Menschaert, Gerben: search on Z-Library

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1

In Search of Lost Small Peptides

Plaza, Serge, Menschaert, Gerben, Payre, François

Journal:

Annual Review of Cell and Developmental Biology

Year:

2017

Language:

english

File:

PDF, 1.91 MB

english, 2017

2

The hunt for sORFs: A multidisciplinary strategy

Peeters, Marlies, Menschaert, Gerben

Journal:

Experimental Cell Research

Year:

2020

File:

PDF, 720 KB

2020

3

sORFs.org: a repository of small ORFs identified by ribosome profiling

Olexiouk, Volodimir, Crappé, Jeroen, Verbruggen, Steven, Verhegen, Kenneth, Martens, Lennart, Menschaert, Gerben

Journal:

Nucleic Acids Research

Year:

2016

Language:

english

File:

PDF, 2.62 MB

english, 2016

4

Using the sORFs.Org Database

Olexiouk, Volodimir, Menschaert, Gerben

Journal:

Current Protocols in Bioinformatics

Year:

2018

Language:

english

File:

PDF, 1.44 MB

english, 2018

5

Short Open Reading Frames and their Encoded Peptides

Rothnagel, Joseph, Menschaert, Gerben

Journal:

Year:

2018

Language:

english

File:

PDF, 751 KB

english, 2018

6

A role for human N-terminal acetyltransferase Naa30 in maintaining mitochondrial integrity

Van Damme, Petra, Kalvik, Thomas V., Starheim, Kristian K., Jonckheere, Veronique, Myklebust, Line M., Menschaert, Gerben, Varhaug, Jan Erik, Gevaert, Kris, Arnesen, Thomas

Journal:

Molecular & Cellular Proteomics

Year:

2016

Language:

english

File:

PDF, 1.43 MB

english, 2016

7

Peptidomics Coming of Age: A Review of Contributions from a Bioinformatics Angle

Menschaert, Gerben, Vandekerckhove, Tom T. M., Baggerman, Geert, Schoofs, Liliane, Luyten, Walter, Criekinge, Wim Van

Journal:

Journal of Proteome Research

Year:

2010

Language:

english

File:

PDF, 1.25 MB

english, 2010

8

Glycosylation Signatures in Drosophila : Fishing with Lectins

Vandenborre, Gianni, Van Damme, Els J. M., Ghesquière, Bart, Menschaert, Gerben, Hamshou, Mohamad, Rao, Rameshwaram Nagender, Gevaert, Kris, Smagghe, Guy

Journal:

Journal of Proteome Research

Year:

2010

Language:

english

File:

PDF, 643 KB

english, 2010

9

A Hybrid, de Novo Based, Genome-Wide Database Search Approach Applied to the Sea Urchin Neuropeptidome

Menschaert, Gerben, Vandekerckhove, Tom T. M., Baggerman, Geert, Landuyt, Bart, Sweedler, Jonathan V., Schoofs, Liliane, Luyten, Walter, Van Criekinge, Wim

Journal:

Journal of Proteome Research

Year:

2010

Language:

english

File:

PDF, 2.42 MB

english, 2010

10

Quality Evaluation of Methyl Binding Domain Based Kits for Enrichment DNA-Methylation Sequencing

De Meyer, Tim, Mampaey, Evi, Vlemmix, Michaël, Denil, Simon, Trooskens, Geert, Renard, Jean-Pierre, De Keulenaer, Sarah, Dehan, Pierre, Menschaert, Gerben, Van Criekinge, Wim, El-Maarri, Osman

Journal:

Year:

2013

Language:

english

File:

PDF, 1.42 MB

english, 2013

11

Spectral clustering in peptidomics studies helps to unravel modification profile of biologically active peptides and enhances peptide identification rate

Gerben Menschaert, Tom T. M. Vandekerckhove, Bart Landuyt, Eisuke Hayakawa, Liliane Schoofs, Walter Luyten, Wim Van Criekinge

Journal:

Year:

2009

Language:

english

File:

PDF, 146 KB

english, 2009

12

mQC: A post-mapping data exploration tool for ribosome profiling

Verbruggen, Steven, Menschaert, Gerben

Journal:

Computer Methods and Programs in Biomedicine

Year:

2018

Language:

english

File:

PDF, 1.74 MB

english, 2018

13

Multiple solvent elution, a method to counter the effects of coelution and ion suppression in LC-MS analysis in bottom up proteomics

Harshavardhan, Budamgunta, Evelyne, Maes, Hanny, Willems, Menschaert, Gerben, Schildermans, Karin, Kumar, Ajay Anand, Boonen, Kurt, Geert, Baggerman

Journal:

Journal of Chromatography B

Year:

2019

Language:

english

File:

PDF, 5.50 MB

english, 2019

14

Maturation performance, offspring quality and lipidcomposition of Macrobrachium rosenbergii femalesfed increasing levels of dietary phospholipids

