Fredrik Ponten

Fredrik Ponten

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Fredrik Ponten

Publications by authors named "Fredrik Ponten"

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Systematic assessment of antibody selectivity in plasma based on a resource of enrichment profiles.

Sci Rep 2019 Jun 6;9(1):8324. Epub 2019 Jun 6.

Division of Affinity Proteomics, Science for Life Laboratory, Department of Protein Science, KTH - Royal Institute of Technology, 171 21, Solna, Sweden.

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http://dx.doi.org/10.1038/s41598-019-43552-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6554399PMC
June 2019

Tumoral Pyruvate Kinase L/R as a Predictive Marker for the Treatment of Renal Cancer Patients with Sunitinib and Sorafenib.

J Cancer 2019 2;10(14):3224-3231. Epub 2019 Jun 2.

Department of Immunology, Genetics and Pathology, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.7150/jca.30130DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6603390PMC
June 2019

Prognostic Impact of Tumor Cell Programmed Death Ligand 1 Expression and Immune Cell Infiltration in NSCLC.

J Thorac Oncol 2019 04 9;14(4):628-640. Epub 2019 Jan 9.

Leibniz Research Centre for Working Environment and Human Factors (IfADo) at TU Dortmund University, Dortmund, Germany.

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http://dx.doi.org/10.1016/j.jtho.2018.12.022DOI Listing
April 2019

Mining the Human Tissue Proteome for Protein Citrullination.

Mol Cell Proteomics 2018 07 2;17(7):1378-1391. Epub 2018 Apr 2.

From the ‡Chair of Proteomics and Bioanalytics, Technical University of Munich, Freising, Germany;

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http://dx.doi.org/10.1074/mcp.RA118.000696DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030718PMC
July 2018

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

Gynecol Oncol 2018 04 2;149(1):173-180. Epub 2018 Mar 2.

Department of Gynaecology and Obstetrics, University of Tampere, Tampere University Hospital, PL2000, 33521 Tampere, Finland.

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http://dx.doi.org/10.1016/j.ygyno.2018.02.016DOI Listing
April 2018

In situ protein detection with enhanced specificity using DNA-conjugated antibodies and proximity ligation.

Mod Pathol 2018 02 22;31(2):253-263. Epub 2017 Sep 22.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, BMC, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1038/modpathol.2017.102DOI Listing
February 2018

Cetuximab sensitivity of head and neck squamous cell carcinoma xenografts is associated with treatment-induced reduction in EGFR, pEGFR, and pSrc.

J Oral Pathol Med 2017 Oct 28;46(9):717-724. Epub 2017 Jan 28.

Department of ENT - Head and Neck Surgery, County Council of Östergötland, Linköping, Sweden.

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http://doi.wiley.com/10.1111/jop.12545
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http://dx.doi.org/10.1111/jop.12545DOI Listing
October 2017

Breast cancer in young women and prognosis: How important are proliferation markers?

Eur J Cancer 2017 10 29;84:278-289. Epub 2017 Aug 29.

Karolinska Institutet, Department of Molecular Medicine and Surgery, Stockholm, Sweden; Department of Breast- and Endocrine Surgery, Karolinska University Hospital, Stockholm, Sweden.

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http://dx.doi.org/10.1016/j.ejca.2017.07.044DOI Listing
October 2017

Tumoral ANXA1 Is a Predictive Marker for Sunitinib Treatment of Renal Cancer Patients.

J Cancer 2017 23;8(19):3975-3983. Epub 2017 Oct 23.

Department of Immunology, Genetics and Pathology, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.7150/jca.20889DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5705999PMC
October 2017

Serotonin, ATRX, and DAXX Expression in Pituitary Adenomas: Markers in the Differential Diagnosis of Neuroendocrine Tumors of the Sellar Region.

Am J Surg Pathol 2017 Sep;41(9):1238-1246

Departments of *Immunology, Genetics and Pathology §Medical Sciences ∥Surgical Sciences, Uppsala University †Department of Clinical Pathology, Uppsala University Hospital, Uppsala, Sweden ‡Department of Pathology, Oslo University Hospital, Oslo, Norway ¶Department of Pathology, Odense University Hospital #Department of Clinical Research, University of Southern Denmark, Odense, Denmark **Faculty of Medicine Lyon-Est ††Centre de Pathologie et de Biologie Est, Groupement Hospitalier Est, Hospices Civils de Lyon, University of Lyon, Lyon, France.

