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Items: 1 to 50 of 86

1.

The human secretome.

Uhlén M, Karlsson MJ, Hober A, Svensson AS, Scheffel J, Kotol D, Zhong W, Tebani A, Strandberg L, Edfors F, Sjöstedt E, Mulder J, Mardinoglu A, Berling A, Ekblad S, Dannemeyer M, Kanje S, Rockberg J, Lundqvist M, Malm M, Volk AL, Nilsson P, Månberg A, Dodig-Crnkovic T, Pin E, Zwahlen M, Oksvold P, von Feilitzen K, Häussler RS, Hong MG, Lindskog C, Ponten F, Katona B, Vuu J, Lindström E, Nielsen J, Robinson J, Ayoglu B, Mahdessian D, Sullivan D, Thul P, Danielsson F, Stadler C, Lundberg E, Bergström G, Gummesson A, Voldborg BG, Tegel H, Hober S, Forsström B, Schwenk JM, Fagerberg L, Sivertsson Å.

Sci Signal. 2019 Nov 26;12(609). pii: eaaz0274. doi: 10.1126/scisignal.aaz0274.

PMID:
31772123
2.

Novel anti-Alzheimer phenol-lipoyl hybrids: Synthesis, physico-chemical characterization, and biological evaluation.

Pagoni A, Marinelli L, Di Stefano A, Ciulla M, Turkez H, Mardinoglu A, Vassiliou S, Cacciatore I.

Eur J Med Chem. 2019 Nov 12:111880. doi: 10.1016/j.ejmech.2019.111880. [Epub ahead of print]

PMID:
31753513
3.

Systems biology perspective for studying the gut microbiota in human physiology and liver diseases.

Altay O, Nielsen J, Uhlen M, Boren J, Mardinoglu A.

EBioMedicine. 2019 Nov;49:364-373. doi: 10.1016/j.ebiom.2019.09.057. Epub 2019 Oct 18. Review.

4.

Systems biology based drug repositioning for development of cancer therapy.

Turanli B, Altay O, Borén J, Turkez H, Nielsen J, Uhlen M, Arga KY, Mardinoglu A.

Semin Cancer Biol. 2019 Sep 27. pii: S1044-579X(19)30265-2. doi: 10.1016/j.semcancer.2019.09.020. [Epub ahead of print] Review.

PMID:
31568815
5.

Cardiac expression of the microsomal triglyceride transport protein protects the heart function during ischemia.

Klevstig M, Arif M, Mannila M, Svedlund S, Mardani I, Ståhlman M, Andersson L, Lindbom M, Miljanovic A, Franco-Cereceda A, Eriksson P, Jeppsson A, Gan LM, Levin M, Mardinoglu A, Ehrenborg E, Borén J.

J Mol Cell Cardiol. 2019 Dec;137:1-8. doi: 10.1016/j.yjmcc.2019.09.003. Epub 2019 Sep 15.

6.

Elucidating the Reprograming of Colorectal Cancer Metabolism Using Genome-Scale Metabolic Modeling.

Zhang C, Aldrees M, Arif M, Li X, Mardinoglu A, Aziz MA.

Front Oncol. 2019 Jul 30;9:681. doi: 10.3389/fonc.2019.00681. eCollection 2019.

7.

The Potential Use of Metabolic Cofactors in Treatment of NAFLD.

Mardinoglu A, Ural D, Zeybel M, Yuksel HH, Uhlén M, Borén J.

Nutrients. 2019 Jul 12;11(7). pii: E1578. doi: 10.3390/nu11071578. Review.

8.

Multi-Omic Data Interpretation to Repurpose Subtype Specific Drug Candidates for Breast Cancer.

Turanli B, Karagoz K, Bidkhori G, Sinha R, Gatza ML, Uhlen M, Mardinoglu A, Arga KY.

Front Genet. 2019 May 7;10:420. doi: 10.3389/fgene.2019.00420. eCollection 2019.

9.

Mature Human White Adipocytes Cultured under Membranes Maintain Identity, Function, and Can Transdifferentiate into Brown-like Adipocytes.

Harms MJ, Li Q, Lee S, Zhang C, Kull B, Hallen S, Thorell A, Alexandersson I, Hagberg CE, Peng XR, Mardinoglu A, Spalding KL, Boucher J.

Cell Rep. 2019 Apr 2;27(1):213-225.e5. doi: 10.1016/j.celrep.2019.03.026.

10.

Expression of PD-L1 and PD-1 in Chemoradiotherapy-Naïve Esophageal and Gastric Adenocarcinoma: Relationship With Mismatch Repair Status and Survival.

