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1

A multiparameter panel method for outcome prediction following aneurysmal subarachnoid hemorrhage

Natacha Turck, Laszlo Vutskits, Paola Sanchez-Pena, Xavier Robin, Alexandre Hainard, Marianne Gex-Fabry, Catherine Fouda, Hadiji Bassem, Markus Mueller, Frédérique Lisacek, Louis Puybasset, Jean-Charl

Journal:

Intensive Care Medicine

Year:

2010

Language:

english

File:

PDF, 256 KB

english, 2010

2

A Framework to Explore the Knowledge Structure of Multidisciplinary Research Fields

Uddin, Shahadat, Khan, Arif, Baur, Louise A., Lisacek, Frederique

Journal:

Year:

2015

Language:

english

File:

PDF, 760 KB

english, 2015

3

The World-2DPAGE Constellation to promote and publish gel-based proteomics data through the ExPASy server

Christine Hoogland, Khaled Mostaguir, Ron D. Appel, Frédérique Lisacek

Journal:

Journal of Proteomics

Year:

2008

Language:

english

File:

PDF, 451 KB

english, 2008

4

pROC: an open-source package for R and S+ to analyze and compare ROC curves

Xavier Robin, Natacha Turck, Alexandre Hainard, Natalia Tiberti, Frédérique Lisacek, Jean-Charles Sanchez, Markus Müller

Journal:

BMC Bioinformatics

Year:

2011

Language:

english

File:

PDF, 704 KB

english, 2011

5

Processing strategies and software solutions for data-independent acquisition in mass spectrometry

Bilbao, Aivett, Varesio, Emmanuel, Luban, Jeremy, Strambio-De-Castillia, Caterina, Hopfgartner, Gérard, Müller, Markus, Lisacek, Frédérique

Journal:

Year:

2015

Language:

english

File:

PDF, 1.28 MB

english, 2015

6

The use of variable Q1 isolation windows improves selectivity in LC-SWATH-MS acquisition

Zhang, Ying, Bilbao, Aivett, Bruderer, Tobias, Luban, Jeremy, Strambio-De-Castillia, Caterina, Lisacek, Frédérique, Hopfgartner, Gérard, Varesio, Emmanuel

Journal:

Journal of Proteome Research

Year:

2015

Language:

english

File:

PDF, 5.93 MB

english, 2015

7

Optimization by infusion of multiple reaction monitoring transitions for sensitive quantification of peptides by liquid chromatography/mass spectrometry

Alghanem, Bandar, Nikitin, Frédéric, Stricker, Thomas, Duchoslav, Eva, Luban, Jeremy, Strambio-De-Castillia, Caterina, Muller, Markus, Lisacek, Frédérique, Varesio, Emmanuel, Hopfgartner, Gérard

Journal:

Rapid Communications in Mass Spectrometry

Year:

2017

Language:

english

File:

PDF, 830 KB

english, 2017

8

Language-Agnostic Reproducible Data Analysis Using Literate Programming

Vassilev, Boris, Louhimo, Riku, Ikonen, Elina, Hautaniemi, Sampsa, Lisacek, Frederique

Journal:

Year:

2016

Language:

english

File:

PDF, 4.87 MB

english, 2016

9

Reference Module in Life Sciences || Proteome Informatics

Lisacek, Frédérique

Year:

2018

Language:

english

File:

PDF, 838 KB

english, 2018

10

SugarSketcher: Quick and Intuitive Online Glycan Drawing

Alocci, Davide, Suchánková, Pavla, Costa, Renaud, Hory, Nicolas, Mariethoz, Julien, Vařeková, Radka, Toukach, Philip, Lisacek, Frédérique

Journal:

Year:

2018

Language:

english

File:

PDF, 1.46 MB

english, 2018

11

A Bioinformatics View of Glycan–Virus Interactions

Le Mercier,, Mariethoz,, Lascano-Maillard,, Bonnardel,, Imberty,, Ricard-Blum,, Lisacek,

Journal:

Year:

2019

Language:

english

File:

PDF, 3.75 MB

english, 2019

12

A Bioinformatics View of Glycan–Virus Interactions

Le Mercier,, Mariethoz,, Lascano-Maillard,, Bonnardel,, Imberty,, Ricard-Blum,, Lisacek,