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http://dx.doi.org/10.1097/PAS.0000000000000908DOI Listing
September 2017

Tumoral cubilin is a predictive marker for treatment of renal cancer patients with sunitinib and sorafenib.

J Cancer Res Clin Oncol 2017 Jun 4;143(6):961-970. Epub 2017 Mar 4.

Department of Immunology, Genetics and Pathology, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1007/s00432-017-2365-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5427164PMC
June 2017

The Human Adrenal Gland Proteome Defined by Transcriptomics and Antibody-Based Profiling.

Endocrinology 2017 02;158(2):239-251

Department of Immunology Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1210/en.2016-1758DOI Listing
February 2017

Long-term outcome in young women with breast cancer: a population-based study.

Breast Cancer Res Treat 2016 11 13;160(1):131-143. Epub 2016 Sep 13.

Department of Molecular Medicine and Surgery, Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1007/s10549-016-3983-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5050247PMC
November 2016

A stromal cell population in the large intestine identified by tissue factor expression that is lost during colorectal cancer progression.

Thromb Haemost 2016 Nov 22;116(6):1050-1059. Epub 2016 Sep 22.

Agneta Siegbahn, Department of Medical Sciences, Clinical Chemistry, University Hospital, Entr. 61, 3rd floor, S-751 85 Uppsala, Sweden, Tel.: +46 186114251, Fax: +46 18552562, E-mail:

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http://dx.doi.org/10.1160/TH16-04-0267DOI Listing
November 2016

ANLN is a prognostic biomarker independent of Ki-67 and essential for cell cycle progression in primary breast cancer.

BMC Cancer 2016 11 18;16(1):904. Epub 2016 Nov 18.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1186/s12885-016-2923-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5116155PMC
November 2016

Gene-specific correlation of RNA and protein levels in human cells and tissues.

Mol Syst Biol 2016 Oct 20;12(10):883. Epub 2016 Oct 20.

Science for Life Laboratory, KTH - Royal Institute of Technology, Stockholm, Sweden

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5081484PMC
http://dx.doi.org/10.15252/msb.20167144DOI Listing
October 2016

Tissue microarray profiling in human heart failure.

Proteomics 2016 09 11;16(17):2319-26. Epub 2016 Aug 11.

Department of Anatomy and Histology, Bosch Institute, Sydney Medical School, The University of Sydney, Sydney, Australia.

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http://dx.doi.org/10.1002/pmic.201600135DOI Listing
September 2016

Analysis of Body-wide Unfractionated Tissue Data to Identify a Core Human Endothelial Transcriptome.

Cell Syst 2016 09 15;3(3):287-301.e3. Epub 2016 Sep 15.

Science for Life Laboratory, School of Biotechnology, Royal Institute of Technology (KTH), 171 21 Stockholm, Sweden; Coagulation Unit, Centre for Hematology, Karolinska University Hospital, 171 76 Stockholm, Sweden.

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http://dx.doi.org/10.1016/j.cels.2016.08.001DOI Listing
September 2016

SATB2 is expressed in Merkel cell carcinoma.

Arch Dermatol Res 2016 Aug 4;308(6):449-54. Epub 2016 Jun 4.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, 751 85, Uppsala, Sweden.

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http://dx.doi.org/10.1007/s00403-016-1655-6DOI Listing
August 2016

GPR44 is a pancreatic protein restricted to the human beta cell.

Acta Diabetol 2016 Jun 14;53(3):413-21. Epub 2015 Oct 14.

Department of Medicinal Chemistry, Preclinical PET Platform, Uppsala University, 751 83, Uppsala, Sweden.

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http://dx.doi.org/10.1007/s00592-015-0811-3DOI Listing
June 2016

Transcriptomics resources of human tissues and organs.

Mol Syst Biol 2016 Apr 4;12(4):862. Epub 2016 Apr 4.

Science for Life Laboratory, KTH - Royal Institute of Technology, Stockholm, Sweden Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Hørsholm, Denmark Department of Biology and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4848759PMC
http://dx.doi.org/10.15252/msb.20155865DOI Listing
April 2016

Oncogene-Induced Senescence in Pituitary Adenomas--an Immunohistochemical Study.

