Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 54

1.

Kupffer Cell-Derived Tnf Triggers Cholangiocellular Tumorigenesis through JNK due to Chronic Mitochondrial Dysfunction and ROS.

Yuan D, Huang S, Berger E, Liu L, Gross N, Heinzmann F, Ringelhan M, Connor TO, Stadler M, Meister M, Weber J, Öllinger R, Simonavicius N, Reisinger F, Hartmann D, Meyer R, Reich M, Seehawer M, Leone V, Höchst B, Wohlleber D, Jörs S, Prinz M, Spalding D, Protzer U, Luedde T, Terracciano L, Matter M, Longerich T, Knolle P, Ried T, Keitel V, Geisler F, Unger K, Cinnamon E, Pikarsky E, Hüser N, Davis RJ, Tschaharganeh DF, Rad R, Weber A, Zender L, Haller D, Heikenwalder M.

Cancer Cell. 2017 Jun 12;31(6):771-789.e6. doi: 10.1016/j.ccell.2017.05.006.

2.

Distinct Functions of Senescence-Associated Immune Responses in Liver Tumor Surveillance and Tumor Progression.

Eggert T, Wolter K, Ji J, Ma C, Yevsa T, Klotz S, Medina-Echeverz J, Longerich T, Forgues M, Reisinger F, Heikenwalder M, Wang XW, Zender L, Greten TF.

Cancer Cell. 2016 Oct 10;30(4):533-547. doi: 10.1016/j.ccell.2016.09.003.

3.

2016 update of the PRIDE database and its related tools.

Vizcaíno JA, Csordas A, Del-Toro N, Dianes JA, Griss J, Lavidas I, Mayer G, Perez-Riverol Y, Reisinger F, Ternent T, Xu QW, Wang R, Hermjakob H.

Nucleic Acids Res. 2016 Dec 15;44(22):11033. Epub 2016 Sep 28. No abstract available.

4.

Dual Role of the Adaptive Immune System in Liver Injury and Hepatocellular Carcinoma Development.

Endig J, Buitrago-Molina LE, Marhenke S, Reisinger F, Saborowski A, Schütt J, Limbourg F, Könecke C, Schreder A, Michael A, Misslitz AC, Healy ME, Geffers R, Clavel T, Haller D, Unger K, Finegold M, Weber A, Manns MP, Longerich T, Heikenwälder M, Vogel A.

Cancer Cell. 2016 Aug 8;30(2):308-323. doi: 10.1016/j.ccell.2016.06.009. Epub 2016 Jul 28.

5.

RIPK3 Restricts Myeloid Leukemogenesis by Promoting Cell Death and Differentiation of Leukemia Initiating Cells.

Höckendorf U, Yabal M, Herold T, Munkhbaatar E, Rott S, Jilg S, Kauschinger J, Magnani G, Reisinger F, Heuser M, Kreipe H, Sotlar K, Engleitner T, Rad R, Weichert W, Peschel C, Ruland J, Heikenwalder M, Spiekermann K, Slotta-Huspenina J, Groß O, Jost PJ.

Cancer Cell. 2016 Jul 11;30(1):75-91. doi: 10.1016/j.ccell.2016.06.002.

6.

IκB kinaseα/β control biliary homeostasis and hepatocarcinogenesis in mice by phosphorylating the cell-death mediator receptor-interacting protein kinase 1.

Koppe C, Verheugd P, Gautheron J, Reisinger F, Kreggenwinkel K, Roderburg C, Quagliata L, Terracciano L, Gassler N, Tolba RH, Boege Y, Weber A, Karin M, Luedde M, Neumann UP, Weiskirchen R, Tacke F, Vucur M, Trautwein C, Lüscher B, Preisinger C, Heikenwalder M, Luedde T.

Hepatology. 2016 Oct;64(4):1217-31. doi: 10.1002/hep.28723. Epub 2016 Aug 11.

PMID:
27396433
7.

PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets.

Perez-Riverol Y, Xu QW, Wang R, Uszkoreit J, Griss J, Sanchez A, Reisinger F, Csordas A, Ternent T, Del-Toro N, Dianes JA, Eisenacher M, Hermjakob H, Vizcaíno JA.

