Publications by authors named "Jesper Tegnér"

100Publications

MYC as a driver of stochastic chromatin networks: implications for the fitness of cancer cells.

Nucleic Acids Res 2020 Oct 13. Epub 2020 Oct 13.

Department of Oncology-Pathology, Karolinska Institutet, Karolinska University Hospital, Z1:00, SE-171 76 Stockholm, Sweden.

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http://dx.doi.org/10.1093/nar/gkaa817DOI Listing
October 2020

Harmonization of quality metrics and power calculation in multi-omic studies.

Nat Commun 2020 06 18;11(1):3092. Epub 2020 Jun 18.

Microbiology and Cell Science Department, Institute for Food and Agricultural Research, University of Florida, Gainesville, FL, USA.

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http://dx.doi.org/10.1038/s41467-020-16937-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7303201PMC
June 2020

Immunometabolic Network Interactions of the Kynurenine Pathway in Cutaneous Malignant Melanoma.

Front Oncol 2020 3;10:51. Epub 2020 Feb 3.

Unit of Computational Medicine, Department of Medicine, Centre for Molecular Medicine, Karolinska Institute, Stockholm, Sweden.

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http://dx.doi.org/10.3389/fonc.2020.00051DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7017805PMC
February 2020

Deriving disease modules from the compressed transcriptional space embedded in a deep autoencoder.

Nat Commun 2020 02 12;11(1):856. Epub 2020 Feb 12.

Bioinformatics, Department of Physics, Chemistry and Biology, Linköping University, Linköping, Sweden.

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http://dx.doi.org/10.1038/s41467-020-14666-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7016183PMC
February 2020

TcellSubC: An Atlas of the Subcellular Proteome of Human T Cells.

Front Immunol 2019 26;10:2708. Epub 2019 Nov 26.

Department of Oncology and Pathology, Karolinska Institutet, Science for Life Laboratory, Solna, Sweden.

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http://dx.doi.org/10.3389/fimmu.2019.02708DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6902019PMC
November 2019

Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self Organizing Maps.

PLoS Comput Biol 2019 11 4;15(11):e1006555. Epub 2019 Nov 4.

Developmental and Cell Biology, University of California Irvine, Irvine, California, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1006555DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6855564PMC
November 2019

An Algorithmic Information Calculus for Causal Discovery and Reprogramming Systems.

iScience 2019 Sep 8;19:1160-1172. Epub 2019 Aug 8.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine, Karolinska Institutet, Solna, Stockholm 171 76, Sweden; Science for Life Laboratory, Solna 171 65, Sweden; Biological and Environmental Sciences and Engineering Division, Computer, Electrical and Mathematical Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Kingdom of Saudi Arabia.

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http://dx.doi.org/10.1016/j.isci.2019.07.043DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6831824PMC
September 2019

Exhaustion of CD4+ T-cells mediated by the Kynurenine Pathway in Melanoma.

Sci Rep 2019 08 21;9(1):12150. Epub 2019 Aug 21.

Unit of Computational Medicine, Department of Medicine, Centre for Molecular Medicine, Karolinska Institute, SE-171 76, Stockholm, Sweden.

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http://dx.doi.org/10.1038/s41598-019-48635-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6704156PMC
August 2019

Associations of Plasma 3-Methylhistidine with Frailty Status in French Cohorts of the FRAILOMIC Initiative.

J Clin Med 2019 Jul 10;8(7). Epub 2019 Jul 10.

Department of Molecular Toxicology, German Institute of Human Nutrition Potsdam-Rehbruecke (DIfE), 14558 Nuthetal, Germany.

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http://dx.doi.org/10.3390/jcm8071010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6678434PMC
July 2019

Neuronal methylome reveals CREB-associated neuro-axonal impairment in multiple sclerosis.

Clin Epigenetics 2019 05 30;11(1):86. Epub 2019 May 30.

Department of Clinical Neuroscience, Center for Molecular Medicine, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1186/s13148-019-0678-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6543588PMC
May 2019

Phosphatase inhibitor PPP1R11 modulates resistance of human T cells toward Treg-mediated suppression of cytokine expression.

J Leukoc Biol 2019 08 18;106(2):413-430. Epub 2019 Mar 18.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine Solna, Karolinska University Hospital and Science for Life Laboratory, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1002/JLB.2A0618-228RDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6850362PMC
August 2019

Predictive Systems Toxicology.

