Publications by authors named "Johan Trygg"

100Publications

Application of Multiblock Analysis on Small Metabolomic Multi-Tissue Dataset.

Metabolites 2020 Jul 17;10(7). Epub 2020 Jul 17.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, 90187 Umeå, Sweden.

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http://dx.doi.org/10.3390/metabo10070295DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7407932PMC
July 2020

Overexpression of VviPGIP1 and NtCAD14 in Tobacco Screened Using Glycan Microarrays Reveals Cell Wall Reorganisation in the Absence of Fungal Infection.

Vaccines (Basel) 2020 Jul 15;8(3). Epub 2020 Jul 15.

South African Grape and Wine Research Institute, Department of Viticulture and Oenology, Stellenbosch University, Stellenbosch 7602, South Africa.

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http://dx.doi.org/10.3390/vaccines8030388DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7565493PMC
July 2020

Analysis of Plant Cell Walls Using High-Throughput Profiling Techniques with Multivariate Methods.

Methods Mol Biol 2020 ;2149:327-337

Department of Viticulture and Oenology, Faculty of AgriSciences, Institute for Wine Biotechnology, Stellenbosch University, Matieland, South Africa.

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http://dx.doi.org/10.1007/978-1-0716-0621-6_18DOI Listing
January 2020

doepipeline: a systematic approach to optimizing multi-level and multi-step data processing workflows.

BMC Bioinformatics 2019 Oct 15;20(1):498. Epub 2019 Oct 15.

Department of Chemistry, Computational Life Science Cluster (CLiC), Umeå University, Umeå, Sweden.

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http://dx.doi.org/10.1186/s12859-019-3091-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6794737PMC
October 2019

Ultrasound imaging of dorsal neck muscles with speckle tracking analyses - the relationship between muscle deformation and force.

Sci Rep 2019 09 23;9(1):13688. Epub 2019 Sep 23.

Department of Medical and Health Sciences, Division of Physiotherapy, Faculty of Health Sciences, Linköping University, Linköping, Sweden.

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http://dx.doi.org/10.1038/s41598-019-49916-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6757103PMC
September 2019

Joint and unique multiblock analysis of biological data - multiomics malaria study.

Faraday Discuss 2019 08;218(0):268-283

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Linnaeus väg 10, 901 87 Umeå, Sweden.

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http://xlink.rsc.org/?DOI=C8FD00243F
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http://dx.doi.org/10.1039/c8fd00243fDOI Listing
August 2019

Joint and Unique Multiblock Analysis for Integration and Calibration Transfer of NIR Instruments.

Anal Chem 2019 03 21;91(5):3516-3524. Epub 2019 Feb 21.

Computational Life Science Cluster (CLiC), Department of Chemistry , Umeå University , 901 81 Umeå , Sweden.

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http://dx.doi.org/10.1021/acs.analchem.8b05188DOI Listing
March 2019

Cytokine Profiles in Autoantibody Defined Subgroups of Systemic Lupus Erythematosus.

J Proteome Res 2019 03 18;18(3):1208-1217. Epub 2019 Feb 18.

Computational Life Science Cluster (CLiC), Department of Chemistry , Umeå University , 901 87 Umeå , Sweden.

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http://dx.doi.org/10.1021/acs.jproteome.8b00811DOI Listing
March 2019

Quantification of run order effect on chromatography - mass spectrometry profiling data.

J Chromatogr A 2018 Sep 5;1568:229-234. Epub 2018 Jul 5.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Linnaeus väg 10, 901 87 Umeå, Sweden; Sartorius Stedim Data Analytics, Tvistevägen 48, 907 36 Umeå, Sweden.

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http://dx.doi.org/10.1016/j.chroma.2018.07.019DOI Listing
September 2018

Neck-specific exercise improves impaired interactions between ventral neck muscles in chronic whiplash: A randomized controlled ultrasound study.