Svensson MC, Borg D, Zhang C, Hedner C, Nodin B, Uhlén M, Mardinoglu A, Leandersson K, Jirström K.

Front Oncol. 2019 Mar 13;9:136. doi: 10.3389/fonc.2019.00136. eCollection 2019.

11.

Discovery of therapeutic agents for prostate cancer using genome-scale metabolic modeling and drug repositioning.

Turanli B, Zhang C, Kim W, Benfeitas R, Uhlen M, Arga KY, Mardinoglu A.

EBioMedicine. 2019 Apr;42:386-396. doi: 10.1016/j.ebiom.2019.03.009. Epub 2019 Mar 21.

12.

Plasma Proteomics Analysis Reveals Dysregulation of Complement Proteins and Inflammation in Acquired Obesity-A Study on Rare BMI-Discordant Monozygotic Twin Pairs.

Sahebekhtiari N, Saraswat M, Joenväärä S, Jokinen R, Lovric A, Kaye S, Mardinoglu A, Rissanen A, Kaprio J, Renkonen R, Pietiläinen KH.

Proteomics Clin Appl. 2019 Jul;13(4):e1800173. doi: 10.1002/prca.201800173. Epub 2019 Feb 5.

PMID:
30688043
13.

Discovery of KIRREL as a biomarker for prognostic stratification of patients with thin melanoma.

Lundgren S, Fagerström-Vahman H, Zhang C, Ben-Dror L, Mardinoglu A, Uhlen M, Nodin B, Jirström K.

Biomark Res. 2019 Jan 14;7:1. doi: 10.1186/s40364-018-0153-8. eCollection 2019.

14.

LIPG-promoted lipid storage mediates adaptation to oxidative stress in breast cancer.

Cadenas C, Vosbeck S, Edlund K, Grgas K, Madjar K, Hellwig B, Adawy A, Glotzbach A, Stewart JD, Lesjak MS, Franckenstein D, Claus M, Hayen H, Schriewer A, Gianmoena K, Thaler S, Schmidt M, Micke P, Pontén F, Mardinoglu A, Zhang C, Käfferlein HU, Watzl C, Frank S, Rahnenführer J, Marchan R, Hengstler JG.

Int J Cancer. 2019 Aug 15;145(4):901-915. doi: 10.1002/ijc.32138. Epub 2019 Feb 7.

15.

Pyruvate kinase L/R is a regulator of lipid metabolism and mitochondrial function.

Liu Z, Zhang C, Lee S, Kim W, Klevstig M, Harzandi AM, Sikanic N, Arif M, Ståhlman M, Nielsen J, Uhlen M, Boren J, Mardinoglu A.

Metab Eng. 2019 Mar;52:263-272. doi: 10.1016/j.ymben.2019.01.001. Epub 2019 Jan 4.

PMID:
30615941
16.

Characterization of heterogeneous redox responses in hepatocellular carcinoma patients using network analysis.

Benfeitas R, Bidkhori G, Mukhopadhyay B, Klevstig M, Arif M, Zhang C, Lee S, Cinar R, Nielsen J, Uhlen M, Boren J, Kunos G, Mardinoglu A.

EBioMedicine. 2019 Feb;40:471-487. doi: 10.1016/j.ebiom.2018.12.057. Epub 2018 Dec 31.

17.

Metabolic network-based stratification of hepatocellular carcinoma reveals three distinct tumor subtypes.

Bidkhori G, Benfeitas R, Klevstig M, Zhang C, Nielsen J, Uhlen M, Boren J, Mardinoglu A.

Proc Natl Acad Sci U S A. 2018 Dec 11;115(50):E11874-E11883. doi: 10.1073/pnas.1807305115. Epub 2018 Nov 27.

18.

Vimentin deficiency in macrophages induces increased oxidative stress and vascular inflammation but attenuates atherosclerosis in mice.

Håversen L, Sundelin JP, Mardinoglu A, Rutberg M, Ståhlman M, Wilhelmsson U, Hultén LM, Pekny M, Fogelstrand P, Bentzon JF, Levin M, Borén J.

Sci Rep. 2018 Nov 19;8(1):16973. doi: 10.1038/s41598-018-34659-2.

19.

A Network-Based Cancer Drug Discovery: From Integrated Multi-Omics Approaches to Precision Medicine.

Turanli B, Karagoz K, Gulfidan G, Sinha R, Mardinoglu A, Arga KY.

Curr Pharm Des. 2018;24(32):3778-3790. doi: 10.2174/1381612824666181106095959.

PMID:
30398107
20.

Meta-Analysis of Adiponectin as a Biomarker for the Detection of Metabolic Syndrome.