Methods Mol Biol 2018 ;1800:535-557

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine, Solna, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1007/978-1-4939-7899-1_25DOI Listing
February 2019

Low-algorithmic-complexity entropy-deceiving graphs.

Phys Rev E 2017 Jul 7;96(1-1):012308. Epub 2017 Jul 7.

Biological and Environmental Sciences and Engineering Division, Computer, Electrical and Mathematical Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955 - 6900, Kingdom of Saudi Arabia and Unit of Computational Medicine, Department of Medicine Solna, Center for Molecular Medicine, SciLifeLab, Karolinska Institute, Stockholm 171 76, Sweden.

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http://dx.doi.org/10.1103/PhysRevE.96.012308DOI Listing
July 2017

Dynamics and heterogeneity of brain damage in multiple sclerosis.

PLoS Comput Biol 2017 Oct 26;13(10):e1005757. Epub 2017 Oct 26.

Center for Neuroimmunology, Institut d'Investigacions Biomèdiques August Pi Sunyer (IDIBAPS), University of Barcelona, Barcelona, Spain.

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http://dx.doi.org/10.1371/journal.pcbi.1005757DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5657613PMC
October 2017

Phosphoproteomics Reveals Regulatory T Cell-Mediated DEF6 Dephosphorylation That Affects Cytokine Expression in Human Conventional T Cells.

Front Immunol 2017 25;8:1163. Epub 2017 Sep 25.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine Solna, Karolinska University Hospital, Science for Life Laboratory, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.3389/fimmu.2017.01163DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5622166PMC
September 2017

Guidelines for Developing Successful Short Advanced Courses in Systems Medicine and Systems Biology.

Cell Syst 2017 09 23;5(3):168-175. Epub 2017 Aug 23.

Unit of Computational Medicine, Department of Medicine, Karolinska Institutet, 171 77 Stockholm, Sweden; Center for Molecular Medicine, Karolinska Institutet, 171 77 Stockholm, Sweden; Unit of Clinical Epidemiology, Department of Medicine, Karolinska University Hospital, L8, 17176 Stockholm, Sweden; Science for Life Laboratory, 17121 Solna, Sweden; Biological and Environmental Sciences and Engineering Division (BESE), Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE), King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Kingdom of Saudi Arabia. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2017.05.013DOI Listing
September 2017

Comment on "Epigenetics in the pathogenesis of RA".

Semin Immunopathol 2017 06 11;39(4):421-422. Epub 2017 May 11.

Center of Experimental Rheumatology, University Hospital Zurich, Wagistrasse 14, 8952 Schlieren, Zurich, Switzerland.

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http://dx.doi.org/10.1007/s00281-017-0638-9DOI Listing
June 2017

A minimal unified model of disease trajectories captures hallmarks of multiple sclerosis.

Math Biosci 2017 07 29;289:1-8. Epub 2017 Mar 29.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine, Solna, Karolinska Institutet 17176, Sweden; Biological and Environmental Sciences and Engineering Division, Computer, Electrical and Mathematical Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia. Electronic address:

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http://dx.doi.org/10.1016/j.mbs.2017.03.006DOI Listing
July 2017

From comorbidities of chronic obstructive pulmonary disease to identification of shared molecular mechanisms by data integration.

BMC Bioinformatics 2016 Nov 22;17(Suppl 15):441. Epub 2016 Nov 22.

Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Hospital Clinic de Barcelona, Universitat de Barcelona, Barcelona, Spain.

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http://dx.doi.org/10.1186/s12859-016-1291-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5133493PMC
November 2016

TGF-β Affects the Differentiation of Human GM-CSF CD4 T Cells in an Activation- and Sodium-Dependent Manner.

Front Immunol 2016 23;7:603. Epub 2016 Dec 23.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine Solna, Karolinska University Hospital and Science for Life Laboratory, Karolinska Institutet , Stockholm , Sweden.

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http://dx.doi.org/10.3389/fimmu.2016.00603DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5179518PMC
December 2016

In Vitro Differentiation of Human CD4+FOXP3+ Induced Regulatory T Cells (iTregs) from Naïve CD4+ T Cells Using a TGF-β-containing Protocol.

J Vis Exp 2016 12 30(118). Epub 2016 Dec 30.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine Solna, Karolinska Institutet, Karolinska University Hospital, & Science for Life Laboratory.

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http://dx.doi.org/10.3791/55015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5226637PMC
December 2016

Corrigendum to "Methods of information theory and algorithmic complexity for network biology" [Semin. Cell Dev. Biol. 51 (2016) 32-43].

