Pesquisa | BVS Violência e Saúde

1.

EnzymeML: seamless data flow and modeling of enzymatic data.

Lauterbach, Simone; Dienhart, Hannah; Range, Jan; Malzacher, Stephan; Spöring, Jan-Dirk; Rother, Dörte; Pinto, Maria Filipa; Martins, Pedro; Lagerman, Colton E; Bommarius, Andreas S; Høst, Amalie Vang; Woodley, John M; Ngubane, Sandile; Kudanga, Tukayi; Bergmann, Frank T; Rohwer, Johann M; Iglezakis, Dorothea; Weidemann, Andreas; Wittig, Ulrike; Kettner, Carsten; Swainston, Neil; Schnell, Santiago; Pleiss, Jürgen.

Nat Methods ; 20(3): 400-402, 2023 03.

Artigo em Inglês | MEDLINE | ID: mdl-36759590

2.

N-cadherin: A diagnostic marker to help discriminate primary liver carcinomas from extrahepatic carcinomas.

Gerber, Tiemo S; Ridder, Dirk A; Goeppert, Benjamin; Brobeil, Alexander; Stenzel, Philipp; Zimmer, Stefanie; Jäkel, Jörg; Metzig, Marie Oliver; Schwab, Roxana; Martin, Steve Z; Kiss, András; Bergmann, Frank; Schirmacher, Peter; Galle, Peter R; Lang, Hauke; Roth, Wilfried; Straub, Beate K.

Int J Cancer ; 154(10): 1857-1868, 2024 May 15.

Artigo em Inglês | MEDLINE | ID: mdl-38212892

3.

The radiomorphological appearance of the invasive margin in pancreatic cancer is associated with tumor budding.

Mayer, Philipp; Hausen, Anne; Steinle, Verena; Bergmann, Frank; Kauczor, Hans-Ulrich; Loos, Martin; Roth, Wilfried; Klauss, Miriam; Gaida, Matthias M.

Langenbecks Arch Surg ; 409(1): 167, 2024 May 29.

Artigo em Inglês | MEDLINE | ID: mdl-38809279

4.

BioSimulators: a central registry of simulation engines and services for recommending specific tools.

Shaikh, Bilal; Smith, Lucian P; Vasilescu, Dan; Marupilla, Gnaneswara; Wilson, Michael; Agmon, Eran; Agnew, Henry; Andrews, Steven S; Anwar, Azraf; Beber, Moritz E; Bergmann, Frank T; Brooks, David; Brusch, Lutz; Calzone, Laurence; Choi, Kiri; Cooper, Joshua; Detloff, John; Drawert, Brian; Dumontier, Michel; Ermentrout, G Bard; Faeder, James R; Freiburger, Andrew P; Fröhlich, Fabian; Funahashi, Akira; Garny, Alan; Gennari, John H; Gleeson, Padraig; Goelzer, Anne; Haiman, Zachary; Hasenauer, Jan; Hellerstein, Joseph L; Hermjakob, Henning; Hoops, Stefan; Ison, Jon C; Jahn, Diego; Jakubowski, Henry V; Jordan, Ryann; Kalas, Matús; König, Matthias; Liebermeister, Wolfram; Sheriff, Rahuman S Malik; Mandal, Synchon; McDougal, Robert; Medley, J Kyle; Mendes, Pedro; Müller, Robert; Myers, Chris J; Naldi, Aurelien; Nguyen, Tung V N; Nickerson, David P.

Nucleic Acids Res ; 50(W1): W108-W114, 2022 07 05.

Artigo em Inglês | MEDLINE | ID: mdl-35524558

5.

Oncological Outcome of Conversion Surgery After Preoperative Chemotherapy for Metastatic Pancreatic Cancer.

Hank, Thomas; Klaiber, Ulla; Hinz, Ulf; Schütte, Denise; Leonhardt, Carl-Stephan; Bergmann, Frank; Hackert, Thilo; Jäger, Dirk; Büchler, Markus W; Strobel, Oliver.

Ann Surg ; 277(5): e1089-e1098, 2023 05 01.

Artigo em Inglês | MEDLINE | ID: mdl-35758505

6.

The link between menin and pleiotrophin in the tumor biology of pancreatic neuroendocrine neoplasms.

He, Liping; Boulant, Steeve; Stanifer, Megan; Guo, Cuncai; Nießen, Anna; Chen, Mingyi; Felix, Klaus; Bergmann, Frank; Strobel, Oliver; Schimmack, Simon.

Cancer Sci ; 113(5): 1575-1586, 2022 May.

Artigo em Inglês | MEDLINE | ID: mdl-35179814

7.

Actual Five-year Survival After Upfront Resection for Pancreatic Ductal Adenocarcinoma: Who Beats the Odds?