Sci Rep 2018 06 25;8(1):9649. Epub 2018 Jun 25.

Department of Medical and Health Sciences, Division of Physiotherapy, Faculty of Health Sciences, Linköping University, Linköping, Sweden.

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http://dx.doi.org/10.1038/s41598-018-27685-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6018626PMC
June 2018

Kynurenine pathway is altered in patients with SLE and associated with severe fatigue.

Lupus Sci Med 2018 23;5(1):e000254. Epub 2018 May 23.

Rheumatology Unit, Department of Medicine, Karolinska Institutet, Karolinska University Hospital, Stockholm, Sweden.

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http://dx.doi.org/10.1136/lupus-2017-000254DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5976103PMC
May 2018

Alterations in the Mechanical Response of Deep Dorsal Neck Muscles in Individuals Experiencing Whiplash-Associated Disorders Compared to Healthy Controls: An Ultrasound Study.

Am J Phys Med Rehabil 2018 02;97(2):75-82

From the Department of Medical and Health Sciences, Physiotherapy, Linköping University, Linköping, Sweden (LR, GP, AP); Department of Physiotherapy, University of Social Welfare and Rehabilitation Sciences, Tehran, Iran (LR); Centre for Clinical Research Sörmland, Uppsala University, Eskilstuna, Sweden (GP); Department of Biostatistics, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran (AK); and Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå, Sweden (JT).

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http://Insights.ovid.com/crossref?an=00002060-201802000-0000
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http://dx.doi.org/10.1097/PHM.0000000000000845DOI Listing
February 2018

Multivariate strategy for the sample selection and integration of multi-batch data in metabolomics.

Metabolomics 2017 24;13(10):114. Epub 2017 Aug 24.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, 901 81 Umeå, Sweden.

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http://dx.doi.org/10.1007/s11306-017-1248-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5570768PMC
August 2017

Association between pathology and texture features of multi parametric MRI of the prostate.

Phys Med Biol 2017 Sep 21;62(19):7833-7854. Epub 2017 Sep 21.

Division of Medical Radiation Physics, Department of Radiation Oncology, Medical University of Vienna, Vienna, Austria. Christian Doppler Laboratory for Medical Radiation Research for Radiation Oncology, Vienna, Austria.

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http://dx.doi.org/10.1088/1361-6560/aa884dDOI Listing
September 2017

Protein expression in tension wood formation monitored at high tissue resolution in Populus.

J Exp Bot 2017 06;68(13):3405-3417

Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, SE-90183 Umeå, Sweden.

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http://dx.doi.org/10.1093/jxb/erx186DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5853651PMC
June 2017

Generalized Subset Designs in Analytical Chemistry.

Anal Chem 2017 06 30;89(12):6491-6497. Epub 2017 May 30.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University , Linnaeus väg 10, 901 87 Umeå, Sweden.

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http://dx.doi.org/10.1021/acs.analchem.7b00506DOI Listing
June 2017

The effects of thawing on the plasma metabolome: evaluating differences between thawed plasma and multi-organ samples.

Metabolomics 2017 17;13(6):66. Epub 2017 Apr 17.

Department of Chemistry, Computational Life Science Cluster (CLiC), Umeå University, Umeå, Sweden.

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http://dx.doi.org/10.1007/s11306-017-1196-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5392536PMC
April 2017

Lipid response patterns in acute phase paediatric malaria.

Metabolomics 2017 23;13(4):41. Epub 2017 Feb 23.

Department of Molecular Biology, Umeå University, 901 87 Umeå, Sweden.

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http://dx.doi.org/10.1007/s11306-017-1174-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5323494PMC
February 2017

Metabolite and Lipid Profiling of Biobank Plasma Samples Collected Prior to Onset of Rheumatoid Arthritis.

PLoS One 2016 18;11(10):e0164196. Epub 2016 Oct 18.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0164196PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5068821PMC
May 2017

Chemometric Analysis of Bacterial Peptidoglycan Reveals Atypical Modifications That Empower the Cell Wall against Predatory Enzymes and Fly Innate Immunity.

