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Items: 1 to 50 of 71

1.

Detecting single amino acids and small peptides by combining isobaric tags and peptidomics.

Burger B, Lereim RR, Berven FS, Barsnes H.

Eur J Mass Spectrom (Chichester). 2019 Jun 12:1469066719857006. doi: 10.1177/1469066719857006. [Epub ahead of print]

PMID:
31189351
2.

Effect of disease-associated SLC9A9 mutations on protein-protein interaction networks: implications for molecular mechanisms for ADHD and autism.

Zhang-James Y, Vaudel M, Mjaavatten O, Berven FS, Haavik J, Faraone SV.

Atten Defic Hyperact Disord. 2019 Mar;11(1):91-105. doi: 10.1007/s12402-018-0281-x. Epub 2019 Mar 29.

PMID:
30927234
3.

Proteomic Profiling of Primary Human Acute Myeloid Leukemia Cells Does Not Reflect Their Constitutive Release of Soluble Mediators.

Aasebø E, Hernandez-Valladares M, Selheim F, Berven FS, Brenner AK, Bruserud Ø.

Proteomes. 2018 Dec 20;7(1). pii: E1. doi: 10.3390/proteomes7010001.

4.

Proteomic profiling of lung immune cells reveals dysregulation of phagocytotic pathways in female-dominated molecular COPD phenotype.

Yang M, Kohler M, Heyder T, Forsslund H, Garberg HK, Karimi R, Grunewald J, Berven FS, Nyrén S, Magnus Sköld C, Wheelock ÅM.

Respir Res. 2018 Mar 8;19(1):39. doi: 10.1186/s12931-017-0699-2.

5.

Long-term smoking alters abundance of over half of the proteome in bronchoalveolar lavage cell in smokers with normal spirometry, with effects on molecular pathways associated with COPD.

Yang M, Kohler M, Heyder T, Forsslund H, Garberg HK, Karimi R, Grunewald J, Berven FS, Magnus Sköld C, Wheelock ÅM.

Respir Res. 2018 Mar 8;19(1):40. doi: 10.1186/s12931-017-0695-6.

6.

Anatomy and evolution of database search engines-a central component of mass spectrometry based proteomic workflows.

Verheggen K, Raeder H, Berven FS, Martens L, Barsnes H, Vaudel M.

Mass Spectrom Rev. 2017 Sep 13. doi: 10.1002/mas.21543. [Epub ahead of print] Review.

PMID:
28902424
7.

Epac1-deficient mice have bleeding phenotype and thrombocytes with decreased GPIbβ expression.

Nygaard G, Herfindal L, Asrud KS, Bjørnstad R, Kopperud RK, Oveland E, Berven FS, Myhren L, Hoivik EA, Lunde THF, Bakke M, Døskeland SO, Selheim F.

Sci Rep. 2017 Aug 18;7(1):8725. doi: 10.1038/s41598-017-08975-y.

8.

Selecting Sample Preparation Workflows for Mass Spectrometry-Based Proteomic and Phosphoproteomic Analysis of Patient Samples with Acute Myeloid Leukemia.

Hernandez-Valladares M, Aasebø E, Selheim F, Berven FS, Bruserud Ø.

Proteomes. 2016 Aug 22;4(3). pii: E24. doi: 10.3390/proteomes4030024. Review.

9.

Visualization, Inspection and Interpretation of Shotgun Proteomics Identification Results.

Lereim RR, Oveland E, Berven FS, Vaudel M, Barsnes H.

Adv Exp Med Biol. 2016;919:227-235. Review.

PMID:
27975220
10.

Tandem Mass Spectrum Sequencing: An Alternative to Database Search Engines in Shotgun Proteomics.

Muth T, Rapp E, Berven FS, Barsnes H, Vaudel M.

Adv Exp Med Biol. 2016;919:217-226. Review.

PMID:
27975219
11.

Database Search Engines: Paradigms, Challenges and Solutions.

Verheggen K, Martens L, Berven FS, Barsnes H, Vaudel M.

Adv Exp Med Biol. 2016;919:147-156. Review.

PMID:
27975215
12.

CSF-PR 2.0: An Interactive Literature Guide to Quantitative Cerebrospinal Fluid Mass Spectrometry Data from Neurodegenerative Disorders.

Guldbrandsen A, Farag Y, Kroksveen AC, Oveland E, Lereim RR, Opsahl JA, Myhr KM, Berven FS, Barsnes H.