Semin Cell Dev Biol 2016 12;60:168

Unit of Computational Medicine, Department of Medicine, Karolinska Institute & Center for Molecular Medicine, Karolinska University Hospital, Stockholm, Sweden.

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http://dx.doi.org/10.1016/j.semcdb.2016.11.006DOI Listing
December 2016

A perspective on bridging scales and design of models using low-dimensional manifolds and data-driven model inference.

Philos Trans A Math Phys Eng Sci 2016 Nov;374(2080)

Department of Medicine, Unit of Computational Medicine, Center for Molecular Medicine, Karolinska Institutet, Solna, Sweden Center for Molecular Medicine, Karolinska Institutet, L8:05, 171 76 Stockholm, Sweden Department of Medicine, Unit of Clinical Epidemiology, Karolinska University Hospital L8, 17176 Stockholm, Sweden Science for Life Laboratory, Stockholm, Sweden Mucosal and Salivary Biology Division, King's College London Dental Institute, London SE1 9RT, UK.

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http://dx.doi.org/10.1098/rsta.2016.0144DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5052728PMC
November 2016

Systems Toxicology: Systematic Approach to Predict Toxicity.

Curr Pharm Des 2016 ;22(46):6911-6917

Unit of Computational Medicine, Department of Medicine, Karolinska Institutet and Center for Molecular Medicine, Karolinska University Hospital, Science for Life Laboratories, Stockholm, Sweden.

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http://dx.doi.org/10.2174/1381612822666161003115629DOI Listing
January 2018

Human macrophages induce CD4(+)Foxp3(+) regulatory T cells via binding and re-release of TGF-β.

Immunol Cell Biol 2016 09 10;94(8):747-62. Epub 2016 May 10.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine Solna, Karolinska Institutet, Karolinska University Hospital, & Science for Life Laboratory, Stockholm, Sweden.

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http://dx.doi.org/10.1038/icb.2016.34DOI Listing
September 2016

Comparative Analysis of Protocols to Induce Human CD4+Foxp3+ Regulatory T Cells by Combinations of IL-2, TGF-beta, Retinoic Acid, Rapamycin and Butyrate.

PLoS One 2016 17;11(2):e0148474. Epub 2016 Feb 17.

Unit of Computational Medicine, Center for Molecular Medicine, Department of Medicine, Karolinska Institutet & Karolinska University Hospital, Stockholm, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0148474PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4757416PMC
July 2016

Evaluating network inference methods in terms of their ability to preserve the topology and complexity of genetic networks.

Semin Cell Dev Biol 2016 Mar 3;51:44-52. Epub 2016 Feb 3.

Unit of Computational Medicine, Science For Life Laboratory (SciLifeLab), Center for Molecular Medicine, Department of Medicine Solna, Karolinska Institute, Stockholm, Sweden.

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http://dx.doi.org/10.1016/j.semcdb.2016.01.012DOI Listing
March 2016

Methods of information theory and algorithmic complexity for network biology.

Semin Cell Dev Biol 2016 Mar 21;51:32-43. Epub 2016 Jan 21.

Unit of Computational Medicine, Department of Medicine, Karolinska Institute & Center for Molecular Medicine, Karolinska University Hospital, Stockholm, Sweden.

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http://dx.doi.org/10.1016/j.semcdb.2016.01.011DOI Listing
March 2016

Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders.

Int J Mol Sci 2015 Dec 7;16(12):29179-206. Epub 2015 Dec 7.

Translational Science Unit, SANOFI Recherche & Développement, 1 Avenue Pierre Brossolette, Chilly-Mazarin Cedex 91385, France.

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http://dx.doi.org/10.3390/ijms161226148DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4691095PMC
December 2015

From Systems Understanding to Personalized Medicine: Lessons and Recommendations Based on a Multidisciplinary and Translational Analysis of COPD.

Methods Mol Biol 2016 ;1386:283-303

Unit of Computational Medicine, Department of Medicine Solna, Center for Molecular Medicine, Karolinska Institutet, Karolinska University Hospital, Stockholm, Sweden.

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http://link.springer.com/10.1007/978-1-4939-3283-2_13
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http://dx.doi.org/10.1007/978-1-4939-3283-2_13DOI Listing
October 2016

IL-1β promotes Th17 differentiation by inducing alternative splicing of FOXP3.

Sci Rep 2015 Oct 6;5:14674. Epub 2015 Oct 6.