Ronaldo O. Cavalli, Gerben Menschaert, Patrick Lavens, Patrick Sorgeloos

Journal:

Aquaculture International

Year:

2000

Language:

english

File:

PDF, 73 KB

english, 2000

15

Little things make big things happen: A summary of micropeptide encoding genes

Crappé, Jeroen, Van Criekinge, Wim, Menschaert, Gerben

Journal:

EuPA Open Proteomics

Year:

2014

Language:

english

File:

PDF, 1.88 MB

english, 2014

16

Comprehensive Peptide Analysis of Mouse Brain Striatum Identifies Novel sORF-Encoded Polypeptides

Budamgunta, Harshavardhan, Olexiouk, Volodimir, Luyten, Walter, Schildermans, Karin, Maes, Evelyne, Boonen, Kurt, Menschaert, Gerben, Baggerman, Geert

Journal:

Year:

2018

Language:

english

File:

PDF, 1.52 MB

english, 2018

17

A gene family coding for salivary proteins (SHOT) of the polyphagous spider mite Tetranychus urticae exhibits fast host-dependent transcriptional plasticity

Jonckheere, Wim, Dermauw, Wannes, Khalighi, Mousaalreza, Pavlidi, Nena, Reubens, Wim, Baggerman, Geert, Tirry, Luc, Menschaert, Gerben, Kant, Merijn, Vanholme, Bartel, Van Leeuwen, Thomas

Journal:

Molecular Plant-Microbe Interactions

Year:

2017

Language:

english

File:

PDF, 3.86 MB

english, 2017

18

Improving the Identification Rate of Endogenous Peptides Using Electron Transfer Dissociation and Collision-Induced Dissociation

Hayakawa, Eisuke, Menschaert, Gerben, De Bock, Pieter-Jan, Luyten, Walter, Gevaert, Kris, Baggerman, Geert, Schoofs, Liliane

Journal:

Journal of Proteome Research

Year:

2013

Language:

english

File:

PDF, 2.20 MB

english, 2013

19

The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data

Menschaert, Gerben, Wang, Xiaojing, Jones, Andrew R., Ghali, Fawaz, Fenyö, David, Olexiouk, Volodimir, Zhang, Bing, Deutsch, Eric W., Ternent, Tobias, Vizcaíno, Juan Antonio

Journal:

Year:

2018

Language:

english

File:

PDF, 2.63 MB

english, 2018

20

REPARATION: ribosome profiling assisted (re-)annotation of bacterial genomes

Ndah, Elvis, Jonckheere, Veronique, Giess, Adam, Valen, Eivind, Menschaert, Gerben, Van Damme, Petra

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 4.81 MB

english, 2017

21

PROTEOFORMER 2.0: further developments in the ribosome profiling-assisted proteogenomic hunt for new proteoforms

Verbruggen, Steven, Ndah, Elvis, Van Criekinge, Wim, Gessulat, Siegfried, Kuster, Bernhard, Wilhelm, Mathias, Van Damme, Petra, Menschaert, Gerben

Journal:

Molecular & Cellular Proteomics

Year:

2019

Language:

english

File:

PDF, 1.84 MB

english, 2019

22

Antigenic peptides: Reviving nuclear translation

Van Damme, Petra, Menschaert, Gerben

Journal:

Nature Chemical Biology

Year:

2013

Language:

english

File:

PDF, 484 KB

english, 2013

23

An update on sORFs.org: a repository of small ORFs identified by ribosome profiling

Olexiouk, Volodimir, Van Criekinge, Wim, Menschaert, Gerben

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 514 KB

english, 2018

24

Proteomics Standards Initiative Extended FASTA Format (PEFF)

Binz, Pierre-Alain, Shofstahl, Jim, Vizcaíno, Juan Antonio, Barsnes, Harald, Chalkley, Robert J., Menschaert, Gerben, Alpi, Emanuele, Clauser, Karl, Eng, Jimmy K., Lane, Lydie, Seymour, Sean L., Sánch

Journal:

Journal of Proteome Research

Year:

2019

Language:

english

File:

PDF, 705 KB

english, 2019

25

Proteomics Standards Initiative Extended FASTA Format (PEFF)

Binz, Pierre-Alain, Shofstahl, Jim, Vizcaíno, Juan Antonio, Barsnes, Harald, Chalkley, Robert J., Menschaert, Gerben, Alpi, Emanuele, Clauser, Karl, Eng, Jimmy K., Lane, Lydie, Seymour, Sean L., Sánch

Journal:

Journal of Proteome Research

Year:

2019

File:

PDF, 705 KB

2019

26

Spectral Clustering in Peptidomics Studies Allows Homology Searching and Modification Profiling: HomClus, a Versatile Tool