Mol Cell Proteomics. 2016 Jan;15(1):305-17. doi: 10.1074/mcp.O115.050229. Epub 2015 Nov 6.

8.

2016 update of the PRIDE database and its related tools.

Vizcaíno JA, Csordas A, del-Toro N, Dianes JA, Griss J, Lavidas I, Mayer G, Perez-Riverol Y, Reisinger F, Ternent T, Xu QW, Wang R, Hermjakob H.

Nucleic Acids Res. 2016 Jan 4;44(D1):D447-56. doi: 10.1093/nar/gkv1145. Epub 2015 Nov 2. Erratum in: Nucleic Acids Res. 2016 Dec 15;44(22):11033.

9.

Erratum: mTOR regulates MAPKAPK2 translation to control the senescence-associated secretory phenotype.

Herranz N, Gallage S, Mellone M, Wuestefeld T, Klotz S, Hanley CJ, Raguz S, Acosta JC, Innes AJ, Banito A, Georgilis A, Montoya A, Wolter K, Dharmalingam G, Faull P, Carroll T, Martínez-Barbera JP, Cutillas P, Reisinger F, Heikenwalder M, Miller RA, Withers D, Zender L, Thomas GJ, Gil J.

Nat Cell Biol. 2015 Oct;17(10):1370. doi: 10.1038/ncb3243. No abstract available.

PMID:
26419804
10.

Interferon-γ and Tumor Necrosis Factor-α Produced by T Cells Reduce the HBV Persistence Form, cccDNA, Without Cytolysis.

Xia Y, Stadler D, Lucifora J, Reisinger F, Webb D, Hösel M, Michler T, Wisskirchen K, Cheng X, Zhang K, Chou WM, Wettengel JM, Malo A, Bohne F, Hoffmann D, Eyer F, Thimme R, Falk CS, Thasler WE, Heikenwalder M, Protzer U.

Gastroenterology. 2016 Jan;150(1):194-205. doi: 10.1053/j.gastro.2015.09.026. Epub 2015 Sep 28.

PMID:
26416327
11.

mTOR regulates MAPKAPK2 translation to control the senescence-associated secretory phenotype.

Herranz N, Gallage S, Mellone M, Wuestefeld T, Klotz S, Hanley CJ, Raguz S, Acosta JC, Innes AJ, Banito A, Georgilis A, Montoya A, Wolter K, Dharmalingam G, Faull P, Carroll T, Martínez-Barbera JP, Cutillas P, Reisinger F, Heikenwalder M, Miller RA, Withers D, Zender L, Thomas GJ, Gil J.

Nat Cell Biol. 2015 Sep;17(9):1205-17. doi: 10.1038/ncb3225. Epub 2015 Aug 17. Erratum in: Nat Cell Biol. 2015 Oct;17(10):1370.

12.

NIK promotes tissue destruction independently of the alternative NF-κB pathway through TNFR1/RIP1-induced apoptosis.

Boutaffala L, Bertrand MJ, Remouchamps C, Seleznik G, Reisinger F, Janas M, Bénézech C, Fernandes MT, Marchetti S, Mair F, Ganeff C, Hupalowska A, Ricci JE, Becher B, Piette J, Knolle P, Caamano J, Vandenabeele P, Heikenwalder M, Dejardin E.

Cell Death Differ. 2015 Dec;22(12):2020-33. doi: 10.1038/cdd.2015.69. Epub 2015 Jun 5.

13.

Introducing the PRIDE Archive RESTful web services.

Reisinger F, del-Toro N, Ternent T, Hermjakob H, Vizcaíno JA.

Nucleic Acids Res. 2015 Jul 1;43(W1):W599-604. doi: 10.1093/nar/gkv382. Epub 2015 Apr 22.

14.

Modeling human liver cancer heterogeneity: virally induced transgenic models and mouse genetic models of chronic liver inflammation.

Ringelhan M, Reisinger F, Yuan D, Weber A, Heikenwalder M.