Mol Cell Proteomics. 2017 Feb;16(2):300-309. doi: 10.1074/mcp.O116.064477. Epub 2016 Nov 27.

13.

The Brain Proteome of the Ubiquitin Ligase Peli1 Knock-Out Mouse during Experimental Autoimmune Encephalomyelitis.

Lereim RR, Oveland E, Xiao Y, Torkildsen Ø, Wergeland S, Myhr KM, Sun SC, Berven FS.

J Proteomics Bioinform. 2016 Sep;9(9):209-219. Epub 2016 Sep 12.

14.

In-Depth Cerebrospinal Fluid Quantitative Proteome and Deglycoproteome Analysis: Presenting a Comprehensive Picture of Pathways and Processes Affected by Multiple Sclerosis.

Kroksveen AC, Guldbrandsen A, Vaudel M, Lereim RR, Barsnes H, Myhr KM, Torkildsen Ø, Berven FS.

J Proteome Res. 2017 Jan 6;16(1):179-194. doi: 10.1021/acs.jproteome.6b00659. Epub 2016 Oct 26.

PMID:
27728768
15.

Using Proteomics Bioinformatics Tools and Resources in Proteogenomic Studies.

Vaudel M, Barsnes H, Ræder H, Berven FS.

Adv Exp Med Biol. 2016;926:65-75. Review.

PMID:
27686806
16.

Label-free analysis of human cerebrospinal fluid addressing various normalization strategies and revealing protein groups affected by multiple sclerosis.

Opsahl JA, Vaudel M, Guldbrandsen A, Aasebø E, Van Pesch V, Franciotta D, Myhr KM, Barsnes H, Berle M, Torkildsen Ø, Kroksveen AC, Berven FS.

Proteomics. 2016 Apr;16(7):1154-65. doi: 10.1002/pmic.201500284.

PMID:
26841090
17.

Proteomic Analysis of Minimally Damaged Renal Tubular Tissue from Two-Kidney-One-Clip Hypertensive Rats Demonstrates Extensive Changes Compared to Tissue from Controls.

Finne K, Marti HP, Leh S, Skogstrand T, Vethe H, Tenstad O, Berven FS, Scherer A, Vikse BE.

Nephron. 2016;132(1):70-80. doi: 10.1159/000442825. Epub 2016 Jan 9.

PMID:
26745798
18.

Systemic Analysis of Regulated Functional Networks.

Hernández Sánchez LF, Aasebø E, Selheim F, Berven FS, Ræder H, Barsnes H, Vaudel M.

Methods Mol Biol. 2016;1394:287-310. doi: 10.1007/978-1-4939-3341-9_21.

PMID:
26700057
19.

A Simple Workflow for Large Scale Shotgun Glycoproteomics.

Guldbrandsen A, Barsnes H, Kroksveen AC, Berven FS, Vaudel M.

Methods Mol Biol. 2016;1394:275-286. doi: 10.1007/978-1-4939-3341-9_20.

PMID:
26700056
20.

Interpretation of Quantitative Shotgun Proteomic Data.

Aasebø E, Berven FS, Selheim F, Barsnes H, Vaudel M.

Methods Mol Biol. 2016;1394:261-273. doi: 10.1007/978-1-4939-3341-9_19.

PMID:
26700055
21.

Exploring the potential of public proteomics data.

Vaudel M, Verheggen K, Csordas A, Raeder H, Berven FS, Martens L, Vizcaíno JA, Barsnes H.

Proteomics. 2016 Jan;16(2):214-25. doi: 10.1002/pmic.201500295. Epub 2015 Dec 15. Review.

22.

Practical Considerations for Omics Experiments in Biomedical Sciences.

Vaudel M, Barsnes H, Bjerkvig R, Bikfalvi A, Selheim F, Berven FS, Daubon T.

Curr Pharm Biotechnol. 2016;17(1):105-14. Review.

PMID:
26278526
23.

In Vitro Transcription/Translation System: A Versatile Tool in the Search for Missing Proteins.

Horvatovich P, Végvári Á, Saul J, Park JG, Qiu J, Syring M, Pirrotte P, Petritis K, Tegeler TJ, Aziz M, Fuentes M, Diez P, Gonzalez-Gonzalez M, Ibarrola N, Droste C, De Las Rivas J, Gil C, Clemente F, Hernaez ML, Corrales FJ, Nilsson CL, Berven FS, Bischoff R, Fehniger TE, LaBaer J, Marko-Varga G.