Translational Immunology Unit, Department of Medicine Solna, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1038/srep14674DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4593960PMC
October 2015

Monozygotic twins discordant for common variable immunodeficiency reveal impaired DNA demethylation during naïve-to-memory B-cell transition.

Nat Commun 2015 Jun 17;6:7335. Epub 2015 Jun 17.

Chromatin and Disease Group, Cancer Epigenetics and Biology Programme (PEBC), Bellvitge Biomedical Research Institute (IDIBELL), Avda Gran Via 199-203, 08908L'Hospitalet de Llobregat, Barcelona, Spain.

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http://dx.doi.org/10.1038/ncomms8335DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4557293PMC
June 2015

VEGF-B promotes cancer metastasis through a VEGF-A-independent mechanism and serves as a marker of poor prognosis for cancer patients.

Proc Natl Acad Sci U S A 2015 Jun 19;112(22):E2900-9. Epub 2015 May 19.

Department of Microbiology, Tumor and Cell Biology, Karolinska Institute, 171 77 Stockholm, Sweden; Department of Medicine and Health Sciences, Linköping University, 581 83 Linköping, Sweden; Department of Cardiovascular Sciences, University of Leicester, Leicester LE3 9QP, United Kingdom; National Institute for Health Research Leicester Cardiovascular Biomedical Research Unit, Glenfield Hospital, Leicester LE3 9QP, United Kingdom

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http://dx.doi.org/10.1073/pnas.1503500112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4460438PMC
June 2015

Oxygen pathway modeling estimates high reactive oxygen species production above the highest permanent human habitation.

PLoS One 2014 6;9(11):e111068. Epub 2014 Nov 6.

Departament de Bioquimica i Biologia Molecular, Facultat de Biologia, Universitat de Barcelona and Institute of Biomedicine (IBUB), Barcelona, Catalonia, Spain.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0111068PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4222897PMC
July 2015

Signaling networks in MS: a systems-based approach to developing new pharmacological therapies.

Mult Scler 2015 Feb 11;21(2):138-46. Epub 2014 Aug 11.

Institute Biomedical Research August Pi Sunyer (IDIBAPS) - Hospital Clinic of Barcelona, Spain/Personal Biomedicine ZAO, and A. A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Russia

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http://dx.doi.org/10.1177/1352458514543339DOI Listing
February 2015

Pediatric systems medicine: evaluating needs and opportunities using congenital heart block as a case study.

Pediatr Res 2013 Apr 31;73(4 Pt 2):508-13. Epub 2013 Jan 31.

Department of Medicine, Unit of Computational Medicine, Karolinska Institutet, Center for Molecular Medicine, Karolinska University Hospital, Solna, Stockholm, Sweden.

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http://dx.doi.org/10.1038/pr.2013.19DOI Listing
April 2013

Identification of novel markers in rheumatoid arthritis through integrated analysis of DNA methylation and microRNA expression.

J Autoimmun 2013 Mar 8;41:6-16. Epub 2013 Jan 8.

Chromatin and Disease Group, Cancer Epigenetics and Biology Programme, Bellvitge Biomedical Research Institute, 08907 L'Hospitalet de Llobregat, Barcelona, Spain.

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https://linkinghub.elsevier.com/retrieve/pii/S08968411120015
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http://dx.doi.org/10.1016/j.jaut.2012.12.005DOI Listing
March 2013

Workflow for generating competing hypothesis from models with parameter uncertainty.

Interface Focus 2011 Jun 30;1(3):438-49. Epub 2011 Mar 30.

Department of Medicine, Karolinska Institutet , Unit of Computational Medicine, Centre for Molecular Medicine , Solna, Stockholm , Sweden.

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http://dx.doi.org/10.1098/rsfs.2011.0015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3262450PMC
June 2011

Pre-B cell to macrophage transdifferentiation without significant promoter DNA methylation changes.

Nucleic Acids Res 2012 Mar 15;40(5):1954-68. Epub 2011 Nov 15.

Chromatin and Disease Group, Cancer Epigenetics and Biology Programme (PEBC), Bellvitge Biomedical Research Institute (IDIBELL), 08907 L'Hospitalet de Llobregat, Barcelona, Spain.

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http://dx.doi.org/10.1093/nar/gkr1015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3299990PMC
March 2012

Decoding complex biological networks - tracing essential and modulatory parameters in complex and simplified models of the cell cycle.

BMC Syst Biol 2011 Aug 7;5:123. Epub 2011 Aug 7.

Division of Mathematical Statistics, Department of Mathematics, Stockholm University, SE-106 91 Stockholm, Sweden.