J Am Chem Soc 2016 07 13;138(29):9193-204. Epub 2016 Jul 13.

Laboratory for Molecular Infection Medicine Sweden, Department of Molecular Biology, Umeå Centre for Microbial Research, Umeå University , 90187 Umeå, Sweden.

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http://dx.doi.org/10.1021/jacs.6b04430DOI Listing
July 2016

Multi-platform metabolomics assays for human lung lavage fluids in an air pollution exposure study.

Anal Bioanal Chem 2016 Jul 25;408(17):4751-64. Epub 2016 Apr 25.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, 901 87, Umeå, Sweden.

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http://dx.doi.org/10.1007/s00216-016-9566-0DOI Listing
July 2016

Strong invaders are strong defenders - implications for the resistance of invaded communities.

Ecol Lett 2016 Apr 7;19(4):487-94. Epub 2016 Mar 7.

Department of Ecology and Environmental Science, Umeå University, SE-901 87, Umeå, Sweden.

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http://dx.doi.org/10.1111/ele.12586DOI Listing
April 2016

Changes in Dorsal Neck Muscle Function in Individuals with Chronic Whiplash-Associated Disorders: A Real-Time Ultrasound Case-Control Study.

Ultrasound Med Biol 2016 May 23;42(5):1090-102. Epub 2016 Feb 23.

Division of Physiotherapy, Department of Medical and Health Sciences, Linköping University, Linköping, Sweden.

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http://dx.doi.org/10.1016/j.ultrasmedbio.2015.12.022DOI Listing
May 2016

Quantitative proteomics reveals protein profiles underlying major transitions in aspen wood development.

BMC Genomics 2016 Feb 18;17:119. Epub 2016 Feb 18.

Department of Forest Genetics and Plant Physiology, Umeå Plant Science Centre, Swedish University of Agricultural Sciences, SE-90183, Umeå, Sweden.

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http://dx.doi.org/10.1186/s12864-016-2458-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4758094PMC
February 2016

Postprandial metabolomics: A pilot mass spectrometry and NMR study of the human plasma metabolome in response to a challenge meal.

Anal Chim Acta 2016 Feb 17;908:121-31. Epub 2015 Dec 17.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, 90187 Umeå, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2015.12.009DOI Listing
February 2016

Metabolomics study of fatigue in patients with rheumatoid arthritis naïve to biological treatment.

Rheumatol Int 2016 May 23;36(5):703-11. Epub 2016 Jan 23.

Department of Clinical Science, University of Bergen, Bergen, Norway.

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http://dx.doi.org/10.1007/s00296-016-3426-2DOI Listing
May 2016

A multivariate approach using attenuated total reflectance mid-infrared spectroscopy to measure the surface mannoproteins and β-glucans of yeast cell walls during wine fermentations.

J Agric Food Chem 2015 Nov 4;63(45):10054-63. Epub 2015 Nov 4.

Institute for Wine Biotechnology, Department of Viticulture and Oenology, Faculty of AgriSciences, Stellenbosch University , Matieland 7602, South Africa.

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http://dx.doi.org/10.1021/acs.jafc.5b03154DOI Listing
November 2015

Novel insights into the interplay between ventral neck muscles in individuals with whiplash-associated disorders.

Sci Rep 2015 Oct 16;5:15289. Epub 2015 Oct 16.

Department of Medical and Health Sciences, Division of Physiotherapy, Faculty of Health Sciences, Linköping University, Linköping, Sweden.

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http://dx.doi.org/10.1038/srep15289DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4607921PMC
October 2015

Mechanical properties of the trapezius during scapular elevation in people with chronic whiplash associated disorders--A case-control ultrasound speckle tracking analysis.

Man Ther 2016 Feb 5;21:177-82. Epub 2015 Aug 5.