Curr Protoc Pharmacol. 2014 Dec 1;67:Unit 14.31.1-17. doi: 10.1002/0471141755.ph1431s67.

PMID:
25446288
15.

[Specific degradation of nuclear hepatitis B virus covalently closed circular DNA].

Lucifora J, Xia Y, Reisinger F, Stadler D, Heikenwälder M, Protzer U.

Med Sci (Paris). 2014 Aug-Sep;30(8-9):724-6. doi: 10.1051/medsci/20143008003. Epub 2014 Sep 1. French. No abstract available.

16.

The mzTab data exchange format: communicating mass-spectrometry-based proteomics and metabolomics experimental results to a wider audience.

Griss J, Jones AR, Sachsenberg T, Walzer M, Gatto L, Hartler J, Thallinger GG, Salek RM, Steinbeck C, Neuhauser N, Cox J, Neumann S, Fan J, Reisinger F, Xu QW, Del Toro N, Pérez-Riverol Y, Ghali F, Bandeira N, Xenarios I, Kohlbacher O, Vizcaíno JA, Hermjakob H.

Mol Cell Proteomics. 2014 Oct;13(10):2765-75. doi: 10.1074/mcp.O113.036681. Epub 2014 Jun 30.

17.

A positive feedback loop between RIP3 and JNK controls non-alcoholic steatohepatitis.

Gautheron J, Vucur M, Reisinger F, Cardenas DV, Roderburg C, Koppe C, Kreggenwinkel K, Schneider AT, Bartneck M, Neumann UP, Canbay A, Reeves HL, Luedde M, Tacke F, Trautwein C, Heikenwalder M, Luedde T.

EMBO Mol Med. 2014 Aug;6(8):1062-74. doi: 10.15252/emmm.201403856.

18.

Virology. Response to Comment on "Specific and nonhepatotoxic degradation of nuclear hepatitis B virus cccDNA".

Xia Y, Lucifora J, Reisinger F, Heikenwalder M, Protzer U.

Science. 2014 Jun 13;344(6189):1237. doi: 10.1126/science.1254083.

19.

RIP3, a kinase promoting necroptotic cell death, mediates adverse remodelling after myocardial infarction.

Luedde M, Lutz M, Carter N, Sosna J, Jacoby C, Vucur M, Gautheron J, Roderburg C, Borg N, Reisinger F, Hippe HJ, Linkermann A, Wolf MJ, Rose-John S, Lüllmann-Rauch R, Adam D, Flögel U, Heikenwalder M, Luedde T, Frey N.

Cardiovasc Res. 2014 Jul 15;103(2):206-16. doi: 10.1093/cvr/cvu146. Epub 2014 Jun 11.

20.

ProteomeXchange provides globally coordinated proteomics data submission and dissemination.

Vizcaíno JA, Deutsch EW, Wang R, Csordas A, Reisinger F, Ríos D, Dianes JA, Sun Z, Farrah T, Bandeira N, Binz PA, Xenarios I, Eisenacher M, Mayer G, Gatto L, Campos A, Chalkley RJ, Kraus HJ, Albar JP, Martinez-Bartolomé S, Apweiler R, Omenn GS, Martens L, Jones AR, Hermjakob H.

Nat Biotechnol. 2014 Mar;32(3):223-6. doi: 10.1038/nbt.2839. No abstract available.

21.

Specific and nonhepatotoxic degradation of nuclear hepatitis B virus cccDNA.

Lucifora J, Xia Y, Reisinger F, Zhang K, Stadler D, Cheng X, Sprinzl MF, Koppensteiner H, Makowska Z, Volz T, Remouchamps C, Chou WM, Thasler WE, Hüser N, Durantel D, Liang TJ, Münk C, Heim MH, Browning JL, Dejardin E, Dandri M, Schindler M, Heikenwalder M, Protzer U.

Science. 2014 Mar 14;343(6176):1221-8. doi: 10.1126/science.1243462. Epub 2014 Feb 20.

22.

RIP3 inhibits inflammatory hepatocarcinogenesis but promotes cholestasis by controlling caspase-8- and JNK-dependent compensatory cell proliferation.

