RACOON Research Group

Research

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Highlighted

Open collaborative writing with Manubot
Open collaborative writing with Manubot
Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter
PLOS Computational Biology  ·  04 Dec 2020  ·  doi:10.1371/journal.pcbi.1007128
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Manubot
Manuscript Source
Website
open-science collaboration

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2025

Lab Media Toolbox v1.2
Lab Media Toolbox v1.2
Timothy James Alamenciak, Joseph R. Bennett
Zenodo  ·  17 Oct 2025  ·  doi:10.5281/zenodo.13237092
Ecolink: Towards a Knowledge Graph Schema for Complex Environmental Systems
Ecolink: Towards a Knowledge Graph Schema for Complex Environmental Systems
Tim Alamenciak, Carlos Alberto Arnillas, Harry Caufield, Katherine Compton, Kian Drew, …, Chris Mungall, Sierra Moxon, Justin Reese, Jordan Tardif, Lars Vogt
Communications in Computer and Information Science  ·  27 Sep 2025  ·  doi:10.1007/978-3-032-06136-2_33
Ecolink: Towards a knowledge graph schema for complex environmental systems
Ecolink: Towards a knowledge graph schema for complex environmental systems
Tim Alamenciak, Carlos Alberto Arnillas, J. Harry Caufield, Katherine Compton, Kian Drew, …, Christopher Mungall, Sierra Taylor Moxon, Justin Reese, Jordan Tardif, Lars Vogt
Zenodo  ·  23 Sep 2025  ·  doi:10.5281/zenodo.17182263
Parallels between biological invasions and human migration are flawed and undermine both disciplines. Response to Ahmed et al.
Parallels between biological invasions and human migration are flawed and undermine both disciplines. Response to Ahmed et al.
Josie South, Roxana Barbulescu, Rafael L Macêdo, Camille L Musseau, Simone Guareschi, …, Tesfalem Yemane, Ulrike M Vieten, Giovanni Vimercati, Elena Zambelli, Deah Lieurance
BioScience  ·  09 Jun 2025  ·  doi:10.1093/biosci/biaf073
Dimensions of effective volunteer restoration techniques in North America
Dimensions of effective volunteer restoration techniques in North America
Tim Alamenciak, Elise Gornish, Stephen D. Murphy
Restoration Ecology  ·  10 Mar 2025  ·  doi:10.1111/rec.70028

2024

Lab Media Toolbox v1.1
Lab Media Toolbox v1.1
Timothy James Alamenciak, Joseph R. Bennett
Zenodo  ·  06 Aug 2024  ·  doi:10.5281/zenodo.13237093
PubCast: What makes a convivial community tool Investigating grassroots ecological restoration
PubCast: What makes a convivial community tool? Investigating grassroots ecological restoration
Tim Alamenciak
ResearchEquals  ·  12 Jul 2024  ·  doi:10.53962/h3gv-g93x
PubCast: Motivations for volunteers to participate in ecological restoration: A systematic map
PubCast: Motivations for volunteers to participate in ecological restoration: A systematic map
Tim Alamenciak
ResearchEquals  ·  24 Jun 2024  ·  doi:10.53962/hprp-rh02
Motivations for volunteers to participate in ecological restoration: a systematic map
Motivations for volunteers to participate in ecological restoration: a systematic map
Tim Alamenciak, Stephen D. Murphy
Restoration Ecology  ·  19 Apr 2024  ·  doi:10.1111/rec.14155
What makes a convivial community tool Investigating grassroots ecological restoration
What makes a convivial community tool? Investigating grassroots ecological restoration
Tim Alamenciak, Stephen Murphy
Ecology and Society  ·  01 Jan 2024  ·  doi:10.5751/es-15258-290303
Survey responses for Community-based nature initiatives and people: Which aspects of project organization affect volunteer engagement
Survey responses for "Community-based nature initiatives and people: Which aspects of project organization affect volunteer engagement?"
Tim Alamenciak
Borealis  ·  01 Jan 2024  ·  doi:10.5683/sp3/v47glq

2023

Ecological restoration research in Canada: who, what, where, when, why, and how
Ecological restoration research in Canada: who, what, where, when, why, and how?
Tim Alamenciak, Dorian Pomezanski, Nancy Shackelford, Stephen D. Murphy, Steven J. Cooke, Line Rochefort, Sonia Voicescu, Eric Higgs
FACETS  ·  01 Jan 2023  ·  doi:10.1139/facets-2022-0157

2022

Systematic map of ecological restoration knowledge in Canada
Systematic map of ecological restoration knowledge in Canada
Tim Alamenciak
Borealis  ·  01 Jan 2022  ·  doi:10.5683/sp3/nobfew
EDITORIAL: Creating testable questions in practical conservation: a process and 100 questions
EDITORIAL: Creating testable questions in practical conservation: a process and 100 questions
William J. Sutherland, Jake M. Robinson, David C. Aldridge, tim Alamenciak, Matthew Armes, …, Euan G. Ritchie, Hugh Raven, Rebecca K. Smith, Sarah H. Watts, Ann Thornton
Conservation Evidence Journal  ·  01 Jan 2022  ·  doi:10.52201/cej19xiff2753

2020

Open collaborative writing with Manubot
Open collaborative writing with Manubot
Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter
PLOS Computational Biology  ·  04 Dec 2020  ·  doi:10.1371/journal.pcbi.1007128
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.
Manubot
Manuscript Source
Website
open-science collaboration
What Will a PhD Look Like in the Future Perspectives on Emerging Trends in Sustainability Doctoral Programs in a Time of Disruption
What Will a PhD Look Like in the Future? Perspectives on Emerging Trends in Sustainability Doctoral Programs in a Time of Disruption
Anita Lazurko, Tim Alamenciak, Lowine Stella Hill, Ella-Kari Muhl, Augustine Kwame Osei, Dorian Pomezanski, Kyle Schang, Dilruba Fatima Sharmin
World Futures Review  ·  01 Dec 2020  ·  doi:10.1177/1946756720976710
Constructing knowledge graphs and their biomedical applications
Constructing knowledge graphs and their biomedical applications
David N. Nicholson, Casey S. Greene
Computational and Structural Biotechnology Journal  ·  01 Jan 2020  ·  doi:10.1016/j.csbj.2020.05.017

2018

Sci-Hub provides access to nearly all scholarly literature
Sci-Hub provides access to nearly all scholarly literature
Daniel S Himmelstein, Ariel Rodriguez Romero, Jacob G Levernier, Thomas Anthony Munro, Stephen Reid McLaughlin, Bastian Greshake Tzovaras, Casey S Greene
eLife  ·  01 Mar 2018  ·  doi:10.7554/eLife.32822