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Items: 1 to 50 of 85

1.

A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons.

Södersten E, Toskas K, Rraklli V, Tiklova K, Björklund ÅK, Ringnér M, Perlmann T, Holmberg J.

Nat Commun. 2018 Mar 26;9(1):1226. doi: 10.1038/s41467-018-03538-9.

2.

Mutational and putative neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma.

Lauss M, Donia M, Harbst K, Andersen R, Mitra S, Rosengren F, Salim M, Vallon-Christersson J, Törngren T, Kvist A, Ringnér M, Svane IM, Jönsson G.

Nat Commun. 2017 Nov 23;8(1):1738. doi: 10.1038/s41467-017-01460-0.

3.

Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration.

Smid M, Rodríguez-González FG, Sieuwerts AM, Salgado R, Prager-Van der Smissen WJ, Vlugt-Daane MV, van Galen A, Nik-Zainal S, Staaf J, Brinkman AB, van de Vijver MJ, Richardson AL, Fatima A, Berentsen K, Butler A, Martin S, Davies HR, Debets R, Gelder ME, van Deurzen CH, MacGrogan G, Van den Eynden GG, Purdie C, Thompson AM, Caldas C, Span PN, Simpson PT, Lakhani SR, Van Laere S, Desmedt C, Ringnér M, Tommasi S, Eyford J, Broeks A, Vincent-Salomon A, Futreal PA, Knappskog S, King T, Thomas G, Viari A, Langerød A, Børresen-Dale AL, Birney E, Stunnenberg HG, Stratton M, Foekens JA, Martens JW.

Nat Commun. 2016 Sep 26;7:12910. doi: 10.1038/ncomms12910.

4.

Consensus of gene expression phenotypes and prognostic risk predictors in primary lung adenocarcinoma.

Ringnér M, Staaf J.

Oncotarget. 2016 Aug 16;7(33):52957-52973. doi: 10.18632/oncotarget.10641.

5.

Landscape of somatic mutations in 560 breast cancer whole-genome sequences.

Nik-Zainal S, Davies H, Staaf J, Ramakrishna M, Glodzik D, Zou X, Martincorena I, Alexandrov LB, Martin S, Wedge DC, Van Loo P, Ju YS, Smid M, Brinkman AB, Morganella S, Aure MR, Lingjærde OC, Langerød A, Ringnér M, Ahn SM, Boyault S, Brock JE, Broeks A, Butler A, Desmedt C, Dirix L, Dronov S, Fatima A, Foekens JA, Gerstung M, Hooijer GK, Jang SJ, Jones DR, Kim HY, King TA, Krishnamurthy S, Lee HJ, Lee JY, Li Y, McLaren S, Menzies A, Mustonen V, O'Meara S, Pauporté I, Pivot X, Purdie CA, Raine K, Ramakrishnan K, Rodríguez-González FG, Romieu G, Sieuwerts AM, Simpson PT, Shepherd R, Stebbings L, Stefansson OA, Teague J, Tommasi S, Treilleux I, Van den Eynden GG, Vermeulen P, Vincent-Salomon A, Yates L, Caldas C, van't Veer L, Tutt A, Knappskog S, Tan BK, Jonkers J, Borg Å, Ueno NT, Sotiriou C, Viari A, Futreal PA, Campbell PJ, Span PN, Van Laere S, Lakhani SR, Eyfjord JE, Thompson AM, Birney E, Stunnenberg HG, van de Vijver MJ, Martens JW, Børresen-Dale AL, Richardson AL, Kong G, Thomas G, Stratton MR.

Nature. 2016 Jun 2;534(7605):47-54. doi: 10.1038/nature17676. Epub 2016 May 2.

6.

An integrated genomics analysis of epigenetic subtypes in human breast tumors links DNA methylation patterns to chromatin states in normal mammary cells.

Holm K, Staaf J, Lauss M, Aine M, Lindgren D, Bendahl PO, Vallon-Christersson J, Barkardottir RB, Höglund M, Borg Å, Jönsson G, Ringnér M.

Breast Cancer Res. 2016 Feb 29;18(1):27. doi: 10.1186/s13058-016-0685-5.

7.

DNA methylation subgroups in melanoma are associated with proliferative and immunological processes.

Lauss M, Ringnér M, Karlsson A, Harbst K, Busch C, Geisler J, Lønning PE, Staaf J, Jönsson G.

BMC Med Genomics. 2015 Nov 6;8:73. doi: 10.1186/s12920-015-0147-4.

8.

Prognostic and Chemotherapy Predictive Value of Gene-Expression Phenotypes in Primary Lung Adenocarcinoma.