Journal:

Year:

2019

File:

PDF, 3.75 MB

2019

13

Strategy for protein isoform identification from expressed sequence tags and its application to peptide mass fingerprinting

Frédérique C. Lisacek, Mathew D. Traini, Diane Sexton, Jenny L. Harry, Marc R. Wilkins

Journal:

Year:

2001

Language:

english

File:

PDF, 965 KB

english, 2001

14

Shaping biological knowledge: applications in proteomics

F. Lisacek, C. Chichester, P. Gonnet, O. Jaillet, S. Kappus, F. Nikitin, P. Roland, G. Rossier, L. Truong, R. Appel

Journal:

Comparative and Functional Genomics

Year:

2004

Language:

english

File:

PDF, 120 KB

english, 2004

15

Global analysis of genomic texts: The distribution of AGCT tetranucleotides in the Escherichia coli and Bacillus subtilis genomes predicts translational frameshifting and ribosomal hopping in several genes

Alain Hénaut, Frédérique Lisacek, Patrick Nitschké, Ivan Moszer, Dr. Antoine Danchin

Journal:

ELECTROPHORESIS

Year:

1998

Language:

english

File:

PDF, 1.72 MB

english, 1998

16

Deciphering the human nucleolar proteome

Yohann Couté, Jennifer A. Burgess, Jean-Jacques Diaz, Christine Chichester, Frédérique Lisacek, Anna Greco, Jean-Charles Sanchez

Journal:

Mass Spectrometry Reviews

Year:

2006

Language:

english

File:

PDF, 626 KB

english, 2006

17

Explanation for the non-specificity of small peptide-antibody interaction

Frédérique (van Bockstaele) Lisacek

Journal:

Mathematical and Computer Modelling

Year:

1992

Language:

english

File:

PDF, 1.38 MB

english, 1992

18

Investigating protein domain combinations in complete proteomes

Frédéric Nikitin, Frédérique Lisacek

Journal:

Computational Biology and Chemistry

Year:

2003

Language:

english

File:

PDF, 184 KB

english, 2003

19

MIAPEGelDB, a web-based submission tool and public repository for MIAPE gel electrophoresis documents

Xavier Robin, Christine Hoogland, Ron D. Appel, Frédérique Lisacek

Journal:

Journal of Proteomics

Year:

2008

Language:

english

File:

PDF, 412 KB

english, 2008

20

Algorithms on Strings, Trees and Sequences: Dan Gusfield

Frederique Lisacek

Journal:

Computers & Chemistry

Year:

2000

Language:

english

File:

PDF, 291 KB

english, 2000

21

A multi-agent system simulating human splice site recognition

Laurence Vignal, Frédérique Lisacek, Joël Quinqueton, Yves d’Aubenton-Carafa, Claude Thermes

Journal:

Computers & Chemistry

Year:

1999

Language:

english

File:

PDF, 251 KB

english, 1999

22

Consistency checks for characterizing protein forms

Christine Chichester, Frederic Nikitin, Jean-Christophe Ravarini, Frederique Lisacek

Journal:

Computational Biology and Chemistry

Year:

2003

Language:

english

File:

PDF, 273 KB

english, 2003

23

Fine-tuning the prediction of sequences cleaved by signal peptidase II: A curated set of proven and predicted lipoproteins of Escherichia coli K-12

Pedro Gonnet, Kenneth E. Rudd, Frédérique Lisacek

Journal:

Year:

2004

Language:

english

File:

PDF, 220 KB

english, 2004

24

Book Reviews: Digital Code of Life: How Bioinformatics is Revolutionizing Science, Medicine, and Business. By G. Moody

Frédérique Lisacek

Journal:

Year:

2004

Language:

english

File:

PDF, 39 KB

english, 2004

25

Proteome informatics II: Bioinformatics for comparative proteomics

Frédérique Lisacek, Sarah Cohen-Boulakia, Ron D. Appel

Journal:

Year:

2006

Language:

english

File:

PDF, 441 KB

english, 2006

26

Assignment of protein function and discovery of novel nucleolar proteins based on automatic analysis of MEDLINE

