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Maps
Dalrymple's charts, 1771-1806 : volume 4.
Author / Creator:Dalrymple, Alexander, 1737-1808, cartographer.
Publisher:[London, England] : Published according to Act of Parliament by A. Dalrymple, 1774-1789.
Call Numbers:SAFE/F8/78
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ArticlesPeer ReviewedFull Text
Cytoscape Automation: empowering workflow-based network analysis
Author / Creator:Otasek, David ; Morris, John H. ; Bouças, Jorge ; Pico, Alexander R. ; Demchak, Barry
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2019-09, Vol.20 (1), p.185-185, Article 185
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ArticlesPeer ReviewedFull Text
PathVisio 3: An Extendable Pathway Analysis Toolbox
Author / Creator:Kutmon, Martina ; van Iersel, Martijn P. ; Bohler, Anwesha ; Kelder, Thomas ; Nunes, Nuno ; Pico, Alexander R. ; Evelo, Chris T.
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2015-02, Vol.11 (2), p.e1004085-e1004085
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ArticlesPeer ReviewedFull Text
Using published pathway figures in enrichment analysis and machine learning
Author / Creator:Shin, Min-Gyoung ; Pico, Alexander R.
Publisher:London: BioMed Central Ltd
Journal title:BMC genomics, 2023-11, Vol.24 (1), p.1-713, Article 713
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ArticlesPeer ReviewedFull Text
Pathway information extracted from 25 years of pathway figures
Author / Creator:Hanspers, Kristina ; Riutta, Anders ; Summer-Kutmon, Martina ; Pico, Alexander R.
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2020-11, Vol.21 (1), p.273-273, Article 273
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ArticlesPeer ReviewedFull Text
Transcriptional profiling and therapeutic targeting of oxidative stress in neuroinflammation
Author / Creator:Mendiola, Andrew S. ; Ryu, Jae Kyu ; Bardehle, Sophia ; Meyer-Franke, Anke ; Ang, Kenny Kean-Hooi ; Wilson, Chris ; Baeten, Kim M. ; Hanspers, Kristina ; Merlini, Mario ; Thomas, Sean ; Petersen, Mark A. ; Williams, Alexander ; Thomas, Reuben ; Rafalski, Victoria A. ; Meza-Acevedo, Rosa ; Tognatta, Reshmi ; Yan, Zhaoqi ; Pfaff, Samuel J. ; Machado, Michael R. ; Bedard, Catherine ; Rios Coronado, Pamela E. ; Jiang, Xiqian ; Wang, Jin ; Pleiss, Michael A. ; Green, Ari J. ; Zamvil, Scott S. ; Pico, Alexander R. ; Bruneau, Benoit G. ; Arkin, Michelle R. ; Akassoglou, Katerina
Publisher:New York: Nature Publishing Group US
Journal title:Nature immunology, 2020-05, Vol.21 (5), p.513-524
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ArticlesPeer ReviewedFull Text
Defining blood-induced microglia functions in neurodegeneration through multiomic profiling
Author / Creator:Mendiola, Andrew S. ; Yan, Zhaoqi ; Dixit, Karuna ; Johnson, Jeffrey R. ; Bouhaddou, Mehdi ; Meyer-Franke, Anke ; Shin, Min-Gyoung ; Yong, Yu ; Agrawal, Ayushi ; MacDonald, Eilidh ; Muthukumar, Gayathri ; Pearce, Clairice ; Arun, Nikhita ; Cabriga, Belinda ; Meza-Acevedo, Rosa ; Alzamora, Maria del Pilar S. ; Zamvil, Scott S. ; Pico, Alexander R. ; Ryu, Jae Kyu ; Krogan, Nevan J. ; Akassoglou, Katerina
Publisher:New York: Nature Publishing Group US
Journal title:Nature immunology, 2023-07, Vol.24 (7), p.1173-1187
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ArticlesPeer ReviewedFull Text
Fibrin-targeting immunotherapy protects against neuroinflammation and neurodegeneration
Author / Creator:Ryu, Jae Kyu ; Rafalski, Victoria A. ; Meyer-Franke, Anke ; Adams, Ryan A. ; Poda, Suresh B. ; Rios Coronado, Pamela E. ; Pedersen, Lars Østergaard ; Menon, Veena ; Baeten, Kim M. ; Sikorski, Shoana L. ; Bedard, Catherine ; Hanspers, Kristina ; Bardehle, Sophia ; Mendiola, Andrew S. ; Davalos, Dimitrios ; Machado, Michael R. ; Chan, Justin P. ; Plastira, Ioanna ; Petersen, Mark A. ; Pfaff, Samuel J. ; Ang, Kenny K. ; Hallenbeck, Kenneth K. ; Syme, Catriona ; Hakozaki, Hiroyuki ; Ellisman, Mark H. ; Swanson, Raymond A. ; Zamvil, Scott S. ; Arkin, Michelle R. ; Zorn, Stevin H. ; Pico, Alexander R. ; Mucke, Lennart ; Freedman, Stephen B. ; Stavenhagen, Jeffrey B. ; Nelson, Robert B. ; Akassoglou, Katerina
Publisher:New York: Nature Publishing Group US
Journal title:Nature immunology, 2018-11, Vol.19 (11), p.1212-1223