Ringnér M, Jönsson G, Staaf J.

Clin Cancer Res. 2016 Jan 1;22(1):218-29. doi: 10.1158/1078-0432.CCR-15-0529. Epub 2015 Aug 11.

9.

Genome methylation patterns in male breast cancer - Identification of an epitype with hypermethylation of polycomb target genes.

Johansson I, Lauss M, Holm K, Staaf J, Nilsson C, Fjällskog ML, Ringnér M, Hedenfalk I.

Mol Oncol. 2015 Oct;9(8):1565-79. doi: 10.1016/j.molonc.2015.04.013. Epub 2015 May 8.

10.

MicroRNA-200c-141 and ∆Np63 are required for breast epithelial differentiation and branching morphogenesis.

Hilmarsdóttir B, Briem E, Sigurdsson V, Franzdóttir SR, Ringnér M, Arason AJ, Bergthorsson JT, Magnusson MK, Gudjonsson T.

Dev Biol. 2015 Jul 15;403(2):150-61. doi: 10.1016/j.ydbio.2015.05.007. Epub 2015 May 9.

11.

Molecular stratification of metastatic melanoma using gene expression profiling: Prediction of survival outcome and benefit from molecular targeted therapy.

Cirenajwis H, Ekedahl H, Lauss M, Harbst K, Carneiro A, Enoksson J, Rosengren F, Werner-Hartman L, Törngren T, Kvist A, Fredlund E, Bendahl PO, Jirström K, Lundgren L, Howlin J, Borg Å, Gruvberger-Saal SK, Saal LH, Nielsen K, Ringnér M, Tsao H, Olsson H, Ingvar C, Staaf J, Jönsson G.

Oncotarget. 2015 May 20;6(14):12297-309.

12.

DNA methylation and histone modifications regulate SOX11 expression in lymphoid and solid cancer cells.

Nordström L, Andersson E, Kuci V, Gustavsson E, Holm K, Ringnér M, Guldberg P, Ek S.

BMC Cancer. 2015 Apr 12;15:273. doi: 10.1186/s12885-015-1208-y.

13.

Integrative epigenomic analysis of differential DNA methylation in urothelial carcinoma.

Aine M, Sjödahl G, Eriksson P, Veerla S, Lindgren D, Ringnér M, Höglund M.

Genome Med. 2015 Mar 10;7(1):23. doi: 10.1186/s13073-015-0144-4. eCollection 2015.

14.

Genome-Wide DNA Methylation Analysis in Melanoma Reveals the Importance of CpG Methylation in MITF Regulation.

Lauss M, Haq R, Cirenajwis H, Phung B, Harbst K, Staaf J, Rosengren F, Holm K, Aine M, Jirström K, Borg Å, Busch C, Geisler J, Lønning PE, Ringnér M, Howlin J, Fisher DE, Jönsson G.

J Invest Dermatol. 2015 Jul;135(7):1820-1828. doi: 10.1038/jid.2015.61. Epub 2015 Feb 23.

15.

Making breast cancer molecular subtypes robust?

Staaf J, Ringnér M.

J Natl Cancer Inst. 2014 Dec 4;107(1):386. doi: 10.1093/jnci/dju386. Print 2015 Jan. No abstract available.

16.

Genome-wide DNA methylation analysis of lung carcinoma reveals one neuroendocrine and four adenocarcinoma epitypes associated with patient outcome.

Karlsson A, Jönsson M, Lauss M, Brunnström H, Jönsson P, Borg Å, Jönsson G, Ringnér M, Planck M, Staaf J.

Clin Cancer Res. 2014 Dec 1;20(23):6127-40. doi: 10.1158/1078-0432.CCR-14-1087. Epub 2014 Oct 2.

17.

Genomic and transcriptional alterations in lung adenocarcinoma in relation to smoking history.

Karlsson A, Ringnér M, Lauss M, Botling J, Micke P, Planck M, Staaf J.

Clin Cancer Res. 2014 Sep 15;20(18):4912-24. doi: 10.1158/1078-0432.CCR-14-0246. Epub 2014 Jul 18.

18.

Primary melanoma tumors from CDKN2A mutation carriers do not belong to a distinct molecular subclass.

Staaf J, Harbst K, Lauss M, Ringnér M, Måsbäck A, Howlin J, Jirström K, Harland M, Zebary A, Palmer JM, Ingvar C, Olsson H, Newton-Bishop J, Hansson J, Hayward N, Gruis N, Jönsson G.

J Invest Dermatol. 2014 Dec;134(12):3000-3003. doi: 10.1038/jid.2014.272. Epub 2014 Jul 7. No abstract available.