Vucur M, Reisinger F, Gautheron J, Janssen J, Roderburg C, Cardenas DV, Kreggenwinkel K, Koppe C, Hammerich L, Hakem R, Unger K, Weber A, Gassler N, Luedde M, Frey N, Neumann UP, Tacke F, Trautwein C, Heikenwalder M, Luedde T.

Cell Rep. 2013 Aug 29;4(4):776-90. doi: 10.1016/j.celrep.2013.07.035. Epub 2013 Aug 22.

23.

Tools (Viewer, Library and Validator) that facilitate use of the peptide and protein identification standard format, termed mzIdentML.

Ghali F, Krishna R, Lukasse P, Martínez-Bartolomé S, Reisinger F, Hermjakob H, Vizcaíno JA, Jones AR.

Mol Cell Proteomics. 2013 Nov;12(11):3026-35. doi: 10.1074/mcp.O113.029777. Epub 2013 Jun 28.

24.

Pride-asap: automatic fragment ion annotation of identified PRIDE spectra.

Hulstaert N, Reisinger F, Rameseder J, Barsnes H, Vizcaíno JA, Martens L.

J Proteomics. 2013 Dec 16;95:89-92. doi: 10.1016/j.jprot.2013.04.011. Epub 2013 Apr 17.

25.

The mzQuantML data standard for mass spectrometry-based quantitative studies in proteomics.

Walzer M, Qi D, Mayer G, Uszkoreit J, Eisenacher M, Sachsenberg T, Gonzalez-Galarza FF, Fan J, Bessant C, Deutsch EW, Reisinger F, Vizcaíno JA, Medina-Aunon JA, Albar JP, Kohlbacher O, Jones AR.

Mol Cell Proteomics. 2013 Aug;12(8):2332-40. doi: 10.1074/mcp.O113.028506. Epub 2013 Apr 18.

26.

Intrahepatic myeloid-cell aggregates enable local proliferation of CD8(+) T cells and successful immunotherapy against chronic viral liver infection.

Huang LR, Wohlleber D, Reisinger F, Jenne CN, Cheng RL, Abdullah Z, Schildberg FA, Odenthal M, Dienes HP, van Rooijen N, Schmitt E, Garbi N, Croft M, Kurts C, Kubes P, Protzer U, Heikenwalder M, Knolle PA.

Nat Immunol. 2013 Jun;14(6):574-83. doi: 10.1038/ni.2573. Epub 2013 Apr 14.

PMID:
23584070
27.

From Peptidome to PRIDE: public proteomics data migration at a large scale.

Csordas A, Wang R, Ríos D, Reisinger F, Foster JM, Slotta DJ, Vizcaíno JA, Hermjakob H.

Proteomics. 2013 May;13(10-11):1692-5. doi: 10.1002/pmic.201200514. Epub 2013 Apr 20.

28.

Sorafenib perpetuates cellular anticancer effector functions by modulating the crosstalk between macrophages and natural killer cells.

Sprinzl MF, Reisinger F, Puschnik A, Ringelhan M, Ackermann K, Hartmann D, Schiemann M, Weinmann A, Galle PR, Schuchmann M, Friess H, Otto G, Heikenwalder M, Protzer U.

Hepatology. 2013 Jun;57(6):2358-68. doi: 10.1002/hep.26328.

PMID:
23424039
29.

The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013.

Vizcaíno JA, Côté RG, Csordas A, Dianes JA, Fabregat A, Foster JM, Griss J, Alpi E, Birim M, Contell J, O'Kelly G, Schoenegger A, Ovelleiro D, Pérez-Riverol Y, Reisinger F, Ríos D, Wang R, Hermjakob H.

Nucleic Acids Res. 2013 Jan;41(Database issue):D1063-9. doi: 10.1093/nar/gks1262. Epub 2012 Nov 29.

30.

Lymphotoxin, NF-ĸB, and cancer: the dark side of cytokines.

Bauer J, Namineni S, Reisinger F, Zöller J, Yuan D, Heikenwälder M.

Dig Dis. 2012;30(5):453-68. doi: 10.1159/000341690. Epub 2012 Oct 24. Review.