Endocr Pathol 2016 Mar;27(1):1-11

Department of Immunology, Genetics and Pathology, Uppsala University, Rudbeck Laboratory, Dag Hammarskjölds väg 20, Uppsala, Sweden.

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http://dx.doi.org/10.1007/s12022-015-9405-4DOI Listing
March 2016

System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.

Cell Syst 2016 03 3;2(3):172-84. Epub 2016 Mar 3.

Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 6997801, Israel. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2016.02.001DOI Listing
March 2016

The Human Endometrium-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling.

OMICS 2015 Nov 21;19(11):659-68. Epub 2015 Oct 21.

1 Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University , Uppsala, Sweden .

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http://dx.doi.org/10.1089/omi.2015.0115DOI Listing
November 2015

The kidney transcriptome and proteome defined by transcriptomics and antibody-based profiling.

PLoS One 2014 31;9(12):e116125. Epub 2014 Dec 31.

School of Biotechnology, Science for Life Laboratory, KTH - Royal Institute of Technology, Stockholm, Sweden; Department of Medicine, Karolinska Institutet and Centre for Hematology, Karolinska University Hospital, Stockholm, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0116125PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4281243PMC
October 2015

The human pancreas proteome defined by transcriptomics and antibody-based profiling.

PLoS One 2014 29;9(12):e115421. Epub 2014 Dec 29.

Science for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University, Uppsala, Sweden.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0115421PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4278897PMC
September 2015

Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium.

Nucleic Acids Res 2015 Aug 27;43(14):6787-98. Epub 2015 Jun 27.

Department of Biosciences and Nutrition, Karolinska Institute, Huddinge, 14183, Sweden Science for Life Laboratory, Karolinska Institute, Solna, 17121, Sweden RIKEN Center for Life Science Technologies (CLST), Division of Genomic Technologies, RIKEN Yokohama Institute, Tsurumi-ku, Yokohama, 230-0045, Japan RIKEN Omics Science Center1, Yokohama, Kanagawa, 230-0045, Japan

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gkv608DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4538815PMC
August 2015

Epigenetic activation of a cryptic TBC1D16 transcript enhances melanoma progression by targeting EGFR.

Nat Med 2015 Jul 1;21(7):741-50. Epub 2015 Jun 1.

1] Cancer Epigenetics and Biology Program, Bellvitge Biomedical Research Institute, L'Hospitalet, Barcelona, Catalonia, Spain. [2] Department of Physiological Sciences II, School of Medicine, University of Barcelona, Barcelona, Catalonia, Spain. [3] Institucio Catalana de Recerca i Estudis Avançats, Barcelona, Catalonia, Spain.

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http://dx.doi.org/10.1038/nm.3863DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4968631PMC
July 2015

Foxf2 Is Required for Brain Pericyte Differentiation and Development and Maintenance of the Blood-Brain Barrier.

Dev Cell 2015 Jul 25;34(1):19-32. Epub 2015 Jun 25.

Department of Chemistry and Molecular Biology, University of Gothenburg, Box 462, 405 30 Gothenburg, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.devcel.2015.05.008DOI Listing
July 2015

Loss of ASRGL1 expression is an independent biomarker for disease-specific survival in endometrioid endometrial carcinoma.

Gynecol Oncol 2015 Jun 7;137(3):529-37. Epub 2015 Apr 7.

Department of Gynecology and Obstetrics, University of Turku, Turku, Finland; Department of Gynecology and Obstetrics, Turku University Hospital, Turku, Finland.

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http://dx.doi.org/10.1016/j.ygyno.2015.03.055DOI Listing
June 2015

Tumor vessel up-regulation of INSR revealed by single-cell expression analysis of the tyrosine kinome and phosphatome in human cancers.

Am J Pathol 2015 Jun 10;185(6):1600-9. Epub 2015 Apr 10.

Science for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University, Uppsala, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.ajpath.2015.02.019DOI Listing
June 2015

A prognosis based classification of undifferentiated uterine sarcomas: identification of mitotic index, hormone receptors and YWHAE-FAM22 translocation status as predictors of survival.

Int J Cancer 2015 Apr 27;136(7):1608-18. Epub 2014 Aug 27.

