John A. Bachman - Department of Systems Biology, Harvard Medical School

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论文共 46 篇作者统计合作学者相似作者

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Drug-target Identification in COVID-19 Disease Mechanisms Using Computational Systems Biology Approaches

Anna Niarakis,Marek Ostaszewski,Alexander Mazein,Inna Kuperstein,Martina Kutmon,Marc E. Gillespie,Akira Funahashi,Marcio Luis Acencio,Ahmed Hemedan,Michael Aichem,Karsten Klein,Tobias Czauderna,Felicia Burtscher,Takahiro G. Yamada,Yusuke Hiki,Noriko F. Hiroi,Finterly Hu,Nhung Pham,Friederike Ehrhart,Egon L. Willighagen,Alberto Valdeolivas,Aurelien Dugourd,Francesco Messina,Marina Esteban-Medina,Maria Pena-Chilet,Kinza Rian,Sylvain Soliman,Sara Sadat Aghamiri,Bhanwar Lal Puniya,Aurelien Naldi,Tomas Helikar,Vidisha Singh, Marco Farinas Fernandez, Viviam Bermudez,Eirini Tsirvouli,Arnau Montagud,Vincent Noel,Miguel Ponce-de-Leon,Dieter Maier,Angela Bauch,Benjamin M. Gyori,John A. Bachman,Augustin Luna,Janet Pinero,Laura I. Furlong,Irina Balaur,Adrien Rougny,Yohan Jarosz,Rupert W. Overall,Robert Phair,Livia Perfetto,Lisa Matthews,Devasahayam Arokia Balaya Rex,Marija Orlic-Milacic,Luis Cristobal Monraz Gomez,Bertrand De Meulder,Jean Marie Ravel,Bijay Jassal,Venkata Satagopam,Guanming Wu,Martin Golebiewski,Piotr Gawron,Laurence Calzone,Jacques S. Beckmann,Chris T. Evelo,Peter D'Eustachio,Falk Schreiber,Julio Saez-Rodriguez,Joaquin Dopazo,Martin Kuiper,Alfonso Valencia,Olaf Wolkenhauer,Hiroaki Kitano,Emmanuel Barillot,Charles Auffray,Rudi Balling,Reinhard Schneider

FRONTIERS IN IMMUNOLOGY (2024)

引用0浏览0WOS引用

Automated Assembly of Molecular Mechanisms at Scale from Text Mining and Curated Databases

John A. Bachman,Benjamin M. Gyori,Peter K. Sorger

MOLECULAR SYSTEMS BIOLOGYno. 5 (2023)

引用4浏览0WOS引用

Assembling a corpus of phosphoproteomic annotations using ProtMapper to normalize site information from databases and text mining

John A. Bachman,Peter K. Sorger,Benjamin M. Gyori

biorxiv（2022）

引用8浏览0引用

ProtSTonKGs: A Sophisticated Transformer Trained on Protein Sequences, Text, and Knowledge Graphs

Helena Balabin,Charles Tapley Hoyt,Benjamin M. Gyori,John A. Bachman,Alpha Tom Kodamullil,Martin Hofmann-Apitius,Daniel Domingo-Fernández

Workshop on Semantic Web Applications and Tools for Life Sciences (SWAT4LS)pp.103-107, (2022)

引用0浏览0EI引用

STonKGs: a Sophisticated Transformer Trained on Biomedical Text and Knowledge Graphs

Helena Balabin,Charles Tapley Hoyt,Colin Birkenbihl,Benjamin M. Gyori,John Bachman,Alpha Tom Kodamullil,Paul G. Ploeger,Martin Hofmann-Apitius,Daniel Domingo-Fernandez

Bioinformaticsno. 6 (2022): 1648-1656

引用13浏览0EIWOS引用

Muscle-specific functional deficits and lifelong fibrosis in response to paediatric radiotherapy and tumour elimination

Jacob G. Kallenbach,John F. Bachman,Nicole D. Paris,Romeo S. Blanc,Thomas O'Connor,Esraa Furati,Jacqueline P. Williams,Joe Chakkalakal

JOURNAL OF CACHEXIA SARCOPENIA AND MUSCLE（2022）

引用10浏览0WOS引用

Automated Network Assembly of Mechanistic Literature for Informed Evidence Identification to Support Cancer Risk Assessment

Bernice Scholten, Laura Guerrero Simon,Shaji Krishnan,Roel Vermeulen,Anjoeka Pronk,Benjamin M. Gyori,John A. Bachman,Jelle Vlaanderen,Rob Stierum

Environmental Health Perspectives（2022）

引用4浏览0WOS引用

A versatile and interoperable computational framework for the analysis and modeling of COVID-19 disease mechanisms

Anna Niarakis,Marek Ostaszewski,Alexander Mazein,Inna Kuperstein,Martina Kutmon,Marc E. Gillespie,Akira Funahashi,Marcio Luis Acencio,Ahmed Hemedan,Michael Aichem,Karsten Klein,Tobias Czauderna,Felicia Burtscher,Takahiro G. Yamada,Yusuke Hiki,Noriko F. Hiroi,Finterly Hu,Nhung Pham,Friederike Ehrhart,Egon L. Willighagen,Alberto Valdeolivas,Aurelien Dugourd,Francesco Messina,Marina Esteban-Medina,Maria Peña-Chilet,Kinza Rian,Sylvain Soliman,Sara Sadat Aghamiri,Bhanwar Lal Puniya,Aurélien Naldi,Tomáš Helikar,Vidisha Singh, Marco Fariñas Fernández, Viviam Bermudez,Eirini Tsirvouli,Arnau Montagud,Vincent Noël,Miguel Ponce de Leon,Dieter Maier,Angela Bauch,Benjamin M. Gyori,John A. Bachman,Augustin Luna,Janet Pinero,Laura I. Furlong,Irina Balaur,Adrien Rougny,Yohan Jarosz,Rupert W. Overall,Robert Phair,Livia Perfetto,Lisa Matthews,Devasahayam Arokia Balaya Rex,Marija Orlic-Milacic,Monraz Gomez Luis Cristobal,Bertrand De Meulder,Jean Marie Ravel,Bijay Jassal,Venkata Satagopam,Guanming Wu,Martin Golebiewski,Piotr Gawron,Laurence Calzone,Jacques S. Beckmann,Chris T. Evelo,Peter D’Eustachio,Falk Schreiber,Julio Saez-Rodriguez,Joaquin Dopazo,Martin Kuiper,Alfonso Valencia,Olaf Wolkenhauer,Hiroaki Kitano,Emmanuel Barillot,Charles Auffray,Rudi Balling,Reinhard Schneider,the COVID- Disease Map Community

biorxiv（2022）

引用0浏览0引用

Increased myocellular lipid and IGFBP-3 expression in a pre-clinical model of pancreatic cancer-related skeletal muscle wasting

Calvin L. Cole,John F. Bachman,Jian Ye,Joseph Murphy,Scott A. Gerber,Christopher A. Beck,Brendan F. Boyce,Gowrishankar Muthukrishnan,Joe V. Chakkalakal,Edward M. Schwarz,David Linehan

Journal of cachexia, sarcopenia and muscleno. 3 (2021): 731-745

引用7浏览0WOS引用

shinyDepMap, a tool to identify targetable cancer genes and their functional connections from Cancer Dependency Map data

Kenichi Shimada,John A. Bachman,Jeremy Muhlich,Timothy J. Mitchison

eLife (2021)

引用31浏览0引用

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