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http://bmcsystbiol.biomedcentral.com/articles/10.1186/1752-0
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http://dx.doi.org/10.1186/1752-0509-5-123DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3176200PMC
August 2011

ParkDB: a Parkinson's disease gene expression database.

Database (Oxford) 2011 18;2011:bar007. Epub 2011 May 18.

UCL, Department of Cancer Biology, University College London, Gower Street, London, UK.

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http://dx.doi.org/10.1093/database/bar007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3098727PMC
September 2011

Blood levels of dual-specificity phosphatase-1 independently predict risk for post-operative morbidities causing prolonged hospitalization after coronary artery bypass grafting.

Int J Mol Med 2011 Jun 17;27(6):851-7. Epub 2011 Mar 17.

The Cardiovascular Genomics Group, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Solna, Stockholm, Sweden.

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http://dx.doi.org/10.3892/ijmm.2011.650DOI Listing
June 2011

DGAT1 participates in the effect of HNF4A on hepatic secretion of triglyceride-rich lipoproteins.

Arterioscler Thromb Vasc Biol 2010 May 18;30(5):962-7. Epub 2010 Feb 18.

Cardiovascular Genetics Group, Center for Molecular Medicine, Karolinska University Hospital, Stockholm, Sweden.

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http://dx.doi.org/10.1161/ATVBAHA.109.201426DOI Listing
May 2010

Bridging the gap between systems biology and medicine.

Genome Med 2009 Sep 29;1(9):88. Epub 2009 Sep 29.

Department of Critical Care Medicine and CRISMA laboratory, University of Pittsburgh School of Medicine, Scaife 602, 3550 Terrace, Pittsburgh, PA 15261, USA.

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http://dx.doi.org/10.1186/gm88DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2768995PMC
September 2009

Can modular analysis identify disease-associated candidate genes for therapeutics?

Authors:
Jesper Tegnér

J Biol 2009 28;8(5):48. Epub 2009 May 28.

Department of Medicine, Center for Molecular Medicine, Karolinska University Hospital, 171 76 Solna, Stockholm, Sweden.

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http://dx.doi.org/10.1186/jbiol149DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2736663PMC
November 2009

Computational disease modeling - fact or fiction?

BMC Syst Biol 2009 Jun 4;3:56. Epub 2009 Jun 4.

Computational Medicine group, Department of Medicine, Center for Molecular Medicine, Karolinska University Hospital, Solna, Stockholm, Sweden.

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http://dx.doi.org/10.1186/1752-0509-3-56DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2697138PMC
June 2009

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

Authors:
Harukazu Suzuki Alistair R R Forrest Erik van Nimwegen Carsten O Daub Piotr J Balwierz Katharine M Irvine Timo Lassmann Timothy Ravasi Yuki Hasegawa Michiel J L de Hoon Shintaro Katayama Kate Schroder Piero Carninci Yasuhiro Tomaru Mutsumi Kanamori-Katayama Atsutaka Kubosaki Altuna Akalin Yoshinari Ando Erik Arner Maki Asada Hiroshi Asahara Timothy Bailey Vladimir B Bajic Denis Bauer Anthony G Beckhouse Nicolas Bertin Johan Björkegren Frank Brombacher Erika Bulger Alistair M Chalk Joe Chiba Nicole Cloonan Adam Dawe Josee Dostie Pär G Engström Magbubah Essack Geoffrey J Faulkner J Lynn Fink David Fredman Ko Fujimori Masaaki Furuno Takashi Gojobori Julian Gough Sean M Grimmond Mika Gustafsson Megumi Hashimoto Takehiro Hashimoto Mariko Hatakeyama Susanne Heinzel Winston Hide Oliver Hofmann Michael Hörnquist Lukasz Huminiecki Kazuho Ikeo Naoko Imamoto Satoshi Inoue Yusuke Inoue Ryoko Ishihara Takao Iwayanagi Anders Jacobsen Mandeep Kaur Hideya Kawaji Markus C Kerr Ryuichiro Kimura Syuhei Kimura Yasumasa Kimura Hiroaki Kitano Hisashi Koga Toshio Kojima Shinji Kondo Takeshi Konno Anders Krogh Adele Kruger Ajit Kumar Boris Lenhard Andreas Lennartsson Morten Lindow Marina Lizio Cameron Macpherson Norihiro Maeda Christopher A Maher Monique Maqungo Jessica Mar Nicholas A Matigian Hideo Matsuda John S Mattick Stuart Meier Sei Miyamoto Etsuko Miyamoto-Sato Kazuhiko Nakabayashi Yutaka Nakachi Mika Nakano Sanne Nygaard Toshitsugu Okayama Yasushi Okazaki Haruka Okuda-Yabukami Valerio Orlando Jun Otomo Mikhail Pachkov Nikolai Petrovsky Charles Plessy John Quackenbush Aleksandar Radovanovic Michael Rehli Rintaro Saito Albin Sandelin Sebastian Schmeier Christian Schönbach Ariel S Schwartz Colin A Semple Miho Sera Jessica Severin Katsuhiko Shirahige Cas Simons George St Laurent Masanori Suzuki Takahiro Suzuki Matthew J Sweet Ryan J Taft Shizu Takeda Yoichi Takenaka Kai Tan Martin S Taylor Rohan D Teasdale Jesper Tegnér Sarah Teichmann Eivind Valen Claes Wahlestedt Kazunori Waki Andrew Waterhouse Christine A Wells Ole Winther Linda Wu Kazumi Yamaguchi Hiroshi Yanagawa Jun Yasuda Mihaela Zavolan David A Hume Takahiro Arakawa Shiro Fukuda Kengo Imamura Chikatoshi Kai Ai Kaiho Tsugumi Kawashima Chika Kawazu Yayoi Kitazume Miki Kojima Hisashi Miura Kayoko Murakami Mitsuyoshi Murata Noriko Ninomiya Hiromi Nishiyori Shohei Noma Chihiro Ogawa Takuma Sano Christophe Simon Michihira Tagami Yukari Takahashi Jun Kawai Yoshihide Hayashizaki