Strobel, Oliver; Lorenz, Philipp; Hinz, Ulf; Gaida, Matthias; König, Anna-Katharina; Hank, Thomas; Niesen, Willem; Kaiser, J Ö Rg; Al-Saeedi, Mohammed; Bergmann, Frank; Springfeld, Christoph; Berchtold, Christoph; Diener, Markus K; Schneider, Martin; Mehrabi, Arianeb; Müller-Stich, Beat P; Hackert, Thilo; Jager, Dirk; Büchler, Markus W.

Ann Surg ; 275(5): 962-971, 2022 05 01.

Artigo em Inglês | MEDLINE | ID: mdl-32649469

8.

CoRC: the COPASI R Connector.

Förster, Jonas; Bergmann, Frank T; Pahle, Jürgen.

Bioinformatics ; 37(17): 2778-2779, 2021 Sep 09.

Artigo em Inglês | MEDLINE | ID: mdl-33470404

9.

PEtab-Interoperable specification of parameter estimation problems in systems biology.

Schmiester, Leonard; Schälte, Yannik; Bergmann, Frank T; Camba, Tacio; Dudkin, Erika; Egert, Janine; Fröhlich, Fabian; Fuhrmann, Lara; Hauber, Adrian L; Kemmer, Svenja; Lakrisenko, Polina; Loos, Carolin; Merkt, Simon; Müller, Wolfgang; Pathirana, Dilan; Raimúndez, Elba; Refisch, Lukas; Rosenblatt, Marcus; Stapor, Paul L; Städter, Philipp; Wang, Dantong; Wieland, Franz-Georg; Banga, Julio R; Timmer, Jens; Villaverde, Alejandro F; Sahle, Sven; Kreutz, Clemens; Hasenauer, Jan; Weindl, Daniel.

PLoS Comput Biol ; 17(1): e1008646, 2021 01.

Artigo em Inglês | MEDLINE | ID: mdl-33497393

10.

A histopathological study of artery wall involvement in pancreatic cancer surgery.

Cai, Baobao; Bergmann, Frank; Lu, Zipeng; Neoptolemos, John P; Li, Mingna; Yin, Lingdi; Gao, Yong; Xu, Cheng; Jiang, Kuirong; Büchler, Markus W; Miao, Yi.

Langenbecks Arch Surg ; 407(8): 3501-3511, 2022 Dec.

Artigo em Inglês | MEDLINE | ID: mdl-36342505

11.

KRAS/GNAS-testing by highly sensitive deep targeted next generation sequencing improves the endoscopic ultrasound-guided workup of suspected mucinous neoplasms of the pancreas.

Schmitz, Daniel; Kazdal, Daniel; Allgäuer, Michael; Trunk, Marcus; Vornhusen, Sylke; Nahm, Anna-Maria; Doll, Matthias; Weingärtner, Simon; Endris, Volker; Penzel, Roland; Kirchner, Martina; Brandt, Regine; Neumann, Olaf; Sültmann, Holger; Budczies, Jan; Kienle, Peter; Magdeburg, Richard; Hetjens, Svetlana; Schirmacher, Peter; Bergmann, Frank; Rudi, Jochen; Stenzinger, Albrecht; Volckmar, Anna-Lena.

Genes Chromosomes Cancer ; 60(7): 489-497, 2021 07.

Artigo em Inglês | MEDLINE | ID: mdl-33686791

12.

SBML Level 3: an extensible format for the exchange and reuse of biological models.

Keating, Sarah M; Waltemath, Dagmar; König, Matthias; Zhang, Fengkai; Dräger, Andreas; Chaouiya, Claudine; Bergmann, Frank T; Finney, Andrew; Gillespie, Colin S; Helikar, Tomás; Hoops, Stefan; Malik-Sheriff, Rahuman S; Moodie, Stuart L; Moraru, Ion I; Myers, Chris J; Naldi, Aurélien; Olivier, Brett G; Sahle, Sven; Schaff, James C; Smith, Lucian P; Swat, Maciej J; Thieffry, Denis; Watanabe, Leandro; Wilkinson, Darren J; Blinov, Michael L; Begley, Kimberly; Faeder, James R; Gómez, Harold F; Hamm, Thomas M; Inagaki, Yuichiro; Liebermeister, Wolfram; Lister, Allyson L; Lucio, Daniel; Mjolsness, Eric; Proctor, Carole J; Raman, Karthik; Rodriguez, Nicolas; Shaffer, Clifford A; Shapiro, Bruce E; Stelling, Joerg; Swainston, Neil; Tanimura, Naoki; Wagner, John; Meier-Schellersheim, Martin; Sauro, Herbert M; Palsson, Bernhard; Bolouri, Hamid; Kitano, Hiroaki; Funahashi, Akira; Hermjakob, Henning.

