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Peter G. D'eustachio

Peter G. D'eustachio, PhD

Professor, Department of Biochemistry and Molecular Pharmacology

Professor, Department of Medicine

Keywords
Systems biology, bioinformatics
Summary

Building on my longstanding interests in mammalian genetics and genomics, my group’s work centers on the development of the Reactome Knowledgebase, an Elixir and Global Biodata Coalition core biological data resource, in collaboration with research teams at the Ontario Institute for Cancer Research, the Oregon Health & Science University, and the European Bioinformatics Institute - EMBL. We use a variety of sophisticated data-mining tools to capture molecular details of a broad range of normal and disease-related human biological processes in formats that meet community standards for data quality, interoperability, reusability, and open access.

The product of this work is a freely available, expert-annotated, peer-reviewed network of molecular transformations in a single consistent data structure. It now has information for about two-thirds of the human proteome. Reactome thus functions as a high-quality digital textbook of human molecular physiology, as a tool for discovering functional relationships in high-throughput datasets such as gene expression profiles and mutation catalogs from tumor cells, and as a starting point for computational modeling.

Phone

212-263-5779

Academic office

450 East 29th Street, Alexandria East

3, 324

New York, NY 10016

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These focus areas and their associated publications are derived from medical subject headings from PubMed.
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Positions

Professor, Department of Biochemistry and Molecular Pharmacology at NYU Grossman School of Medicine

Professor, Department of Medicine at NYU Grossman School of Medicine

Graduate Education

PhD from Rockefeller University

Pathway-based, reaction-specific annotation of disease variants for elucidation of molecular phenotypes

Orlic-Milacic, Marija; Rothfels, Karen; Matthews, Lisa; Wright, Adam; Jassal, Bijay; Shamovsky, Veronica; Trinh, Quang; Gillespie, Marc E; Sevilla, Cristoffer; Tiwari, Krishna; Ragueneau, Eliot; Gong, Chuqiao; Stephan, Ralf; May, Bruce; Haw, Robin; Weiser, Joel; Beavers, Deidre; Conley, Patrick; Hermjakob, Henning; Stein, Lincoln D; D'Eustachio, Peter; Wu, Guanming

Database : the journal of biological databases & curation. 2024 May 07; 2024:

The Reactome Pathway Knowledgebase 2024

Milacic, Marija; Beavers, Deidre; Conley, Patrick; Gong, Chuqiao; Gillespie, Marc; Griss, Johannes; Haw, Robin; Jassal, Bijay; Matthews, Lisa; May, Bruce; Petryszak, Robert; Ragueneau, Eliot; Rothfels, Karen; Sevilla, Cristoffer; Shamovsky, Veronica; Stephan, Ralf; Tiwari, Krishna; Varusai, Thawfeek; Weiser, Joel; Wright, Adam; Wu, Guanming; Stein, Lincoln; Hermjakob, Henning; D'Eustachio, Peter

Nucleic acids research. 2024 Jan 05; 52(D1):D672-D678

Plant Reactome Knowledgebase: empowering plant pathway exploration and OMICS data analysis

Gupta, Parul; Elser, Justin; Hooks, Elizabeth; D'Eustachio, Peter; Jaiswal, Pankaj; Naithani, Sushma

Nucleic acids research. 2024 Jan 05; 52(D1):D1538-D1547

Biochemical pathways represented by Gene Ontology-Causal Activity Models identify distinct phenotypes resulting from mutations in pathways

Hill, David P; Drabkin, Harold J; Smith, Cynthia L; Van Auken, Kimberly M; D'Eustachio, Peter

Genetics. 2023 Oct 04; 225(2):

Illuminate the Functions of Dark Proteins Using the Reactome-IDG Web Portal

Beavers, Deidre; Brunson, Timothy; Sanati, Nasim; Matthews, Lisa; Haw, Robin; Shorser, Solomon; Sevilla, Cristoffer; Viteri, Guilherme; Conley, Patrick; Rothfels, Karen; Hermjakob, Henning; Stein, Lincoln; D'Eustachio, Peter; Wu, Guanming

Current protocols. 2023 Jul; 3(7):e845

Biocuration of a Transcription Factors Network Involved in Submergence Tolerance during Seed Germination and Coleoptile Elongation in Rice (Oryza sativa)

Naithani, Sushma; Mohanty, Bijayalaxmi; Elser, Justin; D'Eustachio, Peter; Jaiswal, Pankaj

Plants (Basel, Switzerland). 2023 May 29; 12(11):