Department of Medical and Health Sciences, Division of Physiotherapy, Linköping University, 58183 Linköping, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.math.2015.07.009DOI Listing
February 2016

Metabolic Signature Profiling as a Diagnostic and Prognostic Tool in Pediatric Plasmodium falciparum Malaria.

Open Forum Infect Dis 2015 Apr 4;2(2):ofv062. Epub 2015 May 4.

Division of Infectious Diseases, Department Clinical Microbiology , Umeå University , Sweden ; Infectious Diseases Institute, School of Medicine and Health Sciences , Makerere University , Uganda ; Laboratory for Molecular Infection Medicine Sweden, Umeå University ; Umeå Center for Microbial Research , Sweden.

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http://dx.doi.org/10.1093/ofid/ofv062DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4473097PMC
April 2015

Roll compaction process modeling: transfer between equipment and impact of process parameters.

Int J Pharm 2015 Apr 18;484(1-2):192-206. Epub 2015 Feb 18.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Sweden.

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http://dx.doi.org/10.1016/j.ijpharm.2015.02.042DOI Listing
April 2015

Following the compositional changes of fresh grape skin cell walls during the fermentation process in the presence and absence of maceration enzymes.

J Agric Food Chem 2015 Mar 3;63(10):2798-810. Epub 2015 Mar 3.

†Institute for Wine Biotechnology, Department of Viticulture and Oenology, Faculty of AgriSciences, Stellenbosch University, Matieland 7602, South Africa.

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http://dx.doi.org/10.1021/jf505200mDOI Listing
March 2015

Near-infrared chemical imaging (NIR-CI) on roll compacted ribbons and tablets--multivariate mapping of physical and chemical properties.

Int J Pharm 2015 Apr 3;483(1-2):200-11. Epub 2015 Feb 3.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.ijpharm.2015.02.006DOI Listing
April 2015

OPLS in batch monitoring - Opens up new opportunities.

Anal Chim Acta 2015 Feb 5;857:28-38. Epub 2014 Dec 5.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.aca.2014.12.003DOI Listing
February 2015

Altered ventral neck muscle deformation for individuals with whiplash associated disorder compared to healthy controls - a case-control ultrasound study.

Man Ther 2015 Apr 15;20(2):319-27. Epub 2014 Oct 15.

Department of Medical and Health Sciences, Division of Physiotherapy, Faculty of Health Sciences, Linköping University, Linköping, Sweden.

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http://dx.doi.org/10.1016/j.math.2014.10.006DOI Listing
April 2015

ADC texture--an imaging biomarker for high-grade glioma?

Med Phys 2014 Oct;41(10):101903

Department of Radiation Sciences, Oncology, Umeå University, Umeå SE-901 87, Sweden.

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http://dx.doi.org/10.1118/1.4894812DOI Listing
October 2014

Individual variation in lipidomic profiles of healthy subjects in response to omega-3 Fatty acids.

PLoS One 2013 24;8(10):e76575. Epub 2013 Oct 24.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå, Sweden ; Department of Entomology, University of California Davis, Davis, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0076575PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3811983PMC
August 2014

Global, local and unique decompositions in OnPLS for multiblock data analysis.

Anal Chim Acta 2013 Aug 26;791:13-24. Epub 2013 Jun 26.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå, Sweden.

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http://dx.doi.org/10.1016/j.aca.2013.06.026DOI Listing
August 2013

A quality by design approach to investigate the effect of mannitol and dicalcium phosphate qualities on roll compaction.

Int J Pharm 2013 Apr 19;447(1-2):47-61. Epub 2013 Feb 19.

Computational Life Science Cluster, Department of Chemistry, Umeå University, Sweden.

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http://dx.doi.org/10.1016/j.ijpharm.2013.02.036DOI Listing
April 2013

Dynamic ultrasound imaging--a multivariate approach for the analysis and comparison of time-dependent musculoskeletal movements.