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ArticlesPeer ReviewedFull Text
Affinity purification–mass spectrometry and network analysis to understand protein-protein interactions
Author / Creator:Morris, John H ; Knudsen, Giselle M ; Verschueren, Erik ; Johnson, Jeffrey R ; Cimermancic, Peter ; Greninger, Alexander L ; Pico, Alexander R
Publisher:London: Nature Publishing Group UK
Journal title:Nature protocols, 2014-11, Vol.9 (11), p.2539-2554
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ArticlesPeer ReviewedFull Text
RCy3: Network biology using Cytoscape from within R [version 1; peer review: 2 approved]
Author / Creator:Gustavsen, Julia A ; Pai, Shraddha ; Isserlin, Ruth ; Demchak, Barry ; Pico, Alexander R
Publisher:F1000 Research Ltd
Journal title:F1000 research, 2019, Vol.8, p.1774
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ArticlesPeer ReviewedFull Text
WikiPathways: Pathway Editing for the People
Author / Creator:Pico, Alexander R ; Kelder, Thomas ; van Iersel, Martijn P ; Hanspers, Kristina ; Conklin, Bruce R ; Evelo, Chris
Publisher:United States: Public Library of Science
Journal title:PLoS biology, 2008-07, Vol.6 (7), p.e184-e184
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ArticlesPeer ReviewedFull Text
Integration of biological networks and gene expression data using Cytoscape
Author / Creator:Cline, Melissa S ; Smoot, Michael ; Cerami, Ethan ; Kuchinsky, Allan ; Landys, Nerius ; Workman, Chris ; Christmas, Rowan ; Avila-Campilo, Iliana ; Creech, Michael ; Gross, Benjamin ; Hanspers, Kristina ; Isserlin, Ruth ; Kelley, Ryan ; Killcoyne, Sarah ; Lotia, Samad ; Maere, Steven ; Morris, John ; Ono, Keiichiro ; Pavlovic, Vuk ; Pico, Alexander R ; Vailaya, Aditya ; Wang, Peng-Liang ; Adler, Annette ; Conklin, Bruce R ; Hood, Leroy ; Kuiper, Martin ; Sander, Chris ; Schmulevich, Ilya ; Schwikowski, Benno ; Warner, Guy J ; Ideker, Trey ; Bader, Gary D
Publisher:London: Nature Publishing Group UK
Journal title:Nature protocols, 2007-10, Vol.2 (10), p.2366-2382
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ArticlesPeer ReviewedFull Text
Presenting and exploring biological pathways with PathVisio
Author / Creator:van Iersel, Martijn P ; Kelder, Thomas ; Pico, Alexander R ; Hanspers, Kristina ; Coort, Susan ; Conklin, Bruce R ; Evelo, Chris
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2008-09, Vol.9 (1), p.399-399, Article 399
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ArticlesPeer ReviewedFull Text
COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms
Author / Creator:Ostaszewski, Marek ; Mazein, Alexander ; Gillespie, Marc E. ; Kuperstein, Inna ; Niarakis, Anna ; Hermjakob, Henning ; Pico, Alexander R. ; Willighagen, Egon L. ; Evelo, Chris T. ; Hasenauer, Jan ; Schreiber, Falk ; Dräger, Andreas ; Demir, Emek ; Wolkenhauer, Olaf ; Furlong, Laura I. ; Barillot, Emmanuel ; Dopazo, Joaquin ; Orta-Resendiz, Aurelio ; Messina, Francesco ; Valencia, Alfonso ; Funahashi, Akira ; Kitano, Hiroaki ; Auffray, Charles ; Balling, Rudi ; Schneider, Reinhard
Publisher:London: Nature Publishing Group UK
Journal title:Scientific data, 2020-05, Vol.7 (1), p.136-136, Article 136
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ArticlesPeer ReviewedFull Text
The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services
Author / Creator:van Iersel, Martijn P ; Pico, Alexander R ; Kelder, Thomas ; Gao, Jianjiong ; Ho, Isaac ; Hanspers, Kristina ; Conklin, Bruce R ; Evelo, Chris T
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2010-01, Vol.11 (1), p.5-5, Article 5
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Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation
Author / Creator:Salomonis, Nathan ; Schlieve, Christopher R ; Pereira, Laura ; Wahlquist, Christine ; Colas, Alexandre ; Zambon, Alexander C ; Vranizan, Karen ; Spindler, Matthew J ; Pico, Alexander R ; Cline, Melissa S ; Clark, Tyson A ; Williams, Alan ; Blume, John E ; Samal, Eva ; Mercola, Mark ; Merrill, Bradley J ; Conklin, Bruce R
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2010-06, Vol.107 (23), p.10514-10519
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GenMAPP 2: new features and resources for pathway analysis