19.

The landscape of candidate driver genes differs between male and female breast cancer.

Johansson I, Ringnér M, Hedenfalk I.

PLoS One. 2013 Oct 23;8(10):e78299. doi: 10.1371/journal.pone.0078299. eCollection 2013.

20.

High expression of ZNF703 independent of amplification indicates worse prognosis in patients with luminal B breast cancer.

Reynisdottir I, Arason A, Einarsdottir BO, Gunnarsson H, Staaf J, Vallon-Christersson J, Jonsson G, Ringnér M, Agnarsson BA, Olafsdottir K, Fagerholm R, Einarsdottir T, Johannesdottir G, Johannsson OT, Nevanlinna H, Borg A, Barkardottir RB.

Cancer Med. 2013 Aug;2(4):437-46. doi: 10.1002/cam4.88. Epub 2013 May 22.

21.

Monitoring of technical variation in quantitative high-throughput datasets.

Lauss M, Visne I, Kriegner A, Ringnér M, Jönsson G, Höglund M.

Cancer Inform. 2013 Sep 23;12:193-201. doi: 10.4137/CIN.S12862. eCollection 2013.

22.

Exosomes reflect the hypoxic status of glioma cells and mediate hypoxia-dependent activation of vascular cells during tumor development.

Kucharzewska P, Christianson HC, Welch JE, Svensson KJ, Fredlund E, Ringnér M, Mörgelin M, Bourseau-Guilmain E, Bengzon J, Belting M.

Proc Natl Acad Sci U S A. 2013 Apr 30;110(18):7312-7. doi: 10.1073/pnas.1220998110. Epub 2013 Apr 15.

23.

Nonfamilial breast cancer subtypes.

Ringnér M, Staaf J, Jönsson G.

Methods Mol Biol. 2013;973:279-95. doi: 10.1007/978-1-62703-281-0_18. Review.

PMID:
23412797
24.

The gene expression landscape of breast cancer is shaped by tumor protein p53 status and epithelial-mesenchymal transition.

Fredlund E, Staaf J, Rantala JK, Kallioniemi O, Borg A, Ringnér M.

Breast Cancer Res. 2012 Jul 27;14(4):R113. doi: 10.1186/bcr3236.

25.

Global H3K27 trimethylation and EZH2 abundance in breast tumor subtypes.

Holm K, Grabau D, Lövgren K, Aradottir S, Gruvberger-Saal S, Howlin J, Saal LH, Ethier SP, Bendahl PO, Stål O, Malmström P, Fernö M, Rydén L, Hegardt C, Borg Å, Ringnér M.

Mol Oncol. 2012 Oct;6(5):494-506. doi: 10.1016/j.molonc.2012.06.002. Epub 2012 Jun 20.

26.

The retinoblastoma gene undergoes rearrangements in BRCA1-deficient basal-like breast cancer.

Jönsson G, Staaf J, Vallon-Christersson J, Ringnér M, Gruvberger-Saal SK, Saal LH, Holm K, Hegardt C, Arason A, Fagerholm R, Persson C, Grabau D, Johnsson E, Lövgren K, Magnusson L, Heikkilä P, Agnarsson BA, Johannsson OT, Malmström P, Fernö M, Olsson H, Loman N, Nevanlinna H, Barkardottir RB, Borg Å.

Cancer Res. 2012 Aug 15;72(16):4028-36. Epub 2012 Jun 15.

27.

DNA methylation analyses of urothelial carcinoma reveal distinct epigenetic subtypes and an association between gene copy number and methylation status.

Lauss M, Aine M, Sjödahl G, Veerla S, Patschan O, Gudjonsson S, Chebil G, Lövgren K, Fernö M, Månsson W, Liedberg F, Ringnér M, Lindgren D, Höglund M.

Epigenetics. 2012 Aug;7(8):858-67. doi: 10.4161/epi.20837. Epub 2012 Jun 18.

28.

Molecular profiling reveals low- and high-grade forms of primary melanoma.

Harbst K, Staaf J, Lauss M, Karlsson A, Måsbäck A, Johansson I, Bendahl PO, Vallon-Christersson J, Törngren T, Ekedahl H, Geisler J, Höglund M, Ringnér M, Lundgren L, Jirström K, Olsson H, Ingvar C, Borg Å, Tsao H, Jönsson G.

Clin Cancer Res. 2012 Aug 1;18(15):4026-36. doi: 10.1158/1078-0432.CCR-12-0343. Epub 2012 Jun 6. Erratum in: Clin Cancer Res. 2012 Oct 15;18(20):5829. Höglund, Markus [corrected to Höglund, Mattias]; Ringnér, Mattias [corrected to Ringnér, Markus].