Menschaert, Gerben, Hayakawa, Eisuke, Schoofs, Liliane, Van Criekinge, Wim, Baggerman, Geert

Journal:

Journal of Proteome Research

Year:

2012

Language:

english

File:

PDF, 2.66 MB

english, 2012

27

DeepRibo: a neural network for precise gene annotation of prokaryotes by combining ribosome profiling signal and binding site patterns

Clauwaert, Jim, Menschaert, Gerben, Waegeman, Willem

Journal:

Nucleic Acids Research

Year:

2019

Language:

english

File:

PDF, 1.27 MB

english, 2019

28

Non-coding after all: Biases in proteomics data do not explain observed absence of lncRNA translation products

Verheggen, Kenneth, Volders, Pieter-Jan, Mestdagh, Pieter, Menschaert, Gerben, Van Damme, Petra, Gevaert, Kris, Martens, Lennart, Vandesompele, Jo

Journal:

Journal of Proteome Research

Year:

2017

Language:

english

File:

PDF, 1.03 MB

english, 2017

29

proBAMconvert: A Conversion Tool for proBAM/proBed

Olexiouk, Volodimir, Menschaert, Gerben

Journal:

Journal of Proteome Research

Year:

2017

Language:

english

File:

PDF, 886 KB

english, 2017

30

Mass Spectrometric Evidence for Neuropeptide-Amidating Enzymes in C. elegans

Van Bael, Sven, Watteyne, Jan, Boonen, Kurt, De Haes, Wouter, Menschaert, Gerben, Ringstad, Niels, Horvitz, H. Robert, Schoofs, Liliane, Husson, Steven, Temmerman, Liesbet

Journal:

Journal of Biological Chemistry

Year:

2018

Language:

english

File:

PDF, 2.51 MB

english, 2018

31

Combining in silico prediction and ribosome profiling in a genome-wide search for novel putatively coding sORFs

Crappé, Jeroen, Van Criekinge, Wim, Trooskens, Geert, Hayakawa, Eisuke, Luyten, Walter, Baggerman, Geert, Menschaert, Gerben

Journal:

Year:

2013

Language:

english

File:

PDF, 741 KB

english, 2013

32

Short Open Reading Frames and Their Encoded Peptides

Rothnagel, Joseph, Menschaert, Gerben

Journal:

Year:

2018

File:

PDF, 45 KB

2018

33

Fast and reliable quantitative peptidomics with labelpepmatch

Verdonck, Rik, Dehaes, Wouter, Cardoen, Dries, Menschaert, Gerben, Huhn, Thomas, Landuyt, Bart, Baggerman, Geert, Boonen, Kurt, Wenseleers, Tom, Schoofs, Liliane

Journal:

Journal of Proteome Research

Year:

2016

Language:

english

File:

PDF, 1.31 MB

english, 2016

34

Proteogenomics from a bioinformatics angle: A growing field

Menschaert, Gerben, Fenyö, David

Journal:

Mass Spectrometry Reviews

Year:

2015

Language:

english

File:

PDF, 2.11 MB

english, 2015

35

PROTEOFORMER 2.0: further developments in the ribosome profiling-assisted proteogenomic hunt for new proteoforms

Verbruggen, Steven, Ndah, Elvis, Van Criekinge, Wim, Gessulat, Siegfried, Kuster, Bernhard, Wilhelm, Mathias, Van Damme, Petra, Menschaert, Gerben

Journal:

Molecular & Cellular Proteomics

Year:

2019

File:

PDF, 1.84 MB

2019

36

eIF1 modulates the recognition of suboptimal translation initiation sites and steers gene expression via uORFs

Fijałkowska, Daria, Verbruggen, Steven, Ndah, Elvis, Jonckheere, Veronique, Menschaert, Gerben, Van Damme, Petra

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 5.09 MB

english, 2017

37

The Proteomics Standards Initiative: Fifteen Years of Progress and Future Work

Deutsch, Eric W., Orchard, Sandra, Binz, Pierre-Alain, Bittremieux, Wout, Eisenacher, Martin, Hermjakob, Henning, Kawano, Shin, Lam, Henry, Mayer, Gerhard, Menschaert, Gerben, Perez-Riverol, Yasset, S

Journal:

Journal of Proteome Research

Year:

2017

Language:

english

File:

PDF, 1.06 MB

english, 2017

38

Discovery of non-canonical translation initiation sites through mass spectrometric analysis of protein N-termini

Na, Chan Hyun, Barbhuiya, Mustafa, Kim, Min-Sik, Verbruggen, Steven, Eacker, Stephen, Pletnikova, Olga, Troncoso, Juan, Halushka, Marc, Menschaert, Gerben, Overall, Christopher, Pandey, Akhilesh

Journal:

Genome Research

Year:

2017

Language:

english

File:

PDF, 3.53 MB

english, 2017

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