BMC Med Imaging 2012 Sep 27;12:29. Epub 2012 Sep 27.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå, Sweden.

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http://dx.doi.org/10.1186/1471-2342-12-29DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3570433PMC
September 2012

Strategy for minimizing between-study variation of large-scale phenotypic experiments using multivariate analysis.

Anal Chem 2012 Oct 1;84(20):8675-81. Epub 2012 Oct 1.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.1021/ac301869pDOI Listing
October 2012

Building multivariate systems biology models.

Anal Chem 2012 Aug 2;84(16):7064-71. Epub 2012 Aug 2.

Bioinformatics Centre, Institute for Chemical Research, Kyoto University, Kyoto, Japan.

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http://dx.doi.org/10.1021/ac301269rDOI Listing
August 2012

Strategy for optimizing LC-MS data processing in metabolomics: a design of experiments approach.

Anal Chem 2012 Aug 26;84(15):6869-76. Epub 2012 Jul 26.

Computational Life Science Cluster, Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.1021/ac301482kDOI Listing
August 2012

Orthogonal PLS (OPLS) Modeling for Improved Analysis and Interpretation in Drug Design.

Mol Inform 2012 Jul 16;31(6-7):414-9. Epub 2012 Apr 16.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.1002/minf.201200158DOI Listing
July 2012

Ultrasound imaging with speckle tracking of cervical muscle deformation and deformation rate: isometric contraction of patients after anterior cervical decompression and fusion for cervical disc disease and controls.

Man Ther 2012 Dec 15;17(6):519-25. Epub 2012 Jun 15.

Department of Medical and Health Sciences, Division of Physiotherapy, Faculty of Health Sciences, Linköping University, SE-58183 Linköping, Sweden.

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http://dx.doi.org/10.1016/j.math.2012.05.005DOI Listing
December 2012

Metabolic responses to change in disease activity during tumor necrosis factor inhibition in patients with rheumatoid arthritis.

J Proteome Res 2012 Jul 24;11(7):3796-804. Epub 2012 May 24.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, 90187 Umeå, Sweden.

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http://dx.doi.org/10.1021/pr300296vDOI Listing
July 2012

Altered metabolic signature in pre-diabetic NOD mice.

PLoS One 2012 13;7(4):e35445. Epub 2012 Apr 13.

Computational Life Science Cluster, Department of Chemistry, Umeå University, Umeå, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0035445PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3326011PMC
August 2012

Optimization of a sample preparation method for the metabolomic analysis of clinically relevant bacteria.

J Microbiol Methods 2011 Oct 13;87(1):24-31. Epub 2011 Jul 13.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.1016/j.mimet.2011.07.001DOI Listing
October 2011

From data processing to multivariate validation--essential steps in extracting interpretable information from metabolomics data.

Curr Pharm Biotechnol 2011 Jul;12(7):996-1004

Computational Life Science Cluster, Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.2174/138920111795909041DOI Listing
July 2011

Cell-specific chemotyping and multivariate imaging by combined FT-IR microspectroscopy and orthogonal projections to latent structures (OPLS) analysis reveals the chemical landscape of secondary xylem.

Plant J 2011 Jun 21;66(5):903-14. Epub 2011 Mar 21.

Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences (SLU), Umeå SE-90183, Sweden Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Umeå SE-90187, Sweden Department of Chemistry, Umeå University, Umeå SE-90187, Sweden.

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http://dx.doi.org/10.1111/j.1365-313X.2011.04542.xDOI Listing
June 2011

Diagnostic properties of metabolic perturbations in rheumatoid arthritis.

Arthritis Res Ther 2011 Feb 8;13(1):R19. Epub 2011 Feb 8.

Computational Life Science Cluster-CLiC, Department of Chemistry, Umeå University, SE-90187 Umeå, Sweden.

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http://dx.doi.org/10.1186/ar3243DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3241363PMC
February 2011

Metabolite Signature during Short-Day Induced Growth Cessation in Populus.