Liu Z, Liang S, Que S, Zhou L, Zheng S, Mardinoglu A.

Front Physiol. 2018 Sep 19;9:1238. doi: 10.3389/fphys.2018.01238. eCollection 2018.

21.

ESS: A Tool for Genome-Scale Quantification of Essentiality Score for Reaction/Genes in Constraint-Based Modeling.

Zhang C, Bidkhori G, Benfeitas R, Lee S, Arif M, Uhlén M, Mardinoglu A.

Front Physiol. 2018 Sep 28;9:1355. doi: 10.3389/fphys.2018.01355. eCollection 2018.

22.

Characterization of different fat depots in NAFLD using inflammation-associated proteome, lipidome and metabolome.

Lovric A, Granér M, Bjornson E, Arif M, Benfeitas R, Nyman K, Ståhlman M, Pentikäinen MO, Lundbom J, Hakkarainen A, Sirén R, Nieminen MS, Lundbom N, Lauerma K, Taskinen MR, Mardinoglu A, Boren J.

Sci Rep. 2018 Sep 21;8(1):14200. doi: 10.1038/s41598-018-31865-w.

23.

Metabolic Network-Based Identification and Prioritization of Anticancer Targets Based on Expression Data in Hepatocellular Carcinoma.

Bidkhori G, Benfeitas R, Elmas E, Kararoudi MN, Arif M, Uhlen M, Nielsen J, Mardinoglu A.

Front Physiol. 2018 Jul 17;9:916. doi: 10.3389/fphys.2018.00916. eCollection 2018.

24.

Understanding the Representative Gut Microbiota Dysbiosis in Metformin-Treated Type 2 Diabetes Patients Using Genome-Scale Metabolic Modeling.

Rosario D, Benfeitas R, Bidkhori G, Zhang C, Uhlen M, Shoaie S, Mardinoglu A.

Front Physiol. 2018 Jun 25;9:775. doi: 10.3389/fphys.2018.00775. eCollection 2018.

25.

High Cell Density Perfusion Culture has a Maintained Exoproteome and Metabolome.

Zamani L, Lundqvist M, Zhang Y, Aberg M, Edfors F, Bidkhori G, Lindahl A, Mie A, Mardinoglu A, Field R, Turner R, Rockberg J, Chotteau V.

Biotechnol J. 2018 Oct;13(10):e1800036. doi: 10.1002/biot.201800036. Epub 2018 Jul 13.

PMID:
29957873
26.

Drug Repositioning for Effective Prostate Cancer Treatment.

Turanli B, Grøtli M, Boren J, Nielsen J, Uhlen M, Arga KY, Mardinoglu A.

Front Physiol. 2018 May 15;9:500. doi: 10.3389/fphys.2018.00500. eCollection 2018. Review.

27.

Transcriptome profiling of the interconnection of pathways involved in malignant transformation and response to hypoxia.

Danielsson F, Fasterius E, Sullivan D, Hases L, Sanli K, Zhang C, Mardinoglu A, Al-Khalili C, Huss M, Uhlén M, Williams C, Lundberg E.

Oncotarget. 2018 Apr 13;9(28):19730-19744. doi: 10.18632/oncotarget.24808. eCollection 2018 Apr 13.

28.

Systems biology in hepatology: approaches and applications.

Mardinoglu A, Boren J, Smith U, Uhlen M, Nielsen J.

Nat Rev Gastroenterol Hepatol. 2018 Jun;15(6):365-377. doi: 10.1038/s41575-018-0007-8. Review.

PMID:
29686404
29.

Identification of Discriminating Metabolic Pathways and Metabolites in Human PBMCs Stimulated by Various Pathogenic Agents.

Zhang X, Mardinoglu A, Joosten LAB, Kuivenhoven JA, Li Y, Netea MG, Groen AK.

Front Physiol. 2018 Feb 27;9:139. doi: 10.3389/fphys.2018.00139. eCollection 2018.

30.

Combined ASRGL1 and p53 immunohistochemistry as an independent predictor of survival in endometrioid endometrial carcinoma.

Huvila J, Laajala TD, Edqvist PH, Mardinoglu A, Talve L, Pontén F, Grénman S, Carpén O, Aittokallio T, Auranen A.

Gynecol Oncol. 2018 Apr;149(1):173-180. doi: 10.1016/j.ygyno.2018.02.016. Epub 2018 Mar 2.

PMID:
29486992
31.

Translational study reveals a two-faced role of RBM3 in pancreatic cancer and suggests its potential value as a biomarker for improved patient stratification.

