peptides that carry as-yet unseen modifications

NicheNet : modeling intercellular communication by linking ligands to target genes

EV-TRACK : transparent reporting and centralizing knowledge in extracellular vesicle research

Human T cell development notched up a level

Mass spectrometrists should search for all peptides, but assess only the ones they care about

moFF : a robust and automated approach to extract peptide ion intensities

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