29.

A molecular taxonomy for urothelial carcinoma.

Sjödahl G, Lauss M, Lövgren K, Chebil G, Gudjonsson S, Veerla S, Patschan O, Aine M, Fernö M, Ringnér M, Månsson W, Liedberg F, Lindgren D, Höglund M.

Clin Cancer Res. 2012 Jun 15;18(12):3377-86. doi: 10.1158/1078-0432.CCR-12-0077-T. Epub 2012 May 2.

30.

Gene expression profiling of primary male breast cancers reveals two unique subgroups and identifies N-acetyltransferase-1 (NAT1) as a novel prognostic biomarker.

Johansson I, Nilsson C, Berglund P, Lauss M, Ringnér M, Olsson H, Luts L, Sim E, Thorstensson S, Fjällskog ML, Hedenfalk I.

Breast Cancer Res. 2012 Feb 14;14(1):R31.

31.

Landscape of somatic allelic imbalances and copy number alterations in HER2-amplified breast cancer.

Staaf J, Jönsson G, Ringnér M, Baldetorp B, Borg A.

Breast Cancer Res. 2011;13(6):R129. doi: 10.1186/bcr3075. Epub 2011 Dec 14.

32.

Characterisation of amplification patterns and target genes at chromosome 11q13 in CCND1-amplified sporadic and familial breast tumours.

Holm K, Staaf J, Jönsson G, Vallon-Christersson J, Gunnarsson H, Arason A, Magnusson L, Barkardottir RB, Hegardt C, Ringnér M, Borg A.

Breast Cancer Res Treat. 2012 Jun;133(2):583-94. doi: 10.1007/s10549-011-1817-3. Epub 2011 Oct 16.

PMID:
22002566
33.

CD44 isoforms are heterogeneously expressed in breast cancer and correlate with tumor subtypes and cancer stem cell markers.

Olsson E, Honeth G, Bendahl PO, Saal LH, Gruvberger-Saal S, Ringnér M, Vallon-Christersson J, Jönsson G, Holm K, Lövgren K, Fernö M, Grabau D, Borg A, Hegardt C.

BMC Cancer. 2011 Sep 29;11:418. doi: 10.1186/1471-2407-11-418.

34.

Endothelial induced EMT in breast epithelial cells with stem cell properties.

Sigurdsson V, Hilmarsdottir B, Sigmundsdottir H, Fridriksdottir AJ, Ringnér M, Villadsen R, Borg A, Agnarsson BA, Petersen OW, Magnusson MK, Gudjonsson T.

PLoS One. 2011;6(9):e23833. doi: 10.1371/journal.pone.0023833. Epub 2011 Sep 6.

35.

GOBO: gene expression-based outcome for breast cancer online.

Ringnér M, Fredlund E, Häkkinen J, Borg Å, Staaf J.

PLoS One. 2011 Mar 21;6(3):e17911. doi: 10.1371/journal.pone.0017911.

36.

High-resolution genomic profiling of male breast cancer reveals differences hidden behind the similarities with female breast cancer.

Johansson I, Nilsson C, Berglund P, Strand C, Jönsson G, Staaf J, Ringnér M, Nevanlinna H, Barkardottir RB, Borg A, Olsson H, Luts L, Fjällskog ML, Hedenfalk I.

Breast Cancer Res Treat. 2011 Oct;129(3):747-60. doi: 10.1007/s10549-010-1262-8. Epub 2010 Nov 27.

PMID:
21113657
37.

Multiple metastases from cutaneous malignant melanoma patients may display heterogeneous genomic and epigenomic patterns.

Harbst K, Staaf J, Måsbäck A, Olsson H, Ingvar C, Vallon-Christersson J, Ringnér M, Borg A, Jönsson G.

Melanoma Res. 2010 Oct;20(5):381-91.

PMID:
20848731
38.

Prediction of stage, grade, and survival in bladder cancer using genome-wide expression data: a validation study.

Lauss M, Ringnér M, Höglund M.

Clin Cancer Res. 2010 Sep 1;16(17):4421-33. doi: 10.1158/1078-0432.CCR-10-0606. Epub 2010 Aug 24.

39.

Genomic subtypes of breast cancer identified by array-comparative genomic hybridization display distinct molecular and clinical characteristics.

Jönsson G, Staaf J, Vallon-Christersson J, Ringnér M, Holm K, Hegardt C, Gunnarsson H, Fagerholm R, Strand C, Agnarsson BA, Kilpivaara O, Luts L, Heikkilä P, Aittomäki K, Blomqvist C, Loman N, Malmström P, Olsson H, Johannsson OT, Arason A, Nevanlinna H, Barkardottir RB, Borg A.