Karnevi E, Dror LB, Mardinoglu A, Elebro J, Heby M, Olofsson SE, Nodin B, Eberhard J, Gallagher W, Uhlén M, Jirström K.

Oncotarget. 2017 Dec 15;9(5):6188-6200. doi: 10.18632/oncotarget.23486. eCollection 2018 Jan 19.

32.

An Integrated Understanding of the Rapid Metabolic Benefits of a Carbohydrate-Restricted Diet on Hepatic Steatosis in Humans.

Mardinoglu A, Wu H, Bjornson E, Zhang C, Hakkarainen A, Räsänen SM, Lee S, Mancina RM, Bergentall M, Pietiläinen KH, Söderlund S, Matikainen N, Ståhlman M, Bergh PO, Adiels M, Piening BD, Granér M, Lundbom N, Williams KJ, Romeo S, Nielsen J, Snyder M, Uhlén M, Bergström G, Perkins R, Marschall HU, Bäckhed F, Taskinen MR, Borén J.

Cell Metab. 2018 Mar 6;27(3):559-571.e5. doi: 10.1016/j.cmet.2018.01.005. Epub 2018 Feb 15.

33.

Broad Views of Non-alcoholic Fatty Liver Disease.

Mardinoglu A, Uhlen M, Borén J.

Cell Syst. 2018 Jan 24;6(1):7-9. doi: 10.1016/j.cels.2018.01.004.

34.

Integrative Personal Omics Profiles during Periods of Weight Gain and Loss.

Piening BD, Zhou W, Contrepois K, Röst H, Gu Urban GJ, Mishra T, Hanson BM, Bautista EJ, Leopold S, Yeh CY, Spakowicz D, Banerjee I, Chen C, Kukurba K, Perelman D, Craig C, Colbert E, Salins D, Rego S, Lee S, Zhang C, Wheeler J, Sailani MR, Liang L, Abbott C, Gerstein M, Mardinoglu A, Smith U, Rubin DL, Pitteri S, Sodergren E, McLaughlin TL, Weinstock GM, Snyder MP.

Cell Syst. 2018 Feb 28;6(2):157-170.e8. doi: 10.1016/j.cels.2017.12.013. Epub 2018 Jan 17.

35.

Letter: dose-response analysis revealed closer relationship between obesity and perioperative outcomes in patients after liver transplantation.

Liu Z, Mardinoglu A, Que S.

Aliment Pharmacol Ther. 2018 Jan;47(2):310-312. doi: 10.1111/apt.14425. No abstract available.

36.

Elevated Plasma Levels of 3-Hydroxyisobutyric Acid Are Associated With Incident Type 2 Diabetes.

Mardinoglu A, Gogg S, Lotta LA, Stančáková A, Nerstedt A, Boren J, Blüher M, Ferrannini E, Langenberg C, Wareham NJ, Laakso M, Smith U.

EBioMedicine. 2018 Jan;27:151-155. doi: 10.1016/j.ebiom.2017.12.008. Epub 2017 Dec 7.

37.

TCSBN: a database of tissue and cancer specific biological networks.

Lee S, Zhang C, Arif M, Liu Z, Benfeitas R, Bidkhori G, Deshmukh S, Al Shobky M, Lovric A, Boren J, Nielsen J, Uhlen M, Mardinoglu A.

Nucleic Acids Res. 2018 Jan 4;46(D1):D595-D600. doi: 10.1093/nar/gkx994.

38.

The effect of the TM6SF2 E167K variant on liver steatosis and fibrosis in patients with chronic hepatitis C: a meta-analysis.

Liu Z, Que S, Zhou L, Zheng S, Romeo S, Mardinoglu A, Valenti L.

Sci Rep. 2017 Aug 24;7(1):9273. doi: 10.1038/s41598-017-09548-9.

39.

Network analyses identify liver-specific targets for treating liver diseases.

Lee S, Zhang C, Liu Z, Klevstig M, Mukhopadhyay B, Bergentall M, Cinar R, Ståhlman M, Sikanic N, Park JK, Deshmukh S, Harzandi AM, Kuijpers T, Grøtli M, Elsässer SJ, Piening BD, Snyder M, Smith U, Nielsen J, Bäckhed F, Kunos G, Uhlen M, Boren J, Mardinoglu A.

Mol Syst Biol. 2017 Aug 21;13(8):938. doi: 10.15252/msb.20177703.

40.

A pathology atlas of the human cancer transcriptome.