Front Plant Sci 2011 12;2:29. Epub 2011 Jul 12.

Metabolomics Research Division, RIKEN Plant Science Center Yokohama, Japan.

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http://dx.doi.org/10.3389/fpls.2011.00029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3355535PMC
August 2012

Design of experiments on 135 cloned poplar trees to map environmental influence in greenhouse.

Anal Chim Acta 2011 Jan 19;685(2):127-31. Epub 2010 Nov 19.

Computational Life Science Cluster (CLiC), Department of Chemistry, Umeå University, Linnaeus väg, SE-90187 Umeå, Sweden.

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http://dx.doi.org/10.1016/j.aca.2010.11.024DOI Listing
January 2011

The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models.

Authors:
Leming Shi Gregory Campbell Wendell D Jones Fabien Campagne Zhining Wen Stephen J Walker Zhenqiang Su Tzu-Ming Chu Federico M Goodsaid Lajos Pusztai John D Shaughnessy André Oberthuer Russell S Thomas Richard S Paules Mark Fielden Bart Barlogie Weijie Chen Pan Du Matthias Fischer Cesare Furlanello Brandon D Gallas Xijin Ge Dalila B Megherbi W Fraser Symmans May D Wang John Zhang Hans Bitter Benedikt Brors Pierre R Bushel Max Bylesjo Minjun Chen Jie Cheng Jing Cheng Jeff Chou Timothy S Davison Mauro Delorenzi Youping Deng Viswanath Devanarayan David J Dix Joaquin Dopazo Kevin C Dorff Fathi Elloumi Jianqing Fan Shicai Fan Xiaohui Fan Hong Fang Nina Gonzaludo Kenneth R Hess Huixiao Hong Jun Huan Rafael A Irizarry Richard Judson Dilafruz Juraeva Samir Lababidi Christophe G Lambert Li Li Yanen Li Zhen Li Simon M Lin Guozhen Liu Edward K Lobenhofer Jun Luo Wen Luo Matthew N McCall Yuri Nikolsky Gene A Pennello Roger G Perkins Reena Philip Vlad Popovici Nathan D Price Feng Qian Andreas Scherer Tieliu Shi Weiwei Shi Jaeyun Sung Danielle Thierry-Mieg Jean Thierry-Mieg Venkata Thodima Johan Trygg Lakshmi Vishnuvajjala Sue Jane Wang Jianping Wu Yichao Wu Qian Xie Waleed A Yousef Liang Zhang Xuegong Zhang Sheng Zhong Yiming Zhou Sheng Zhu Dhivya Arasappan Wenjun Bao Anne Bergstrom Lucas Frank Berthold Richard J Brennan Andreas Buness Jennifer G Catalano Chang Chang Rong Chen Yiyu Cheng Jian Cui Wendy Czika Francesca Demichelis Xutao Deng Damir Dosymbekov Roland Eils Yang Feng Jennifer Fostel Stephanie Fulmer-Smentek James C Fuscoe Laurent Gatto Weigong Ge Darlene R Goldstein Li Guo Donald N Halbert Jing Han Stephen C Harris Christos Hatzis Damir Herman Jianping Huang Roderick V Jensen Rui Jiang Charles D Johnson Giuseppe Jurman Yvonne Kahlert Sadik A Khuder Matthias Kohl Jianying Li Li Li Menglong Li Quan-Zhen Li Shao Li Zhiguang Li Jie Liu Ying Liu Zhichao Liu Lu Meng Manuel Madera Francisco Martinez-Murillo Ignacio Medina Joseph Meehan Kelci Miclaus Richard A Moffitt David Montaner Piali Mukherjee George J Mulligan Padraic Neville Tatiana Nikolskaya Baitang Ning Grier P Page Joel Parker R Mitchell Parry Xuejun Peng Ron L Peterson John H Phan Brian Quanz Yi Ren Samantha Riccadonna Alan H Roter Frank W Samuelson Martin M Schumacher Joseph D Shambaugh Qiang Shi Richard Shippy Shengzhu Si Aaron Smalter Christos Sotiriou Mat Soukup Frank Staedtler Guido Steiner Todd H Stokes Qinglan Sun Pei-Yi Tan Rong Tang Zivana Tezak Brett Thorn Marina Tsyganova Yaron Turpaz Silvia C Vega Roberto Visintainer Juergen von Frese Charles Wang Eric Wang Junwei Wang Wei Wang Frank Westermann James C Willey Matthew Woods Shujian Wu Nianqing Xiao Joshua Xu Lei Xu Lun Yang Xiao Zeng Jialu Zhang Li Zhang Min Zhang Chen Zhao Raj K Puri Uwe Scherf Weida Tong Russell D Wolfinger

