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1

Automated Selected Reaction Monitoring Software for Accurate Label-Free Protein Quantification

Teleman, Johan, Karlsson, Christofer, Waldemarson, Sofia, Hansson, Karin, James, Peter, Malmström, Johan, Levander, Fredrik

Journal:

Journal of Proteome Research

Year:

2012

Language:

english

File:

PDF, 1.77 MB

english, 2012

2

Is label-free LC-MS/MS ready for biomarker discovery?

Sandin, Marianne, Chawade, Aakash, Levander, Fredrik

Journal:

PROTEOMICS - Clinical Applications

Year:

2015

Language:

english

File:

PDF, 804 KB

english, 2015

3

A targeted proteomics approach for precision plant breeding

Chawade, Aakash, Alexandersson, Erik, Bengtsson, Therese, Andreasson, Erik, Levander, Fredrik

Journal:

Journal of Proteome Research

Year:

2015

Language:

english

File:

PDF, 1.10 MB

english, 2015

4

Comparative Membrane-Associated Proteomics of Three Different Immune Reactions in Potato

Burra, Dharani, Lenman, Marit, Levander, Fredrik, Resjö, Svante, Andreasson, Erik

Journal:

International Journal of Molecular Sciences

Year:

2018

Language:

english

File:

PDF, 2.86 MB

english, 2018

5

Proteomics of PTI and Two ETI Immune Reactions in Potato Leaves

Resjö, Svante, Zahid, Muhammad Awais, Burra, Dharani Dhar, Lenman, Marit, Levander, Fredrik, Andreasson, Erik

Journal:

International Journal of Molecular Sciences

Year:

2019

Language:

english

File:

PDF, 513 KB

english, 2019

6

Proteomics of PTI and Two ETI Immune Reactions in Potato Leaves

Resjö, Svante, Zahid, Muhammad Awais, Burra, Dharani Dhar, Lenman, Marit, Levander, Fredrik, Andreasson, Erik

Journal:

International Journal of Molecular Sciences

Year:

2019

File:

PDF, 513 KB

2019

7

Proteomic changes after fertilization and before first cleavage in rainbow trout Oncorhynchus mykiss

Niksirat, Hamid, Levander, Fredrik, Kouba, Antonín, James, Peter

Journal:

Year:

2020

Language:

english

File:

PDF, 760 KB

english, 2020

8

An integrated transcriptomic- and proteomic-based approach to evaluate the human skin sensitization potential of glyphosate and its commercial agrochemical formulations

Lindberg, Tim, de Ãvila, Renato Ivan, Zeller, Kathrin S., Levander, Fredrik, Eriksson, Dennis, Chawade, Aakash, Lindstedt, Malin

Journal:

Journal of Proteomics

Year:

2020

Language:

english

File:

PDF, 1.30 MB

english, 2020

9

A label-free nano-liquid chromatography–mass spectrometry approach for quantitative serum peptidomics in Crohn's disease patients

Paolo Nanni, Fredrik Levander, Giulia Roda, Alessandra Caponi, Peter James, Aldo Roda

Journal:

Journal of Chromatography B

Year:

2009

Language:

english

File:

PDF, 1.12 MB

english, 2009

10

Differential proteomic analysis of HT29 Cl.16E and intestinal epithelial cells by LC ESI/QTOF mass spectrometry

Paolo Nanni, Laura Mezzanotte, Giulia Roda, Alessandra Caponi, Fredrik Levander, Peter James, Aldo Roda

Journal:

Journal of Proteomics

Year:

2009

Language:

english

File:

PDF, 501 KB

english, 2009

11

Automated methods for improved protein identification by peptide mass fingerprinting

Fredrik Levander, Thorsteinn Rögnvaldsson, Jim Samuelsson, Peter James

Journal:

Year:

2004

Language:

english

File:

PDF, 106 KB

english, 2004

12

Acidic proteome of growing and resting Lactococcus lactis metabolizing maltose

Johan Palmfeldt, Fredrik Levander, Bärbel Hahn-Hägerdal, Peter James

Journal:

Year:

2004

Language:

english

File:

PDF, 346 KB

english, 2004

13

Chemical derivatization of phosphoserine and phosphothreonine containing peptides to increase sensitivity for MALDI-based analysis and for selectivity of MS/MS analysis

Giorgio Arrigoni, Svante Resjö, Fredrik Levander, Rebecka Nilsson, Eva Degerman, Manfredo Quadroni, Lorenzo A. Pinna, Peter James

Journal:

Year:

2006

Language:

english

File:

PDF, 354 KB

english, 2006

14

Automated reporting from gel-based proteomics experiments using the open source Proteios database application

Fredrik Levander, Morten Krogh, Kristofer Wårell, Per Gärdén, Peter James, Jari Häkkinen

Journal:

Year:

2007

Language:

english

File:

PDF, 348 KB

english, 2007

15

Proteomics Data Collection – The 1st ProDaC workshop 26 April 2007 Ecole Normale Supérieur, Lyon, France

Martin Eisenacher, Tanja Hardt, Michael Hamacher, Lennart Martens, Jari Häkkinen, Fredrik Levander, Rolf Apweiler, Helmut E. Meyer, Christian Stephan

Journal:

Year:

2007

Language:

english

File:

PDF, 164 KB

english, 2007

16

Proteomics Data Collection – 2nd ProDaC Workshop 5 October 2007, Seoul, Korea

Martin Eisenacher, Tanja Hardt, Michael Hamacher, Lennart Martens, Jari Häkkinen, Fredrik Levander, Rolf Apweiler, Helmut E. Meyer, Christian Stephan

Journal:

Year:

2008

Language:

english

File:

PDF, 238 KB

english, 2008

17

Proteomics Data Collection – 4th ProDaC Workshop 15 August 2008, Amsterdam, The Netherlands

Martin Eisenacher, Michael Kohl, Lennart Martens, Harald Barsnes, Tanja Hardt, Fredrik Levander, Jari Häkkinen, Rolf Apweiler, Helmut E. Meyer, Christian Stephan

Journal:

Year:

2009

Language:

english

File:

PDF, 261 KB

english, 2009

18

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

19

Generic workflow for quality assessment of quantitative label-free LC-MS analysis

Marianne Sandin, Morten Krogh, Karin Hansson, Fredrik Levander

Journal:

Year:

2011

Language:

english

File:

PDF, 212 KB

english, 2011

20

Proteomic expression analysis and comparison of protein and mRNA expression profiles in human malignant gliomas

Oscar Persson, Ulrika Brynnel, Fredrik Levander, Bengt Widegren, Leif G. Salford, Morten Krogh

Journal:

PROTEOMICS - Clinical Applications

Year:

2009

Language:

english

File:

PDF, 507 KB

english, 2009

21

Proteome analysis of the xylose-fermenting mutant yeast strain TMB 3400

Kaisa Karhumaa, Anna-Karin Påhlman, Bärbel Hahn-Hägerdal, Fredrik Levander, Marie-F. Gorwa-Grauslund

Journal:

Year:

2009

Language:

english

File:

PDF, 477 KB

english, 2009

22

Starch-hydrolyzing bacteria from Ethiopian soda lakes

Rita F. Martins, Wagied Davids, Waleed Al-Soud, Fredrik Levander, Peter Rådström, Rajni Hatti-Kaul

Journal:

Year:

2001

Language:

english

File:

PDF, 159 KB

english, 2001

23

Facing challenges in Proteomics today and in the coming decade: Report of Roundtable Discussions at the 4th EuPA Scientific Meeting, Portugal, Estoril 2010

Jürgen Cox, Ron M.A.Heeren, Peter James, Jesús V. Jorrin-Novo, Eugene Kolker, Fredrik Levander, Nicholas Morrice, Paola Picotti, Pier Giorgio Righetti, Jean-Charles Sánchez, Christoph W. Turck, Roman

Journal:

Journal of Proteomics

Year:

2011

Language:

english

File:

PDF, 597 KB

english, 2011

24

Small-scale analysis of exopolysaccharides fromStreptococcus thermophilusgrown in a semi-defined medium

Fredrik Levander, Malin Svensson, Peter Rådström

Journal:

BMC Microbiology

Year:

2001

Language:

english

File:

PDF, 306 KB

english, 2001

25

Multimodel Pathway Enrichment Methods for Functional Evaluation of Expression Regulation

Kirik, Ufuk, Cifani, Paolo, Albrekt, Ann-Sofie, Lindstedt, Malin, Heyden, Anders, Levander, Fredrik

Journal:

Journal of Proteome Research

Year:

2012

Language:

english

File:

PDF, 4.46 MB

english, 2012

26

Wavelet-Based Method for Noise Characterization and Rejection in High-Performance Liquid Chromatography Coupled to Mass Spectrometry

Cappadona, Salvatore, Levander, Fredrik, Jansson, Maria, James, Peter, Cerutti, Sergio, Pattini, Linda

Journal:

Analytical Chemistry

Year:

2008

Language:

english

File:

PDF, 711 KB

english, 2008

27

Quantification of Membrane Proteins Using Nonspecific Protease Digestions

Bendz, Maria, Möller, Mirja Carlsson, Arrigoni, Giorgio, Wåhlander, Åsa, Stella, Roberto, Cappadona, Salvatore, Levander, Fredrik, Hederstedt, Lars, James, Peter

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.61 MB

english, 2009

28

Data processing methods and quality control strategies for label-free LC–MS protein quantification

Sandin, Marianne, Teleman, Johan, Malmström, Johan, Levander, Fredrik

Journal:

Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics

Year:

2014

Language:

english

File:

PDF, 932 KB

english, 2014

29

[Comprehensive Analytical Chemistry] Proteomics and Peptidomics: New Technology Platforms Elucidating Biology Volume 46 || Chapter 9 Mass spectrometry for protein identification

Levander, Fredrik

Year:

2005

Language:

english

File:

PDF, 264 KB

english, 2005

30

Relative Quantification of Membrane Proteins in Wild-Type and Prion Protein (PrP)-Knockout Cerebellar Granule Neurons

Stella, Roberto, Cifani, Paolo, Peggion, Caterina, Hansson, Karin, Lazzari, Cristian, Bendz, Maria, Levander, Fredrik, Sorgato, Maria Catia, Bertoli, Alessandro, James, Peter

Journal:

Journal of Proteome Research

Year:

2012

Language:

english

File:

PDF, 1.84 MB

english, 2012

31

Automated quality control system for LC-SRM setups

Teleman, Johan, Waldemarson, Sofia, Malmström, Johan, Levander, Fredrik

Journal:

Journal of Proteomics

Year:

2013

Language:

english

File:

PDF, 1.04 MB

english, 2013

32

M1111 A Label-Free Proteomics Approach to Serum Biomarker Discovery for Crohn's Disease

Nanni, Paolo, Roda, Giulia, Mezzanotte, Laura, Caponi, Alessandra, Levander, Fredrik, James, Peter, Roda, Aldo

Journal:

Gastroenterology

Year:

2009

Language:

english

File:

PDF, 77 KB

english, 2009

33

Proteomics and transcriptomics of the BABA-induced resistance response in potato using a novel functional annotation approach

Bengtsson, Therese, Weighill, Deborah, Proux-Wéra, Estelle, Levander, Fredrik, Resjö, Svante, Burra, Dharani, Moushib, Laith, Hedley, Pete E, Liljeroth, Erland, Jacobson, Dan, Alexandersson, Erik, And

Journal:

Year:

2014

Language:

english

File:

PDF, 695 KB

english, 2014

34

Hunting for Protein Markers of Hypoxia by Combining Plasma Membrane Enrichment with a New Approach to Membrane Protein Analysis

Cifani, Paolo, Bendz, Maria, Wårell, Kristofer, Hansson, Karin, Levander, Fredrik, Sandin, Marianne, Krogh, Morten, Ovenberger, Marie, Fredlund, Erik, Vaapil, Marica, Pietras, Alexander, Påhlman, Sv

Journal:

Journal of Proteome Research

Year:

2011

Language:

english

File:

PDF, 3.94 MB

english, 2011

35

Normalyzer: A Tool for Rapid Evaluation of Normalization Methods for Omics Data Sets

Chawade, Aakash, Alexandersson, Erik, Levander, Fredrik

Journal:

Journal of Proteome Research

Year:

2014

Language:

english

File:

PDF, 2.47 MB

english, 2014

36

Quantitative Label-Free Phosphoproteomics of Six Different Life Stages of the Late Blight Pathogen Phytophthora infestans Reveals Abundant Phosphorylation of Members of the CRN Effector Family

Resjö, Svante, Ali, Ashfaq, Meijer, Harold J. G., Seidl, Michael F., Snel, Berend, Sandin, Marianne, Levander, Fredrik, Govers, Francine, Andreasson, Erik

Journal:

Journal of Proteome Research

Year:

2014

Language:

english

File:

PDF, 2.98 MB

english, 2014

37

Critical Comparison of Multidimensional Separation Methods for Increasing Protein Expression Coverage

Antberg, Linn, Cifani, Paolo, Sandin, Marianne, Levander, Fredrik, James, Peter

Journal:

Journal of Proteome Research

Year:

2012

Language:

english

File:

PDF, 2.84 MB

english, 2012

38

The Proteios Software Environment: An Extensible Multiuser Platform for Management and Analysis of Proteomics Data

Häkkinen, Jari, Vincic, Gregory, Månsson, Olle, Wårell, Kristofer, Levander, Fredrik