Breast Cancer Res. 2010;12(3):R42. doi: 10.1186/bcr2596. Epub 2010 Jun 24.

40.

Molecular subtypes of breast cancer are associated with characteristic DNA methylation patterns.

Holm K, Hegardt C, Staaf J, Vallon-Christersson J, Jönsson G, Olsson H, Borg A, Ringnér M.

Breast Cancer Res. 2010;12(3):R36. doi: 10.1186/bcr2590. Epub 2010 Jun 18.

41.

Gene expression profiling-based identification of molecular subtypes in stage IV melanomas with different clinical outcome.

Jönsson G, Busch C, Knappskog S, Geisler J, Miletic H, Ringnér M, Lillehaug JR, Borg A, Lønning PE.

Clin Cancer Res. 2010 Jul 1;16(13):3356-67. doi: 10.1158/1078-0432.CCR-09-2509. Epub 2010 May 11.

42.

High-resolution genomic and expression analyses of copy number alterations in HER2-amplified breast cancer.

Staaf J, Jönsson G, Ringnér M, Vallon-Christersson J, Grabau D, Arason A, Gunnarsson H, Agnarsson BA, Malmström PO, Johannsson OT, Loman N, Barkardottir RB, Borg A.

Breast Cancer Res. 2010;12(3):R25. doi: 10.1186/bcr2568. Epub 2010 May 6.

43.

An integrative genomics screen uncovers ncRNA T-UCR functions in neuroblastoma tumours.

Mestdagh P, Fredlund E, Pattyn F, Rihani A, Van Maerken T, Vermeulen J, Kumps C, Menten B, De Preter K, Schramm A, Schulte J, Noguera R, Schleiermacher G, Janoueix-Lerosey I, Laureys G, Powel R, Nittner D, Marine JC, Ringnér M, Speleman F, Vandesompele J.

Oncogene. 2010 Jun 17;29(24):3583-92. doi: 10.1038/onc.2010.106. Epub 2010 Apr 12.

PMID:
20383195
44.

Identification of subtypes in human epidermal growth factor receptor 2--positive breast cancer reveals a gene signature prognostic of outcome.

Staaf J, Ringnér M, Vallon-Christersson J, Jönsson G, Bendahl PO, Holm K, Arason A, Gunnarsson H, Hegardt C, Agnarsson BA, Luts L, Grabau D, Fernö M, Malmström PO, Johannsson OT, Loman N, Barkardottir RB, Borg A.

J Clin Oncol. 2010 Apr 10;28(11):1813-20. doi: 10.1200/JCO.2009.22.8775. Epub 2010 Mar 15.

PMID:
20231686
45.
46.

Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios.

Staaf J, Vallon-Christersson J, Lindgren D, Juliusson G, Rosenquist R, Höglund M, Borg A, Ringnér M.

BMC Bioinformatics. 2008 Oct 2;9:409. doi: 10.1186/1471-2105-9-409.

47.

Segmentation-based detection of allelic imbalance and loss-of-heterozygosity in cancer cells using whole genome SNP arrays.

Staaf J, Lindgren D, Vallon-Christersson J, Isaksson A, Göransson H, Juliusson G, Rosenquist R, Höglund M, Borg A, Ringnér M.

Genome Biol. 2008;9(9):R136. doi: 10.1186/gb-2008-9-9-r136. Epub 2008 Sep 16.

48.

High Myc pathway activity and low stage of neuronal differentiation associate with poor outcome in neuroblastoma.

Fredlund E, Ringnér M, Maris JM, Påhlman S.

Proc Natl Acad Sci U S A. 2008 Sep 16;105(37):14094-9. doi: 10.1073/pnas.0804455105. Epub 2008 Sep 9.

49.

Tiling array-CGH for the assessment of genomic similarities among synchronous unilateral and bilateral invasive breast cancer tumor pairs.

Brommesson S, Jönsson G, Strand C, Grabau D, Malmström P, Ringnér M, Fernö M, Hedenfalk I.

BMC Clin Pathol. 2008 Jul 10;8:6. doi: 10.1186/1472-6890-8-6.

50.

The CD44+/CD24- phenotype is enriched in basal-like breast tumors.

Honeth G, Bendahl PO, Ringnér M, Saal LH, Gruvberger-Saal SK, Lövgren K, Grabau D, Fernö M, Borg A, Hegardt C.

Breast Cancer Res. 2008;10(3):R53. doi: 10.1186/bcr2108. Epub 2008 Jun 17.

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