J Proteome Res. 2015 Sep 4;14(9):3441-51. doi: 10.1021/acs.jproteome.5b00486. Epub 2015 Jul 28.

PMID:
26155874
24.

Quantitative proteomics suggests decrease in the secretogranin-1 cerebrospinal fluid levels during the disease course of multiple sclerosis.

Kroksveen AC, Jaffe JD, Aasebø E, Barsnes H, Bjørlykke Y, Franciotta D, Keshishian H, Myhr KM, Opsahl JA, van Pesch V, Teunissen CE, Torkildsen Ø, Ulvik RJ, Vethe H, Carr SA, Berven FS.

Proteomics. 2015 Oct;15(19):3361-9. doi: 10.1002/pmic.201400142. Epub 2015 Sep 8.

PMID:
26152395
25.

Erratum to: Association of chromosome 19 to lung cancer genotypes and phenotypes.

Wang X, Zhang Y, Nilsson CL, Berven FS, Andrén PE, Carlsohn E, Horvatovich P, Malm J, Fuentes M, Végvári Á, Welinder C, Fehniger TE, Rezeli M, Edula G, Hober S, Nishimura T, Marko-Varga G.

Cancer Metastasis Rev. 2015 Jun;34(2):227. doi: 10.1007/s10555-015-9571-3.

PMID:
26143031
26.

Distributed and interactive visual analysis of omics data.

Farag Y, Berven FS, Jonassen I, Petersen K, Barsnes H.

J Proteomics. 2015 Nov 3;129:78-82. doi: 10.1016/j.jprot.2015.05.029. Epub 2015 Jun 3.

PMID:
26047716
27.

Association of chromosome 19 to lung cancer genotypes and phenotypes.

Wang X, Zhang Y, Nilsson CL, Berven FS, Andrén PE, Carlsohn E, Horvatovich P, Malm J, Fuentes M, Végvári Á, Welinder C, Fehniger TE, Rezeli M, Edula G, Hober S, Nishimura T, Marko-Varga G.

Cancer Metastasis Rev. 2015 Jun;34(2):217-26. doi: 10.1007/s10555-015-9556-2. Review. Erratum in: Cancer Metastasis Rev. 2015 Jun;34(2):227.

PMID:
25982285
28.

PeptideShaker enables reanalysis of MS-derived proteomics data sets.

Vaudel M, Burkhart JM, Zahedi RP, Oveland E, Berven FS, Sickmann A, Martens L, Barsnes H.

Nat Biotechnol. 2015 Jan;33(1):22-4. doi: 10.1038/nbt.3109. No abstract available.

PMID:
25574629
29.

Cerebrospinal fluid proteomics in multiple sclerosis.

Kroksveen AC, Opsahl JA, Guldbrandsen A, Myhr KM, Oveland E, Torkildsen Ø, Berven FS.

Biochim Biophys Acta. 2015 Jul;1854(7):746-56. doi: 10.1016/j.bbapap.2014.12.013. Epub 2014 Dec 16. Review.

PMID:
25526888
30.

Viewing the proteome: how to visualize proteomics data?

Oveland E, Muth T, Rapp E, Martens L, Berven FS, Barsnes H.

Proteomics. 2015 Apr;15(8):1341-55. doi: 10.1002/pmic.201400412. Epub 2015 Jan 21. Review.

PMID:
25504833
31.

Carboxyl-ester lipase maturity-onset diabetes of the young disease protein biomarkers in secretin-stimulated duodenal juice.

Bjorlykke Y, Vethe H, Vaudel M, Barsnes H, Berven FS, Tjora E, Raeder H.

J Proteome Res. 2015 Jan 2;14(1):521-30. doi: 10.1021/pr500750z. Epub 2014 Nov 4.

PMID:
25369532
32.

Use of ENCODE resources to characterize novel proteoforms and missing proteins in the human proteome.

Nilsson CL, Mostovenko E, Lichti CF, Ruggles K, Fenyö D, Rosenbloom KR, Hancock WS, Paik YK, Omenn GS, LaBaer J, Kroes RA, Uhlén M, Hober S, Végvári Á, Andrén PE, Sulman EP, Lang FF, Fuentes M, Carlsohn E, Emmett MR, Moskal JR, Berven FS, Fehniger TE, Marko-Varga G.