PMID:
23108301
31.

The PRoteomics IDEntification (PRIDE) Converter 2 framework: an improved suite of tools to facilitate data submission to the PRIDE database and the ProteomeXchange consortium.

Côté RG, Griss J, Dianes JA, Wang R, Wright JC, van den Toorn HW, van Breukelen B, Heck AJ, Hulstaert N, Martens L, Reisinger F, Csordas A, Ovelleiro D, Perez-Rivevol Y, Barsnes H, Hermjakob H, Vizcaíno JA.

Mol Cell Proteomics. 2012 Dec;11(12):1682-9. doi: 10.1074/mcp.O112.021543. Epub 2012 Sep 4.

32.

Improvements in the Protein Identifier Cross-Reference service.

Wein SP, Côté RG, Dumousseau M, Reisinger F, Hermjakob H, Vizcaíno JA.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W276-80. doi: 10.1093/nar/gks338. Epub 2012 Apr 27.

33.

jmzReader: A Java parser library to process and visualize multiple text and XML-based mass spectrometry data formats.

Griss J, Reisinger F, Hermjakob H, Vizcaíno JA.

Proteomics. 2012 Mar;12(6):795-8. doi: 10.1002/pmic.201100578.

34.

jmzIdentML API: A Java interface to the mzIdentML standard for peptide and protein identification data.

Reisinger F, Krishna R, Ghali F, Ríos D, Hermjakob H, Vizcaíno JA, Jones AR.

Proteomics. 2012 Mar;12(6):790-4. doi: 10.1002/pmic.201100577.

35.

The mzIdentML data standard for mass spectrometry-based proteomics results.

Jones AR, Eisenacher M, Mayer G, Kohlbacher O, Siepen J, Hubbard SJ, Selley JN, Searle BC, Shofstahl J, Seymour SL, Julian R, Binz PA, Deutsch EW, Hermjakob H, Reisinger F, Griss J, Vizcaíno JA, Chambers M, Pizarro A, Creasy D.

Mol Cell Proteomics. 2012 Jul;11(7):M111.014381. doi: 10.1074/mcp.M111.014381. Epub 2012 Feb 27.

36.

PRIDE Inspector: a tool to visualize and validate MS proteomics data.

Wang R, Fabregat A, Ríos D, Ovelleiro D, Foster JM, Côté RG, Griss J, Csordas A, Perez-Riverol Y, Reisinger F, Hermjakob H, Martens L, Vizcaíno JA.

Nat Biotechnol. 2012 Feb 8;30(2):135-7. doi: 10.1038/nbt.2112. No abstract available.

37.

Chronic liver inflammation and hepatocellular carcinoma: persistence matters.

Weber A, Boege Y, Reisinger F, Heikenwälder M.

Swiss Med Wkly. 2011 May 10;141:w13197. doi: 10.4414/smw.2011.13197. eCollection 2011. Review.

38.

Submitting proteomics data to PRIDE using PRIDE Converter.

Barsnes H, Vizcaíno JA, Reisinger F, Eidhammer I, Martens L.

Methods Mol Biol. 2011;694:237-53. doi: 10.1007/978-1-60761-977-2_16.

PMID:
21082439
39.

PRIDE and "Database on Demand" as valuable tools for computational proteomics.

Vizcaíno JA, Reisinger F, Côté R, Martens L.

Methods Mol Biol. 2011;696:93-105. doi: 10.1007/978-1-60761-987-1_6.

PMID:
21063943
40.

The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*.

Katayama T, Arakawa K, Nakao M, Ono K, Aoki-Kinoshita KF, Yamamoto Y, Yamaguchi A, Kawashima S, Chun HW, Aerts J, Aranda B, Barboza LH, Bonnal RJ, Bruskiewich R, Bryne JC, Fernández JM, Funahashi A, Gordon PM, Goto N, Groscurth A, Gutteridge A, Holland R, Kano Y, Kawas EA, Kerhornou A, Kibukawa E, Kinjo AR, Kuhn M, Lapp H, Lehvaslaiho H, Nakamura H, Nakamura Y, Nishizawa T, Nobata C, Noguchi T, Oinn TM, Okamoto S, Owen S, Pafilis E, Pocock M, Prins P, Ranzinger R, Reisinger F, Salwinski L, Schreiber M, Senger M, Shigemoto Y, Standley DM, Sugawara H, Tashiro T, Trelles O, Vos RA, Wilkinson MD, York W, Zmasek CM, Asai K, Takagi T.