Author / Creator:Salomonis, Nathan ; Hanspers, Kristina ; Zambon, Alexander C ; Vranizan, Karen ; Lawlor, Steven C ; Dahlquist, Kam D ; Doniger, Scott W ; Stuart, Josh ; Conklin, Bruce R ; Pico, Alexander R
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2007-06, Vol.8 (1), p.217-217, Article 217
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Mining Biological Pathways Using WikiPathways Web Services
Author / Creator:Kelder, Thomas ; Pico, Alexander R. ; Hanspers, Kristina ; van Iersel, Martijn P. ; Evelo, Chris ; Conklin, Bruce R.
Publisher:United States: Public Library of Science
Journal title:PloS one, 2009-07, Vol.4 (7), p.e6447-e6447
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Ten simple rules for creating reusable pathway models for computational analysis and visualization
Author / Creator:Hanspers, Kristina ; Kutmon, Martina ; Coort, Susan L. ; Digles, Daniela ; Dupuis, Lauren J. ; Ehrhart, Friederike ; Hu, Finterly ; Lopes, Elisson N. ; Martens, Marvin ; Pham, Nhung ; Shin, Woosub ; Slenter, Denise N. ; Waagmeester, Andra ; Willighagen, Egon L. ; Winckers, Laurent A. ; Evelo, Chris T. ; Pico, Alexander R.
Publisher:San Francisco, CA USA: Public Library of Science
Journal title:PLoS computational biology, 2021-08, Vol.17 (8), p.e1009226-e1009226
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Reactome from a WikiPathways Perspective
Author / Creator:Bohler, Anwesha ; Wu, Guanming ; Kutmon, Martina ; Pradhana, Leontius Adhika ; Coort, Susan L. ; Hanspers, Kristina ; Haw, Robin ; Pico, Alexander R. ; Evelo, Chris T.
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2016-05, Vol.12 (5), p.e1004941-e1004941
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Showing 1 to 20 of 78 results

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Dalrymple's charts, 1771-1806 : volume 4.

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Cytoscape Automation: empowering workflow-based network analysis

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PathVisio 3: An Extendable Pathway Analysis Toolbox

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Using published pathway figures in enrichment analysis and machine learning

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Pathway information extracted from 25 years of pathway figures

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Transcriptional profiling and therapeutic targeting of oxidative stress in neuroinflammation

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Defining blood-induced microglia functions in neurodegeneration through multiomic profiling

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Fibrin-targeting immunotherapy protects against neuroinflammation and neurodegeneration

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Affinity purification–mass spectrometry and network analysis to understand protein-protein interactions

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RCy3: Network biology using Cytoscape from within R [version 1; peer review: 2 approved]

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WikiPathways: Pathway Editing for the People

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Integration of biological networks and gene expression data using Cytoscape

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Presenting and exploring biological pathways with PathVisio

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COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms

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The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services

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Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation

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GenMAPP 2: new features and resources for pathway analysis

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Mining Biological Pathways Using WikiPathways Web Services

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Ten simple rules for creating reusable pathway models for computational analysis and visualization

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Reactome from a WikiPathways Perspective

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