Department of Immunology, Genetics and Pathology, Uppsala University, S-751 85, Uppsala, Sweden; Science for Life Laboratory, Uppsala University, S-751 85, Uppsala, Sweden.

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http://dx.doi.org/10.1002/ijc.29141DOI Listing
April 2015

FGF2 as a potential prognostic biomarker for proneural glioma patients.

Acta Oncol 2015 Mar 29;54(3):385-94. Epub 2014 Sep 29.

Department of Radiology, Oncology and Radiation Sciences, Section of Oncology, Rudbeck Laboratory , Uppsala , Sweden.

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http://dx.doi.org/10.3109/0284186X.2014.951492DOI Listing
March 2015

Expression of human skin-specific genes defined by transcriptomics and antibody-based profiling.

J Histochem Cytochem 2015 02 19;63(2):129-41. Epub 2014 Nov 19.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden (PHDE, AD, KE, FP)

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http://dx.doi.org/10.1369/0022155414562646DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4305515PMC
February 2015

The human gastrointestinal tract-specific transcriptome and proteome as defined by RNA sequencing and antibody-based profiling.

J Gastroenterol 2015 Jan 1;50(1):46-57. Epub 2014 May 1.

Department of Immunology, Genetics and Pathology, Rudbeck Laboratory, Uppsala University, Dag Hammarskjölds Väg 20, 751 85, Uppsala, Sweden,

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http://dx.doi.org/10.1007/s00535-014-0958-7DOI Listing
January 2015

The lung-specific proteome defined by integration of transcriptomics and antibody-based profiling.

FASEB J 2014 Dec 28;28(12):5184-96. Epub 2014 Aug 28.

Rudbeck Laboratory, Science for Life Laboratory, Uppsala University, Uppsala, Sweden;

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http://dx.doi.org/10.1096/fj.14-254862DOI Listing
December 2014

Defining the human gallbladder proteome by transcriptomics and affinity proteomics.

Proteomics 2014 Nov 9;14(21-22):2498-507. Epub 2014 Oct 9.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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http://doi.wiley.com/10.1002/pmic.201400201
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http://dx.doi.org/10.1002/pmic.201400201DOI Listing
November 2014

Defining the human adipose tissue proteome to reveal metabolic alterations in obesity.

J Proteome Res 2014 Nov 25;13(11):5106-19. Epub 2014 Sep 25.

Department of Chemical and Biological Engineering, Chalmers University of Technology , 412 96 Gothenburg, Sweden.

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http://dx.doi.org/10.1021/pr500586eDOI Listing
November 2014

Analysis of candidate genes for lineage-specific expression changes in humans and primates.

J Proteome Res 2014 Aug 15;13(8):3596-606. Epub 2014 Jul 15.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University , Dag Hammarskjölds väg 20, SE-751 85 Uppsala, Sweden.

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http://dx.doi.org/10.1021/pr500045fDOI Listing
August 2014

The human liver-specific proteome defined by transcriptomics and antibody-based profiling.

FASEB J 2014 Jul 19;28(7):2901-14. Epub 2014 Mar 19.

Science for Life Laboratory and Department of Proteomics, School of Biotechnology, Royal Institute of Technology (KTH), Stockholm, Sweden

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http://dx.doi.org/10.1096/fj.14-250555DOI Listing
July 2014

Decreased decorin expression in the tumor microenvironment.

Cancer Med 2014 Jun 17;3(3):485-91. Epub 2014 Mar 17.

Department of Microbiology, Tumor and Cell Biology (MTC), Karolinska Institutet, Stockholm, Sweden.

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http://dx.doi.org/10.1002/cam4.231DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4101739PMC
June 2014

Garbage in, garbage out: a critical evaluation of strategies used for validation of immunohistochemical biomarkers.

Mol Oncol 2014 Jun 21;8(4):783-98. Epub 2014 Mar 21.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, 751 85 Uppsala, Sweden.

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http://dx.doi.org/10.1016/j.molonc.2014.03.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5528533PMC
June 2014

PTPN6 expression is epigenetically regulated and influences survival and response to chemotherapy in high-grade gliomas.

Tumour Biol 2014 May 9;35(5):4479-88. Epub 2014 Feb 9.