The Gene Ontology knowledgebase in 2023

,; Aleksander, Suzi A; Balhoff, James; Carbon, Seth; Cherry, J Michael; Drabkin, Harold J; Ebert, Dustin; Feuermann, Marc; Gaudet, Pascale; Harris, Nomi L; Hill, David P; Lee, Raymond; Mi, Huaiyu; Moxon, Sierra; Mungall, Christopher J; Muruganugan, Anushya; Mushayahama, Tremayne; Sternberg, Paul W; Thomas, Paul D; Van Auken, Kimberly; Ramsey, Jolene; Siegele, Deborah A; Chisholm, Rex L; Fey, Petra; Aspromonte, Maria Cristina; Nugnes, Maria Victoria; Quaglia, Federica; Tosatto, Silvio; Giglio, Michelle; Nadendla, Suvarna; Antonazzo, Giulia; Attrill, Helen; Dos Santos, Gil; Marygold, Steven; Strelets, Victor; Tabone, Christopher J; Thurmond, Jim; Zhou, Pinglei; Ahmed, Saadullah H; Asanitthong, Praoparn; Luna Buitrago, Diana; Erdol, Meltem N; Gage, Matthew C; Ali Kadhum, Mohamed; Li, Kan Yan Chloe; Long, Miao; Michalak, Aleksandra; Pesala, Angeline; Pritazahra, Armalya; Saverimuttu, Shirin C C; Su, Renzhi; Thurlow, Kate E; Lovering, Ruth C; Logie, Colin; Oliferenko, Snezhana; Blake, Judith; Christie, Karen; Corbani, Lori; Dolan, Mary E; Drabkin, Harold J; Hill, David P; Ni, Li; Sitnikov, Dmitry; Smith, Cynthia; Cuzick, Alayne; Seager, James; Cooper, Laurel; Elser, Justin; Jaiswal, Pankaj; Gupta, Parul; Jaiswal, Pankaj; Naithani, Sushma; Lera-Ramirez, Manuel; Rutherford, Kim; Wood, Valerie; De Pons, Jeffrey L; Dwinell, Melinda R; Hayman, G Thomas; Kaldunski, Mary L; Kwitek, Anne E; Laulederkind, Stanley J F; Tutaj, Marek A; Vedi, Mahima; Wang, Shur-Jen; D'Eustachio, Peter; Aimo, Lucila; Axelsen, Kristian; Bridge, Alan; Hyka-Nouspikel, Nevila; Morgat, Anne; Aleksander, Suzi A; Cherry, J Michael; Engel, Stacia R; Karra, Kalpana; Miyasato, Stuart R; Nash, Robert S; Skrzypek, Marek S; Weng, Shuai; Wong, Edith D; Bakker, Erika; Berardini, Tanya Z; Reiser, Leonore; Auchincloss, Andrea; Axelsen, Kristian; Argoud-Puy, Ghislaine; Blatter, Marie-Claude; Boutet, Emmanuel; Breuza, Lionel; Bridge, Alan; Casals-Casas, Cristina; Coudert, Elisabeth; Estreicher, Anne; Livia Famiglietti, Maria; Feuermann, Marc; Gos, Arnaud; Gruaz-Gumowski, Nadine; Hulo, Chantal; Hyka-Nouspikel, Nevila; Jungo, Florence; Le Mercier, Philippe; Lieberherr, Damien; Masson, Patrick; Morgat, Anne; Pedruzzi, Ivo; Pourcel, Lucille; Poux, Sylvain; Rivoire, Catherine; Sundaram, Shyamala; Bateman, Alex; Bowler-Barnett, Emily; Bye-A-Jee, Hema; Denny, Paul; Ignatchenko, Alexandr; Ishtiaq, Rizwan; Lock, Antonia; Lussi, Yvonne; Magrane, Michele; Martin, Maria J; Orchard, Sandra; Raposo, Pedro; Speretta, Elena; Tyagi, Nidhi; Warner, Kate; Zaru, Rossana; Diehl, Alexander D; Lee, Raymond; Chan, Juancarlos; Diamantakis, Stavros; Raciti, Daniela; Zarowiecki, Magdalena; Fisher, Malcolm; James-Zorn, Christina; Ponferrada, Virgilio; Zorn, Aaron; Ramachandran, Sridhar; Ruzicka, Leyla; Westerfield, Monte

Genetics. 2023 May 04; 224(1):

Using the Reactome Database

Rothfels, Karen; Milacic, Marija; Matthews, Lisa; Haw, Robin; Sevilla, Cristoffer; Gillespie, Marc; Stephan, Ralf; Gong, Chuqiao; Ragueneau, Eliot; May, Bruce; Shamovsky, Veronica; Wright, Adam; Weiser, Joel; Beavers, Deidre; Conley, Patrick; Tiwari, Krishna; Jassal, Bijay; Griss, Johannes; Senff-Ribeiro, Andrea; Brunson, Timothy; Petryszak, Robert; Hermjakob, Henning; D'Eustachio, Peter; Wu, Guanming; Stein, Lincoln

Current protocols. 2023 Apr; 3(4):e722

See All Publications (189)