Nat Biotechnol 2010 Aug 30;28(8):827-38. Epub 2010 Jul 30.

National Center for Toxicological Research, US Food and Drug Administration, Jefferson, Arkansas, USA.

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http://dx.doi.org/10.1038/nbt.1665DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3315840PMC
August 2010

Modelling human musculoskeletal functional movements using ultrasound imaging.

BMC Med Imaging 2010 May 21;10. Epub 2010 May 21.

School of Technology and Health, Royal Institute of Technology, Stockholm, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2887375PMC
May 2010

Changes in diurnal patterns within the Populus transcriptome and metabolome in response to photoperiod variation.

Plant Cell Environ 2010 Aug 18;33(8):1298-313. Epub 2010 Mar 18.

Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, SE-901 83 Umeå, Sweden.

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http://doi.wiley.com/10.1111/j.1365-3040.2010.02148.x
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August 2010

Chemometrics in metabolomics--a review in human disease diagnosis.

Anal Chim Acta 2010 Feb 22;659(1-2):23-33. Epub 2009 Nov 22.

Computational Life Science Cluster (CLiC), KBC, Umeå University, S-901 87, Umeå, Sweden.

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http://linkinghub.elsevier.com/retrieve/pii/S000326700901553
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http://dx.doi.org/10.1016/j.aca.2009.11.042DOI Listing
February 2010

Unlocking interpretation in near infrared multivariate calibrations by orthogonal partial least squares.

Anal Chem 2009 Jan;81(1):203-9

Computational Life Science Cluster (CLIC), Chemical Biology Center (KBC), Umeå University, SE-90187 Umeå, Sweden.

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http://dx.doi.org/10.1021/ac801803eDOI Listing
January 2009

A cross-species transcriptomics approach to identify genes involved in leaf development.

BMC Genomics 2008 Dec 5;9:589. Epub 2008 Dec 5.

Umeå Plant Science Centre, Department of Plant Physiology, Umeå University, Umeå, Sweden.

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http://dx.doi.org/10.1186/1471-2164-9-589DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2621207PMC
December 2008

Orthogonal projections to latent structures discriminant analysis modeling on in situ FT-IR spectral imaging of liver tissue for identifying sources of variability.

Anal Chem 2008 Sep 20;80(18):6898-906. Epub 2008 Aug 20.

Computational Life Science Cluster (CLIC), KBC, Umeå University, SE-901 87 Umeå, Sweden.

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http://pubs.acs.org/doi/abs/10.1021/ac8005318
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September 2008

LAMINA: a tool for rapid quantification of leaf size and shape parameters.

BMC Plant Biol 2008 Jul 22;8:82. Epub 2008 Jul 22.

Research Group for Chemometrics, Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.1186/1471-2229-8-82DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2500018PMC
July 2008

Global expression profiling in leaves of free-growing aspen.

BMC Plant Biol 2008 May 23;8:61. Epub 2008 May 23.