Mol Syst Biol ; 16(8): e9110, 2020 08.

Artigo em Inglês | MEDLINE | ID: mdl-32845085

13.

Presentation and outcome of mixed neuroendocrine non-neuroendocrine neoplasms of the pancreas.

Nießen, Anna; Schimmack, Simon; Weber, Tim F; Mayer, Philipp; Bergmann, Frank; Hinz, Ulf; Büchler, Markus W; Strobel, Oliver.

Pancreatology ; 21(1): 224-235, 2021 Jan.

Artigo em Inglês | MEDLINE | ID: mdl-33309225

14.

The Microarchitecture of Pancreatic Cancer as Measured by Diffusion-Weighted Magnetic Resonance Imaging Is Altered by T Cells with a Tumor Promoting Th17 Phenotype.

Mayer, Philipp; Linnebacher, Alica; Glennemeier-Marke, Hannah; Marnet, Nicole; Bergmann, Frank; Hackert, Thilo; Klauss, Miriam; Poth, Tanja; Gaida, Matthias M.

Int J Mol Sci ; 21(1)2020 Jan 05.

Artigo em Inglês | MEDLINE | ID: mdl-31948053

15.

High baseline soluble urokinase plasminogen activator receptor (suPAR) serum levels indicate adverse outcome after resection of pancreatic adenocarcinoma.

Loosen, Sven H; Tacke, Frank; Püthe, Niklas; Binneboesel, Marcel; Wiltberger, Georg; Alizai, Patrick H; Kather, Jakob N; Paffenholz, Pia; Ritz, Thomas; Koch, Alexander; Bergmann, Frank; Trautwein, Christian; Longerich, Thomas; Roderburg, Christoph; Neumann, Ulf P; Luedde, Tom.

Carcinogenesis ; 40(8): 947-955, 2019 08 22.

Artigo em Inglês | MEDLINE | ID: mdl-30805627

16.

[Spindle and giant cell type undifferentiated carcinoma of the distal bile duct: a case report]. / Undifferenziertes Karzinom des distalen Gallengangs vom Spindel- und Riesenzelltyp: Ein Fallbericht.

Albrecht, Thomas; Mehrabi, Arianeb; Strobel, Oliver; Vogel, Monika Nadja; Stenzinger, Albrecht; Bergmann, Frank; Schirmacher, Peter; Goeppert, Benjamin.

Z Gastroenterol ; 57(1): 52-56, 2019 Jan.

Artigo em Alemão | MEDLINE | ID: mdl-30641603

17.

Efficient Pictet-Spengler Bioconjugation with N-Substituted Pyrrolyl Alanine Derivatives.

Pomplun, Sebastian; Mohamed, Mohamed Y H; Oelschlaegel, Tobias; Wellner, Christian; Bergmann, Frank.

Angew Chem Int Ed Engl ; 58(11): 3542-3547, 2019 03 11.

Artigo em Inglês | MEDLINE | ID: mdl-30653800

18.

Discovery of a microbial transglutaminase enabling highly site-specific labeling of proteins.

Steffen, Wojtek; Ko, Fu Chong; Patel, Jigar; Lyamichev, Victor; Albert, Thomas J; Benz, Jörg; Rudolph, Markus G; Bergmann, Frank; Streidl, Thomas; Kratzsch, Peter; Boenitz-Dulat, Mara; Oelschlaegel, Tobias; Schraeml, Michael.

J Biol Chem ; 292(38): 15622-15635, 2017 09 22.

Artigo em Inglês | MEDLINE | ID: mdl-28751378

19.

Induction of Chromosome Instability by Activation of Yes-Associated Protein and Forkhead Box M1 in Liver Cancer.

Weiler, Sofia M E; Pinna, Federico; Wolf, Thomas; Lutz, Teresa; Geldiyev, Aman; Sticht, Carsten; Knaub, Maria; Thomann, Stefan; Bissinger, Michaela; Wan, Shan; Rössler, Stephanie; Becker, Diana; Gretz, Norbert; Lang, Hauke; Bergmann, Frank; Ustiyan, Vladimir; Kalin, Tatiana V; Singer, Stephan; Lee, Ju-Seog; Marquardt, Jens U; Schirmacher, Peter; Kalinichenko, Vladimir V; Breuhahn, Kai.

Gastroenterology ; 152(8): 2037-2051.e22, 2017 06.

Artigo em Inglês | MEDLINE | ID: mdl-28249813

20.

SED-ML web tools: generate, modify and export standard-compliant simulation studies.

Bergmann, Frank T; Nickerson, David; Waltemath, Dagmar; Scharm, Martin.

Bioinformatics ; 33(8): 1253-1254, 2017 04 15.

Artigo em Inglês | MEDLINE | ID: mdl-28049131

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