J Proteome Res. 2015 Feb 6;14(2):603-8. doi: 10.1021/pr500564q. Epub 2014 Nov 26.

PMID:
25369122
33.

Exploring the human plasma proteome for humoral mediators of remote ischemic preconditioning--a word of caution.

Helgeland E, Breivik LE, Vaudel M, Svendsen ØS, Garberg H, Nordrehaug JE, Berven FS, Jonassen AK.

PLoS One. 2014 Oct 15;9(10):e109279. doi: 10.1371/journal.pone.0109279. eCollection 2014.

34.

Proteomic analysis of formalin-fixed paraffin-embedded glomeruli suggests depletion of glomerular filtration barrier proteins in two-kidney, one-clip hypertensive rats.

Finne K, Vethe H, Skogstrand T, Leh S, Dahl TD, Tenstad O, Berven FS, Reed RK, Vikse BE.

Nephrol Dial Transplant. 2014 Dec;29(12):2217-27. doi: 10.1093/ndt/gfu268. Epub 2014 Aug 16.

35.

Performance of super-SILAC based quantitative proteomics for comparison of different acute myeloid leukemia (AML) cell lines.

Aasebø E, Vaudel M, Mjaavatten O, Gausdal G, Van der Burgh A, Gjertsen BT, Døskeland SO, Bruserud O, Berven FS, Selheim F.

Proteomics. 2014 Sep;14(17-18):1971-6. doi: 10.1002/pmic.201300448. Epub 2014 Aug 8. Erratum in: Proteomics. 2016 Aug;16(15-16):2302.

PMID:
25044641
36.

In-depth characterization of the cerebrospinal fluid (CSF) proteome displayed through the CSF proteome resource (CSF-PR).

Guldbrandsen A, Vethe H, Farag Y, Oveland E, Garberg H, Berle M, Myhr KM, Opsahl JA, Barsnes H, Berven FS.

Mol Cell Proteomics. 2014 Nov;13(11):3152-63. doi: 10.1074/mcp.M114.038554. Epub 2014 Jul 18.

37.

Molecular mechanisms of nutlin-3 involve acetylation of p53, histones and heat shock proteins in acute myeloid leukemia.

Haaland I, Opsahl JA, Berven FS, Reikvam H, Fredly HK, Haugse R, Thiede B, McCormack E, Lain S, Bruserud O, Gjertsen BT.

Mol Cancer. 2014 May 21;13:116. doi: 10.1186/1476-4598-13-116.

38.

Bioinformatics for proteomics: opportunities at the interface between the scientists, their experiments, and the community.

Vaudel M, Barsnes H, Martens L, Berven FS.

Methods Mol Biol. 2014;1156:239-48. doi: 10.1007/978-1-4939-0685-7_16.

PMID:
24791993
39.

Shedding light on black boxes in protein identification.

Vaudel M, Venne AS, Berven FS, Zahedi RP, Martens L, Barsnes H.

Proteomics. 2014 May;14(9):1001-5. doi: 10.1002/pmic.201300488. Epub 2014 Mar 20.

PMID:
24678044
40.

Effects of blood contamination and the rostro-caudal gradient on the human cerebrospinal fluid proteome.

Aasebø E, Opsahl JA, Bjørlykke Y, Myhr KM, Kroksveen AC, Berven FS.

PLoS One. 2014 Mar 5;9(3):e90429. doi: 10.1371/journal.pone.0090429. eCollection 2014.

41.

Integrated chromosome 19 transcriptomic and proteomic data sets derived from glioma cancer stem-cell lines.

Lichti CF, Liu H, Shavkunov AS, Mostovenko E, Sulman EP, Ezhilarasan R, Wang Q, Kroes RA, Moskal JC, Fenyö D, Oksuz BA, Conrad CA, Lang FF, Berven FS, Végvári A, Rezeli M, Marko-Varga G, Hober S, Nilsson CL.

J Proteome Res. 2014 Jan 3;13(1):191-9. doi: 10.1021/pr400786s. Epub 2013 Dec 3.

PMID:
24266786
42.

Developments in biobanking workflow standardization providing sample integrity and stability.