Nat Genet 2009 May 19;41(5):553-62. Epub 2009 Apr 19.

RIKEN Omics Science Center, RIKEN Yokohama Institute, Kanagawa, Japan.

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http://dx.doi.org/10.1038/ng.375DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6711855PMC
May 2009

Mechanism for top-down control of working memory capacity.

Proc Natl Acad Sci U S A 2009 Apr 1;106(16):6802-7. Epub 2009 Apr 1.

Karolinska Institutet, 171 76 Stockholm, Sweden.

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http://dx.doi.org/10.1073/pnas.0901894106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2672558PMC
April 2009

On reliable discovery of molecular signatures.

BMC Bioinformatics 2009 Jan 29;10:38. Epub 2009 Jan 29.

Computational Biology, Department of Physics, Linköping University, SE58183 Linköping, Sweden.

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http://dx.doi.org/10.1186/1471-2105-10-38DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2646701PMC
January 2009

Transcriptional profiling uncovers a network of cholesterol-responsive atherosclerosis target genes.

PLoS Genet 2008 Mar 14;4(3):e1000036. Epub 2008 Mar 14.

The Computational Medicine Group, Karolinska Institutet, Karolinska University Hospital Solna, Stockholm, Sweden.

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http://dx.doi.org/10.1371/journal.pgen.1000036DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2265530PMC
March 2008

Electrotonic signals along intracellular membranes may interconnect dendritic spines and nucleus.

PLoS Comput Biol 2008 Mar 28;4(3):e1000036. Epub 2008 Mar 28.

Department of Neuroscience, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1371/journal.pcbi.1000036DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2266990PMC
March 2008

Integrated approaches to uncovering transcription regulatory networks in mammalian cells.

Genomics 2008 Mar 8;91(3):219-31. Epub 2008 Jan 8.

Department of Bioengineering, Jacobs School of Engineering, University of California at San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA.

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http://linkinghub.elsevier.com/retrieve/pii/S088875430700283
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http://dx.doi.org/10.1016/j.ygeno.2007.11.005DOI Listing
March 2008

Fronto-parietal connection asymmetry regulates working memory distractibility.

J Integr Neurosci 2007 Dec;6(4):567-96

School of Computer Science and Communication, Kungliga Tekniska Högskolan, SE-100 44 Stockholm, Sweden.

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http://dx.doi.org/10.1142/s0219635207001702DOI Listing
December 2007

Evidence of highly regulated genes (in-Hubs) in gene networks of Saccharomyces cerevisiae.

Bioinform Biol Insights 2008 Jul 14;2:307-16. Epub 2008 Jul 14.

Department of Medicine, The Computational Medicine Group, Center for Molecular Medicine, Karolinska Institutet, Karolinska University Hospital, Solna, SE-171 76 Stockholm, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2735949PMC
http://dx.doi.org/10.4137/bbi.s853DOI Listing
July 2008