Journal:

Journal of Proteome Research

Year:

2009

Language:

english

File:

PDF, 1.78 MB

english, 2009

39

The Protein Expression of Streptococcus p yogenes Is Significantly Influenced by Human Plasma

Johansson, Björn P., Levander, Fredrik, von Pawel-Rammingen, Ulrich, Berggård, Tord, Björck, Lars, James, Peter

Journal:

Journal of Proteome Research

Year:

2005

Language:

english

File:

PDF, 300 KB

english, 2005

40

Automated Protein Identification by the Combination of MALDI MS and MS/MS Spectra from Different Instruments

Levander, Fredrik, James, Peter

Journal:

Journal of Proteome Research

Year:

2005

Language:

english

File:

PDF, 75 KB

english, 2005

41

Membrane Protein Identification: N-Terminal Labeling of Nontryptic Membrane Protein Peptides Facilitates Database Searching

Jansson, Maria, Wårell, Kristofer, Levander, Fredrik, James, Peter

Journal:

Journal of Proteome Research

Year:

2008

Language:

english

File:

PDF, 873 KB

english, 2008

42

Development of Reagents for Differential Protein Quantitation by Subtractive Parent (Precursor) Ion Scanning

Wåhlander, Åsa, Arrigoni, Giorgio, Wårell, Kristofer, Levander, Fredrik, Palmgren, Ronnie, Maloisel, Jean-Luc, Busson, Philippe, James, Peter

Journal:

Journal of Proteome Research

Year:

2007

Language:

english

File:

PDF, 1007 KB

english, 2007

43

Data Processing Has Major Impact on the Outcome of Quantitative Label-Free LC-MS Analysis

Chawade, Aakash, Sandin, Marianne, Teleman, Johan, Malmström, Johan, Levander, Fredrik

Journal:

Journal of Proteome Research

Year:

2015

Language:

english

File:

PDF, 1.69 MB

english, 2015

44

Paranoid potato

Ali, Ashfaq, Moushib, Laith Ibrahim, Lenman, Marit, Levander, Fredrik, Olsson, Kerstin, Carlson-Nilson, Ulrika, Zoteyeva, Nadezhda, Liljeroth, Erland, Andreasson, Erik

Journal:

Plant Signaling & Behavior

Year:

2012

Language:

english

File:

PDF, 1.55 MB

english, 2012

45

Phosphite-induced changes of the transcriptome and secretome in Solanum tuberosum leading to resistance against Phytophthora infestans

Burra, Dharani, Berkowitz, Oliver, Hedley, Pete E, Morris, Jenny, Resjö, Svante, Levander, Fredrik, Liljeroth, Erland, Andreasson, Erik, Alexandersson, Erik

Journal:

BMC Plant Biology

Year:

2014

Language:

english

File:

PDF, 1.76 MB

english, 2014

46

Pathway-centric analysis of the DNA damage response to chemotherapeutic agents in two breast cell lines

Antberg, Linn, Cifani, Paolo, Levander, Fredrik, James, Peter

Journal:

EuPA Open Proteomics

Year:

2015

Language:

english

File:

PDF, 1.25 MB

english, 2015

47

Improved Label-Free LC-MS Analysis by Wavelet-Based Noise Rejection

Cappadona, Salvatore, Nanni, Paolo, Benevento, Marco, Levander, Fredrik, Versura, Piera, Roda, Aldo, Cerutti, Sergio, Pattini, Linda

Journal:

Journal of Biomedicine and Biotechnology

Year:

2010

Language:

english

File:

PDF, 743 KB

english, 2010

48

Representation of selected-reaction monitoring data in the mzQuantML data standard

Qi, Da, Lawless, Craig, Teleman, Johan, Levander, Fredrik, Holman, Stephen W., Hubbard, Simon, Jones, Andrew R.

Journal:

Year:

2015

Language:

english

File:

PDF, 714 KB

english, 2015

49

Dinosaur: a refined open source peptide MS feature detector

Teleman, Johan, Chawade, Aakash, Sandin, Marianne, Levander, Fredrik, Malmström, Johan

Journal:

Journal of Proteome Research

Year:

2016

Language:

english

File:

PDF, 2.06 MB

english, 2016

50

A Breast Cell Atlas: Organelle analysis of the MDA-MB-231 cell line by density-gradient fractionation using isotopic marking and label-free analysis

Sandin, Marianne, Antberg, Linn, Levander, Fredrik, James, Peter

Journal:

EuPA Open Proteomics

Year:

2015

Language:

english

File:

PDF, 1.82 MB

english, 2015