Martijn Schuemie, Christine Chichester, Frederique Lisacek, Yohann Coute, Peter-Jan Roes, Jean Charles Sanchez, Jan Kors, Barend Mons

Journal:

Year:

2007

Language:

english

File:

PDF, 361 KB

english, 2007

27

Proteome informatics II: Bioinformatics for comparative proteomics

Frédérique Lisacek, Sarah Cohen-Boulakia, Ron D. Appel

Journal:

Year:

2006

File:

PDF, 114 KB

2006

28

Systems Biology

Frédérique Lisacek, Ron D. Appel

Journal:

Year:

2007

Language:

english

File:

PDF, 213 KB

english, 2007

29

Metabolome Analysis: An Introduction. By Silas G. Villas-Bôas, Ute Roessner, Michael A. E. Hansen, Jørn Smedsgaard, Jens Nielsen

Frederique Lisacek

Journal:

Year:

2007

Language:

english

File:

PDF, 132 KB

english, 2007

30

SwissPIT: An workflow-based platform for analyzing tandem-MS spectra using the Grid

Andreas Quandt, Alexandre Masselot, Patricia Hernandez, Céline Hernandez, Sergio Maffioletti, Ron D. Appel, Frederique Lisacek

Journal:

Year:

2009

Language:

english

File:

PDF, 333 KB

english, 2009

31

A suite of tools to analyse and publish 2-DE data

Christine Hoogland, Daniel Walther, Patricia M. Palagi, Gérard Bouchet, Khaled Mostaguir, Xavier Robin, Ron D. Appel, Frédérique Lisacek

Journal:

Year:

2008

Language:

english

File:

PDF, 202 KB

english, 2008

32

A simple workflow to increase MS2 identification rate by subsequent spectral library search

Erik Ahrné, Alexandre Masselot, Pierre-Alain Binz, Markus Müller, Frederique Lisacek

Journal:

Year:

2009

Language:

english

File:

PDF, 289 KB

english, 2009

33

Early activation of the fatty acid metabolism pathway by chronic high glucose exposure in rat insulin secretory β-cells

Yohann Couté, Yannick Brunner, Domitille Schvartz, Céline Hernandez, Alexandre Masselot, Frédérique Lisacek, Claes B. Wollheim, Jean-Charles Sanchez

Journal:

Year:

2010

Language:

english

File:

PDF, 355 KB

english, 2010

34

Getting a grip on proteomics data – Proteomics Data Collection (ProDaC)

Martin Eisenacher, Lennart Martens, Tanja Hardt, Michael Kohl, Harald Barsnes, Kenny Helsens, Jari Häkkinen, Fredrik Levander, Ruedi Aebersold, Joël Vandekerckhove, Michael J. Dunn, Frederique Lisacek

Journal:

Year:

2009

Language:

english

File:

PDF, 134 KB

english, 2009

35

Unrestricted identification of modified proteins using MS/MS

Erik Ahrné, Markus Müller, Frederique Lisacek

Journal:

Year:

2010

Language:

english

File:

PDF, 435 KB

english, 2010

36

Image analysis tools and emerging algorithms for expression proteomics

Andrew W. Dowsey, Jane A. English, Frederique Lisacek, Jeffrey S. Morris, Guang-Zhong Yang, Michael J. Dunn

Journal:

Year:

2010

Language:

english

File:

PDF, 656 KB

english, 2010

37

An improved method for the construction of decoy peptide MS/MS spectra suitable for the accurate estimation of false discovery rates

Erik Ahrné, Yuki Ohta, Frederic Nikitin, Alexander Scherl, Frederique Lisacek, Markus Müller

Journal:

Year:

2011

Language:

english

File:

PDF, 377 KB

english, 2011

38

UniCarbKB: Putting the pieces together for glycomics research

Matthew P. Campbell, Catherine A. Hayes, Weston B. Struwe, Marc R. Wilkins, Kiyoko F. Aoki-Kinoshita, David J. Harvey, Pauline M. Rudd, Daniel Kolarich, Frederique Lisacek, Niclas G. Karlsson, Nicolle

Journal:

Year:

2011

Language:

english

File:

PDF, 202 KB

english, 2011

39

Erratum: Image analysis tools and emerging algorithms for expression proteomics

Andrew W. Dowsey, Jane A. English, Frederique Lisacek, Jeffrey S. Morris, Guang-Zhong Yang, Michael J. Dunn

Journal:

Year:

2011

File:

PDF, 25 KB

2011

40

Using bioinformatic resources in the proteomic analysis of biological fluids

Frédérique Lisacek, Christine Hoogland, Pierre Lescuyer, Denis F. Hochstrasser, Ron D. Appel

Journal:

PROTEOMICS - Clinical Applications

Year:

2007

Language:

english

File:

PDF, 615 KB

english, 2007

41

Metabolome Analysis: An Introduction Wiley-Interscience Series on Mass Spectrometry. By Silas G. Villas-Bôas, Ute Roessner, Michael A. E. Hansen, Jørn Smedsgaard, Jens Nielsen

Frederique Lisacek

Journal:

PROTEOMICS - Clinical Applications

Year:

2007

Language:

english

File:

PDF, 134 KB

english, 2007

42

Using argumentation to retrieve articles with similar citations: An inquiry into improving related articles search in the MEDLINE digital library

Imad Tbahriti, Christine Chichester, Frédérique Lisacek, Patrick Ruch

Journal:

International Journal of Medical Informatics

Year:

2006

Language:

english

File:

PDF, 330 KB

english, 2006

43

Automatic Identification of Group I Intron Cores in Genomic DNA Sequences

Frédérique Lisacek, Yolande Diaz, François Michel

Journal:

Journal of Molecular Biology

Year:

1994

File:

PDF, 710 KB

1994

44

Very Fast Identification of RNA Motifs in Genomic DNA. Application to tRNA Search in the Yeast Genome

Nadia El-Mabrouk, Frédérique Lisacek

Journal:

Journal of Molecular Biology

Year:

1996

Language:

english

File:

PDF, 146 KB

english, 1996

45

Exon prediction in eucaryotic genomes

L. Vignal, Y. d'Aubenton-Carafa, F. Lisacek, E. Mephu Nguifo, P. Rouzé, J. Quinqueton, C. Thermes

Journal:

Year:

1996

Language:

english

File:

PDF, 1.11 MB

english, 1996

46

Identification and classification of conopeptides using profile Hidden Markov Models

Silja Laht, Dominique Koua, Lauris Kaplinski, Frédérique Lisacek, Reto Stöcklin, Maido Remm

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Year:

2012

Language:

english

File:

PDF, 455 KB

english, 2012

47

Codon usage and gene function are related in sequences of Arabidopsis thaliana

Hélène Chiapello, Frédérique Lisacek, Michel Caboche, Alain Hénaut

Journal:

Year:

1998

Language:

english

File:

PDF, 297 KB

english, 1998

48

X-Rank: A Robust Algorithm for Small Molecule Identification Using Tandem Mass Spectrometry

Mylonas, Roman, Mauron, Yann, Masselot, Alexandre, Binz, Pierre-Alain, Budin, Nicolas, Fathi, Marc, Viette, Véronique, Hochstrasser, Denis F, Lisacek, Frederique

Journal:

Analytical Chemistry

Year:

2009

Language:

english

File:

PDF, 1.96 MB

english, 2009

49

Absolute quantification of transcription factors during cellular differentiation using multiplexed targeted proteomics

Simicevic, Jovan, Schmid, Adrien W, Gilardoni, Paola A, Zoller, Benjamin, Raghav, Sunil K, Krier, Irina, Gubelmann, Carine, Lisacek, Frédérique, Naef, Felix, Moniatte, Marc, Deplancke, Bart

Journal:

Year:

2013

Language:

english

File:

PDF, 1.05 MB

english, 2013

50

SugarBind database (SugarBindDB): a resource of pathogen lectins and corresponding glycan targets

Shakhsheer, Baddr, Anderson, Mark, Khatib, Khaled, Tadoori, Leelapavan, Joshi, Lokesh, Lisacek, Frederique, Hirschman, Lynette, Mullen, Elaine

Journal:

Journal of Molecular Recognition

Year:

2013

Language:

english

File:

PDF, 1.53 MB

english, 2013

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