Rudbeck Laboratory, Section of Oncology, Department of Radiology, Oncology and Radiation Sciences, Uppsala University, 751 85, Uppsala, Sweden,

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http://dx.doi.org/10.1007/s13277-013-1590-5DOI Listing
May 2014

WNT5A-mediated β-catenin-independent signalling is a novel regulator of cancer cell metabolism.

Carcinogenesis 2014 Apr 30;35(4):784-94. Epub 2013 Nov 30.

Cell and Experimental Pathology, Department of Laboratory Medicine, Lund University, Clinical Research Centre, Skåne University Hospital, SE-20502 Malmö, Sweden.

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http://dx.doi.org/10.1093/carcin/bgt390DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3977146PMC
April 2014

A study of embryonic stem cell-related proteins in human astrocytomas: identification of Nanog as a predictor of survival.

Int J Cancer 2014 Mar 16;134(5):1123-31. Epub 2013 Sep 16.

Department of Neuroscience, Neurology, Uppsala University, University Hospital, S-751 85, Uppsala; Karolinska Institute, Department of Oncology-Pathology, CCK R8:05, Karolinska University Hospital, S-17176, Stockholm, Sweden.

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http://dx.doi.org/10.1002/ijc.28441DOI Listing
March 2014

Detection of enterovirus in the islet cells of patients with type 1 diabetes: what do we learn from immunohistochemistry?

Diabetologia 2014 Mar 19;57(3):645-6. Epub 2013 Dec 19.

Proteomics Core Facility, University of Gothenburg, Gothenburg, Sweden.

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http://dx.doi.org/10.1007/s00125-013-3138-zDOI Listing
March 2014

Antibody performance in western blot applications is context-dependent.

Biotechnol J 2014 Mar 29;9(3):435-45. Epub 2014 Jan 29.

Division of Proteomics, School of Biotechnology, Albanova University Center, KTH - Royal Institute of Technology, Stockholm, Sweden.

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http://dx.doi.org/10.1002/biot.201300341DOI Listing
March 2014

Colorectal cancer candidate biomarkers identified by tissue secretome proteome profiling.

J Proteomics 2014 Mar 10;99:26-39. Epub 2014 Jan 10.

Department of Pathology (Tumor Profiling Unit), VU University Medical Center, Amsterdam, The Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2014.01.001DOI Listing
March 2014

Subtyping of gliomas of various WHO grades by the application of immunohistochemistry.

Histopathology 2014 Feb 5;64(3):365-79. Epub 2013 Nov 5.

Department of Pathology and Cytology, Uppsala University Hospital, Uppsala, Sweden.

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http://dx.doi.org/10.1111/his.12252DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4670475PMC
February 2014

Evidence for a morphologically distinct and functionally robust cell type in the proximal tubules of human kidney.

Hum Pathol 2014 Feb 18;45(2):382-93. Epub 2013 Oct 18.

Department of Laboratory Medicine, Center for Molecular Pathology, Lund University, Skåne University Hospital, Malmö, Jan Waldenströms gata 59, SE-205 02 Malmö, Sweden. Electronic address:

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http://dx.doi.org/10.1016/j.humpath.2013.10.003DOI Listing
February 2014

A systematic analysis of commonly used antibodies in cancer diagnostics.

Histopathology 2014 Jan 5;64(2):293-305. Epub 2013 Nov 5.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden.

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http://dx.doi.org/10.1111/his.12255DOI Listing
January 2014

Antibodies biotinylated using a synthetic Z-domain from protein A provide stringent in situ protein detection.

J Histochem Cytochem 2013 Nov 6;61(11):773-84. Epub 2013 Aug 6.

Department of Immunology, Genetics and Pathology, Science for Life Laboratory, Rudbeck Laboratory, Uppsala University, Uppsala, Sweden (SA,NA,FP,AA).

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http://journals.sagepub.com/doi/10.1369/0022155413502360
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http://dx.doi.org/10.1369/0022155413502360DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3808578PMC
November 2013

In situ Protein Detection for Companion Diagnostics.

Front Oncol 2013 Oct 31;3:271. Epub 2013 Oct 31.

Science for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University , Uppsala , Sweden.

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http://dx.doi.org/10.3389/fonc.2013.00271DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3814083PMC
October 2013