Malm J, Fehniger TE, Danmyr P, Végvári A, Welinder C, Lindberg H, Appelqvist R, Sjödin K, Wieslander E, Laurell T, Hober S, Berven FS, Fenyö D, Wang X, Andrén PE, Edula G, Carlsohn E, Fuentes M, Nilsson CL, Dahlbäck M, Rezeli M, Erlinge D, Marko-Varga G.

J Proteomics. 2013 Dec 16;95:38-45. doi: 10.1016/j.jprot.2013.06.035. Epub 2013 Jul 13.

PMID:
23856607
43.

Consensus definitions and application guidelines for control groups in cerebrospinal fluid biomarker studies in multiple sclerosis.

Teunissen C, Menge T, Altintas A, Álvarez-Cermeño JC, Bertolotto A, Berven FS, Brundin L, Comabella M, Degn M, Deisenhammer F, Fazekas F, Franciotta D, Frederiksen JL, Galimberti D, Gnanapavan S, Hegen H, Hemmer B, Hintzen R, Hughes S, Iacobaeus E, Kroksveen AC, Kuhle J, Richert J, Tumani H, Villar LM, Drulovic J, Dujmovic I, Khalil M, Bartos A.

Mult Scler. 2013 Nov;19(13):1802-9. doi: 10.1177/1352458513488232. Epub 2013 May 21.

PMID:
23695446
44.

Cerebrospinal fluid proteome comparison between multiple sclerosis patients and controls.

Kroksveen AC, Guldbrandsen A, Vedeler C, Myhr KM, Opsahl JA, Berven FS.

Acta Neurol Scand Suppl. 2012;(195):90-6. doi: 10.1111/ane.12029.

PMID:
23278663
45.

Discovery and initial verification of differentially abundant proteins between multiple sclerosis patients and controls using iTRAQ and SID-SRM.

Kroksveen AC, Aasebø E, Vethe H, Van Pesch V, Franciotta D, Teunissen CE, Ulvik RJ, Vedeler C, Myhr KM, Barsnes H, Berven FS.

J Proteomics. 2013 Jan 14;78:312-25. doi: 10.1016/j.jprot.2012.09.037. Epub 2012 Oct 8.

PMID:
23059536
46.

Use of stable isotope dimethyl labeling coupled to selected reaction monitoring to enhance throughput by multiplexing relative quantitation of targeted proteins.

Aye TT, Low TY, Bjørlykke Y, Barsnes H, Heck AJ, Berven FS.

Anal Chem. 2012 Jun 5;84(11):4999-5006. doi: 10.1021/ac300596r. Epub 2012 May 15.

PMID:
22548487
47.

Minimization of side reactions during Lys Tag derivatization of C-terminal lysine peptides.

Mjaavatten O, Nygaard G, Berven FS, Selheim F.

Anal Chim Acta. 2012 Jan 27;712:101-7. doi: 10.1016/j.aca.2011.11.017. Epub 2011 Nov 19.

PMID:
22177071
48.

Consensus Guidelines for CSF and Blood Biobanking for CNS Biomarker Studies.

Teunissen CE, Tumani H, Bennett JL, Berven FS, Brundin L, Comabella M, Franciotta D, Federiksen JL, Fleming JO, Furlan R, Hintzen RQ, Hughes SG, Jimenez CR, Johnson MH, Killestein J, Krasulova E, Kuhle J, Magnone MC, Petzold A, Rajda C, Rejdak K, Schmidt HK, van Pesch V, Waubant E, Wolf C, Deisenhammer F, Giovannoni G, Hemmer B.

Mult Scler Int. 2011;2011:246412. doi: 10.1155/2011/246412. Epub 2011 Jul 18. Retraction in: Multiple Sclerosis International. Mult Scler Int. 2016;2016:8304273.

49.

Protein profiling reveals inter-individual protein homogeneity of arachnoid cyst fluid and high qualitative similarity to cerebrospinal fluid.

Berle M, Kroksveen AC, Haaland OA, Aye TT, Opsahl JA, Oveland E, Wester K, Ulvik RJ, Helland CA, Berven FS.

Fluids Barriers CNS. 2011 May 20;8:19. doi: 10.1186/2045-8118-8-19.

50.

Methanotroph outer membrane preparation.

Karlsen OA, Berven FS, Jensen HB, Fjellbirkeland A.

Methods Enzymol. 2011;495:167-76. doi: 10.1016/B978-0-12-386905-0.00011-5.

PMID:
21419921

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