Uhlen M, Zhang C, Lee S, Sjöstedt E, Fagerberg L, Bidkhori G, Benfeitas R, Arif M, Liu Z, Edfors F, Sanli K, von Feilitzen K, Oksvold P, Lundberg E, Hober S, Nilsson P, Mattsson J, Schwenk JM, Brunnström H, Glimelius B, Sjöblom T, Edqvist PH, Djureinovic D, Micke P, Lindskog C, Mardinoglu A, Ponten F.

Science. 2017 Aug 18;357(6352). pii: eaan2507. doi: 10.1126/science.aan2507.

PMID:
28818916
41.

Plasma Mannose Levels Are Associated with Incident Type 2 Diabetes and Cardiovascular Disease.

Mardinoglu A, Stančáková A, Lotta LA, Kuusisto J, Boren J, Blüher M, Wareham NJ, Ferrannini E, Groop PH, Laakso M, Langenberg C, Smith U.

Cell Metab. 2017 Aug 1;26(2):281-283. doi: 10.1016/j.cmet.2017.07.006.

42.

New Challenges to Study Heterogeneity in Cancer Redox Metabolism.

Benfeitas R, Uhlen M, Nielsen J, Mardinoglu A.

Front Cell Dev Biol. 2017 Jul 11;5:65. doi: 10.3389/fcell.2017.00065. eCollection 2017. Review.

43.

Improving the economics of NASH/NAFLD treatment through the use of systems biology.

Bosley J, Boren C, Lee S, Grøtli M, Nielsen J, Uhlen M, Boren J, Mardinoglu A.

Drug Discov Today. 2017 Oct;22(10):1532-1538. doi: 10.1016/j.drudis.2017.07.005. Epub 2017 Jul 20. Review.

PMID:
28736156
44.

Rediscussion on linearity between fibrosis stages and mortality risk in nonalcoholic fatty liver disease patients.

Liu Z, Que S, Mardinoglu A.

Hepatology. 2017 Oct;66(4):1357-1358. doi: 10.1002/hep.29390. Epub 2017 Sep 4. No abstract available.

PMID:
28727167
45.

Predicting growth of the healthy infant using a genome scale metabolic model.

Nilsson A, Mardinoglu A, Nielsen J.

NPJ Syst Biol Appl. 2017 Jan 31;3:3. doi: 10.1038/s41540-017-0004-5. eCollection 2017.

46.

A subcellular map of the human proteome.

Thul PJ, Åkesson L, Wiking M, Mahdessian D, Geladaki A, Ait Blal H, Alm T, Asplund A, Björk L, Breckels LM, Bäckström A, Danielsson F, Fagerberg L, Fall J, Gatto L, Gnann C, Hober S, Hjelmare M, Johansson F, Lee S, Lindskog C, Mulder J, Mulvey CM, Nilsson P, Oksvold P, Rockberg J, Schutten R, Schwenk JM, Sivertsson Å, Sjöstedt E, Skogs M, Stadler C, Sullivan DP, Tegel H, Winsnes C, Zhang C, Zwahlen M, Mardinoglu A, Pontén F, von Feilitzen K, Lilley KS, Uhlén M, Lundberg E.

Science. 2017 May 26;356(6340). pii: eaal3321. doi: 10.1126/science.aal3321. Epub 2017 May 11.

PMID:
28495876
47.

AUP1 (Ancient Ubiquitous Protein 1): A Molecular Link Between Hepatic Lipid Mobilization and VLDL Secretion.

Mardinoglu A, Borén J.

Arterioscler Thromb Vasc Biol. 2017 Apr;37(4):609-610. doi: 10.1161/ATVBAHA.117.309152. No abstract available.

PMID:
28330944
48.

Personal model-assisted identification of NAD+ and glutathione metabolism as intervention target in NAFLD.

Mardinoglu A, Bjornson E, Zhang C, Klevstig M, Söderlund S, Ståhlman M, Adiels M, Hakkarainen A, Lundbom N, Kilicarslan M, Hallström BM, Lundbom J, Vergès B, Barrett PH, Watts GF, Serlie MJ, Nielsen J, Uhlén M, Smith U, Marschall HU, Taskinen MR, Boren J.

Mol Syst Biol. 2017 Mar 2;13(3):916. doi: 10.15252/msb.20167422.

49.

Editorial: The Impact of Systems Medicine on Human Health and Disease.

Mardinoglu A, Nielsen J.

Front Physiol. 2016 Nov 24;7:552. eCollection 2016. No abstract available.

50.

Adaptive Evolution of Phosphorus Metabolism in Prochlorococcus.

Casey JR, Mardinoglu A, Nielsen J, Karl DM.

mSystems. 2016 Nov 15;1(6). pii: e00065-16. eCollection 2016 Nov-Dec.

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