Um eå Plant Science Centre, Department of Plant Physiology, Um eå University, SE-901 87 Um eå, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2416451PMC
May 2008

K-OPLS package: kernel-based orthogonal projections to latent structures for prediction and interpretation in feature space.

BMC Bioinformatics 2008 Feb 19;9:106. Epub 2008 Feb 19.

Research Group for Chemometrics, Department of Chemistry, Umeå University, Umeå, SE-901 87, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2323673PMC
February 2008

Piecewise multivariate modelling of sequential metabolic profiling data.

BMC Bioinformatics 2008 Feb 19;9:105. Epub 2008 Feb 19.

Research Group for Chemometrics, Institute of Chemistry, Umeå University, Umeå, S-901 87, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2373572PMC
February 2008

Evaluation of a protocol for metabolic profiling studies on human blood plasma by combined ultra-performance liquid chromatography/mass spectrometry: From extraction to data analysis.

Anal Biochem 2008 Jan 4;372(2):237-49. Epub 2007 Oct 4.

Umeå Plant Science Center, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.1016/j.ab.2007.09.037DOI Listing
January 2008

Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite data.

Plant J 2007 Dec 10;52(6):1181-91. Epub 2007 Oct 10.

Research group for Chemometrics, Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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December 2007

Orthogonal projections to latent structures as a strategy for microarray data normalization.

BMC Bioinformatics 2007 Jun 18;8:207. Epub 2007 Jun 18.

Research group for Chemometrics, Department of Chemistry, Umeå University, Umeå, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1906839PMC
June 2007

Environmental and hormonal regulation of the activity-dormancy cycle in the cambial meristem involves stage-specific modulation of transcriptional and metabolic networks.

Plant J 2007 May 5;50(4):557-73. Epub 2007 Apr 5.

Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, The Swedish University of Agricultural Sciences, S-901 83 Umeå, Sweden.

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May 2007

Chemometrics in metabonomics.

J Proteome Res 2007 Feb;6(2):469-79

Research Group for Chemometrics, Institute of Chemistry, Umeå University, Sweden.

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February 2007

MASQOT-GUI: spot quality assessment for the two-channel microarray platform.

Bioinformatics 2006 Oct 9;22(20):2554-5. Epub 2006 Aug 9.

Research group for Chemometrics, Department of Chemistry, Umeå University SE-901 87 Umeå, Sweden.

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October 2006

Consensus by democracy. Using meta-analyses of microarray and genomic data to model the cold acclimation signaling pathway in Arabidopsis.

Plant Physiol 2006 Aug;141(4):1219-32

Umeå Plant Science Centre, Department of Plant Physiology , Umeå University, S-901 87 Umea, Sweden.

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http://dx.doi.org/10.1104/pp.106.083527DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1533918PMC
August 2006

Extraction and GC/MS analysis of the human blood plasma metabolome.

Anal Chem 2005 Dec;77(24):8086-94

Department of Medical Biosciences, Clinical Chemistry, Umeå University, SE-90185, Umeå, Sweden, and Department of Clinical Pharmacology, the First Affiliated Hospital of Nanjing Medical University, 210029, Nanjing, China.

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December 2005

A statistical resampling method to calculate biomagnification factors exemplified with organochlorine data from herring (Clupea harengus) muscle and guillemot (Uria aalge) egg from the Baltic sea.

Environ Sci Technol 2005 Nov;39(21):8395-402

Environmental Toxicology, Department of Physiology and Developmental Biology, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18A, SE-752 36, Sweden.

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November 2005

MASQOT: a method for cDNA microarray spot quality control.

BMC Bioinformatics 2005 Oct 13;6:250. Epub 2005 Oct 13.

Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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http://dx.doi.org/10.1186/1471-2105-6-250DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1276784PMC
October 2005

High-throughput data analysis for detecting and identifying differences between samples in GC/MS-based metabolomic analyses.

Anal Chem 2005 Sep;77(17):5635-42

Research Group for Chemometrics, Organic Chemistry, Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.

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September 2005