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

Autor: Sarah M Keating, Dagmar Waltemath, Matthias König, Fengkai Zhang, Andreas Dräger, Claudine Chaouiya, Frank T Bergmann, Andrew Finney, Colin S Gillespie, Tomáš Helikar, Stefan Hoops, Rahuman S Malik‐Sheriff, Stuart L Moodie, Ion I Moraru, Chris J Myers, Aurélien Naldi, Brett G Olivier, Sven Sahle, James C Schaff, Lucian P Smith, Maciej J Swat, Denis Thieffry, Leandro Watanabe, Darren J Wilkinson, Michael L Blinov, Kimberly Begley, James R Faeder, Harold F Gómez, Thomas M Hamm, Yuichiro Inagaki, Wolfram Liebermeister, Allyson L Lister, Daniel Lucio, Eric Mjolsness, Carole J Proctor, Karthik Raman, Nicolas Rodriguez, Clifford A Shaffer, Bruce E Shapiro, Joerg Stelling, Neil Swainston, Naoki Tanimura, John Wagner, Martin Meier‐Schellersheim, Herbert M Sauro, Bernhard Palsson, Hamid Bolouri, Hiroaki Kitano, Akira Funahashi, Henning Hermjakob, John C Doyle, Michael Hucka, SBML Level 3 Community members, Richard R Adams, Nicholas A Allen, Bastian R Angermann, Marco Antoniotti, Gary D Bader, Jan Červený, Mélanie Courtot, Chris D Cox, Piero Dalle Pezze, Emek Demir, William S Denney, Harish Dharuri, Julien Dorier, Dirk Drasdo, Ali Ebrahim, Johannes Eichner, Johan Elf, Lukas Endler, Chris T Evelo, Christoph Flamm, Ronan MT Fleming, Martina Fröhlich, Mihai Glont, Emanuel Gonçalves, Martin Golebiewski, Hovakim Grabski, Alex Gutteridge, Damon Hachmeister, Leonard A Harris, Benjamin D Heavner, Ron Henkel, William S Hlavacek, Bin Hu, Daniel R Hyduke, Hidde de Jong, Nick Juty, Peter D Karp, Jonathan R Karr, Douglas B Kell, Roland Keller, Ilya Kiselev, Steffen Klamt, Edda Klipp, Christian Knüpfer, Fedor Kolpakov, Falko Krause, Martina Kutmon, Camille Laibe, Conor Lawless, Lu Li, Leslie M Loew, Rainer Machne, Yukiko Matsuoka, Pedro Mendes, Huaiyu Mi, Florian Mittag, Pedro T Monteiro, Kedar Nath Natarajan, Poul MF Nielsen, Tramy Nguyen, Alida Palmisano, Jean‐Baptiste Pettit, Thomas Pfau, Robert D Phair, Tomas Radivoyevitch, Johann M Rohwer, Oliver A Ruebenacker, Julio Saez‐Rodriguez, Martin Scharm, Henning Schmidt, Falk Schreiber, Michael Schubert, Roman Schulte, Stuart C Sealfon, Kieran Smallbone, Sylvain Soliman, Melanie I Stefan, Devin P Sullivan, Koichi Takahashi, Bas Teusink, David Tolnay, Ibrahim Vazirabad, Axel von Kamp, Ulrike Wittig, Clemens Wrzodek, Finja Wrzodek, Ioannis Xenarios, Anna Zhukova, Jeremy Zucker

Publikováno v: Molecular Systems Biology, Vol 16, Iss 8, Pp 1-21 (2020)

Abstract Systems biology has experienced dramatic growth in the number, size, and complexity of computational models. To reproduce simulation results and reuse models, researchers must exchange unambiguous model descriptions. We review the latest edi

Externí odkaz: https://doaj.org/article/86e517962df24b21af078b7f951f7487

Lymphocyte-depleted classic Hodgkin lymphoma with primary extranodal disease: Two cases that highlight the combination of immunodeficiency and immune escape in the pathogenesis

Autor: Ayako Sakakibara, Yu Sakai, Emiko Takahashi, Hiroshi Kosugi, Yuka Suzuki, Satoko Shimada, Akira Satou, Kei Kohno, Yoshie Shimoyama, Shigeo Nakamura, Seiichi Kato, Taishi Takahara, Yuichiro Inagaki, Naoko Asano, Yuta Tsuyuki

Publikováno v: Journal of Clinical and Experimental Hematopathology : JCEH

Neoplastic programmed cell death ligand 1 (PD-L1) expression, activated by PD-L1 gene alterations, is strongly associated with classic Hodgkin lymphoma (CHL). This association enabled a diagnostic consensus for lymphocyte-depleted CHL (LD-CHL), a pre

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7315148799f13def61800a49927b639b
http://europepmc.org/articles/PMC8519246

Clinical Benefit of Low-Dose Antithymocyte Globulin-Thymoglobulin as Graft-versus-Host Disease Prophylaxis in Patients Receiving Allogeneic Peripheral Blood Stem Cell Transplantation from HLA-Identical Donors

Autor: Yuki Takeuchi, Kotaro Miyao, Shuto Negishi, Fumiya Ohara, Kenta Motegi, Hiroya Wakabayashi, Hirofumi Yokota, Shihomi Kuwano, Hitomi Sawa, Yuichiro Inagaki, Masashi Sawa

Publikováno v: Transplantation and Cellular Therapy. 29:325.e1-325.e10

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::d88968c36f979754f48410eaec4bf2f3
https://doi.org/10.1016/j.jtct.2023.01.026

Efficacy and safety of modified BLd therapy for Japanese patients with transplant-ineligible multiple myeloma

Autor: Satsuki Murakami, Masaki Ri, Masato Ito, Nobuhiko Nakamura, Senji Kasahara, Junichi Kitagawa, Yuichiro Inagaki, Junya Kuroda, Makoto Yoshimitsu, Akinao Okamoto, Noriko Fukuhara, Hirofumi Taji, Hiroatsu Iida, Hirokazu Nagai, Ichiro Hanamura, Hideki Tsujimura, Miyuki Okura, Mio Kurata, Yachiyo Kuwatsuka, Yoshiko Atsuta, Shinsuke Iida

Publikováno v: International journal of hematology. 116(4)

The BLd regimen, which is a triplet regimen of bortezomib (Bor), lenalidomide (Len), and dexamethasone (Dex), is effective against newly diagnosed multiple myeloma (NDMM). However, non-hematological toxicities, such as peripheral neuropathy (PN), oft

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8aeebe57e9114e9ea14986e0c1e8857b
https://pubmed.ncbi.nlm.nih.gov/35699890

Divergence and heterogeneity of neoplastic PD‐L1 expression: Two autopsy case reports of intravascular large B‐cell lymphoma

Autor: Kazuyuki Shimada, Yuka Suzuki, Akira Satou, Eiki Imaoka, Ayako Sakakibara, Kei Kohno, Yuichiro Inagaki, Satoko Shimada, Masafumi Ito, Eri Ishikawa, Shigeo Nakamura, Yu Sakai

Publikováno v: Pathology International. 69:148-154

Intravascular large B‐cell lymphoma (IVLBCL) is a distinct disease, but the neoplastic PD‐L1 expression on tumor cells may vary among cases. We evaluated 10 IVLBCL autopsy cases for neoplastic PD‐L1 expression, and had positive results in two c

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e9f7d4fb96bf172c5a61852ff700868d
https://doi.org/10.1111/pin.12757