J Biomed Semantics. 2010 Aug 21;1(1):8. doi: 10.1186/2041-1480-1-8.

41.

mzML--a community standard for mass spectrometry data.

Martens L, Chambers M, Sturm M, Kessner D, Levander F, Shofstahl J, Tang WH, Römpp A, Neumann S, Pizarro AD, Montecchi-Palazzi L, Tasman N, Coleman M, Reisinger F, Souda P, Hermjakob H, Binz PA, Deutsch EW.

Mol Cell Proteomics. 2011 Jan;10(1):R110.000133. doi: 10.1074/mcp.R110.000133. Epub 2010 Aug 17.

42.

Finding and sharing: new approaches to registries of databases and services for the biomedical sciences.

Smedley D, Schofield P, Chen CK, Aidinis V, Ainali C, Bard J, Balling R, Birney E, Blake A, Bongcam-Rudloff E, Brookes AJ, Cesareni G, Chandras C, Eppig J, Flicek P, Gkoutos G, Greenaway S, Gruenberger M, Hériché JK, Lyall A, Mallon AM, Muddyman D, Reisinger F, Ringwald M, Rosenthal N, Schughart K, Swertz M, Thorisson GA, Zouberakis M, Hancock JM.

Database (Oxford). 2010 Jul 6;2010:baq014. doi: 10.1093/database/baq014.

43.

The Ontology Lookup Service: bigger and better.

Côté R, Reisinger F, Martens L, Barsnes H, Vizcaino JA, Hermjakob H.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W155-60. doi: 10.1093/nar/gkq331. Epub 2010 May 11.

44.

PRIDE: Data submission and analysis.

Vizcaíno JA, Reisinger F, Côté R, Martens L.

Curr Protoc Protein Sci. 2010 Apr;Chapter 25:Unit 25.4. doi: 10.1002/0471140864.ps2504s60.

PMID:
20393974
45.

jmzML, an open-source Java API for mzML, the PSI standard for MS data.

Côté RG, Reisinger F, Martens L.

Proteomics. 2010 Apr;10(7):1332-5. doi: 10.1002/pmic.200900719.

PMID:
20127693
46.

ENFIN--A European network for integrative systems biology.

Kahlem P, Clegg A, Reisinger F, Xenarios I, Hermjakob H, Orengo C, Birney E.

C R Biol. 2009 Nov;332(11):1050-8. doi: 10.1016/j.crvi.2009.09.003. Review.

PMID:
19909926
47.

The Proteomics Identifications database: 2010 update.

Vizcaíno JA, Côté R, Reisinger F, Barsnes H, Foster JM, Rameseder J, Hermjakob H, Martens L.

Nucleic Acids Res. 2010 Jan;38(Database issue):D736-42. doi: 10.1093/nar/gkp964. Epub 2009 Nov 11.

48.

The PSI semantic validator: a framework to check MIAPE compliance of proteomics data.

Montecchi-Palazzi L, Kerrien S, Reisinger F, Aranda B, Jones AR, Martens L, Hermjakob H.

Proteomics. 2009 Nov;9(22):5112-9. doi: 10.1002/pmic.200900189.

49.

Database on Demand - an online tool for the custom generation of FASTA-formatted sequence databases.

Reisinger F, Martens L.

Proteomics. 2009 Sep;9(18):4421-4. doi: 10.1002/pmic.200900254.

PMID:
19725076
50.

A guide to the Proteomics Identifications Database proteomics data repository.

Vizcaíno JA, Côté R, Reisinger F, Foster JM, Mueller M, Rameseder J, Hermjakob H, Martens L.

Proteomics. 2009 Sep;9(18):4276-83. doi: 10.1002/pmic.200900402.

Supplemental Content

Loading ...
Support Center