references.bib

@book{Adam2014EleTre,
  title = {Elephant Treaties: {{The Colonial}} Legacy of the Biodiversity Crisis},
  author = {Adam, Rachelle},
  date = {2014},
  publisher = {{UPNE}}
}

@article{Albouy2019MarFis,
  title = {The Marine Fish Food Web Is Globally Connected},
  author = {Albouy, Camille and Archambault, Philippe and Appeltans, Ward and Ara\'ujo, Miguel B. and Beauchesne, David and Cazelles, Kevin and Cirtwill, Alyssa R. and Fortin, Marie-Jos\'ee and Galiana, Nuria and Leroux, Shawn J. and Pellissier, Lo\"ic and Poisot, Timoth\'ee and Stouffer, Daniel B. and Wood, Spencer A. and Gravel, Dominique},
  date = {2019-08},
  journaltitle = {Nature Ecology \& Evolution},
  volume = {3},
  number = {8},
  pages = {1153--1161},
  publisher = {{Nature Publishing Group}},
  issn = {2397-334X},
  doi = {10.1038/s41559-019-0950-y},
  issue = {8},
  langid = {english}
}

@article{Albrecht2018PlaAni,
  title = {Plant and Animal Functional Diversity Drive Mutualistic Network Assembly across an Elevational Gradient},
  author = {Albrecht, J\"org and Classen, Alice and Vollst\"adt, Maximilian G. R. and Mayr, Antonia and Mollel, Neduvoto P. and Schellenberger Costa, David and Dulle, Hamadi I. and Fischer, Markus and Hemp, Andreas and Howell, Kim M. and Kleyer, Michael and Nauss, Thomas and Peters, Marcell K. and Tschapka, Marco and Steffan-Dewenter, Ingolf and B\"ohning-Gaese, Katrin and Schleuning, Matthias},
  date = {2018-08-09},
  journaltitle = {Nature Communications},
  volume = {9},
  number = {1},
  pages = {3177},
  issn = {2041-1723},
  doi = {10.1038/s41467-018-05610-w},
  langid = {english}
}

@online{Arsov2019NetEmb,
  title = {Network {{Embedding}}: {{An Overview}}},
  author = {Arsov, Nino and Mirceva, Georgina},
  date = {2019-11-26},
  eprint = {1911.11726},
  eprinttype = {arxiv},
  primaryclass = {cs, stat},
  archiveprefix = {arXiv}
}

@article{Banville2021ManJl,
  title = {Mangal.Jl and {{EcologicalNetworks}}.Jl: {{Two}} Complementary Packages for Analyzing Ecological Networks in {{Julia}}},
  author = {Banville, Francis and Vissault, Steve and Poisot, Timoth\'ee},
  date = {2021-05-05},
  journaltitle = {Journal of Open Source Software},
  volume = {6},
  number = {61},
  pages = {2721},
  issn = {2475-9066},
  doi = {10.21105/joss.02721},
  langid = {english}
}

@article{Bascompte2003NesAss,
  title = {The Nested Assembly of Plant-Animal Mutualistic Networks},
  author = {Bascompte, J. and Jordano, P. and Melian, C. J. and Olesen, J. M.},
  date = {2003-08-05},
  journaltitle = {Proceedings of the National Academy of Sciences},
  volume = {100},
  number = {16},
  pages = {9383--9387},
  issn = {0027-8424, 1091-6490},
  doi = {10.1073/pnas.1633576100},
  langid = {english}
}

@article{Beckerman2006ForBio,
  title = {Foraging Biology Predicts Food Web Complexity},
  author = {Beckerman, Andrew P. and Petchey, Owen L. and Warren, Philip H.},
  date = {2006-09-12},
  journaltitle = {Proceedings of the National Academy of Sciences},
  volume = {103},
  number = {37},
  eprint = {16954193},
  eprinttype = {pmid},
  pages = {13745--13749},
  issn = {0027-8424, 1091-6490},
  doi = {10.1073/pnas.0603039103},
  langid = {english}
}

@article{Bezanson2017JulFre,
  title = {Julia: {{A Fresh Approach}} to {{Numerical Computing}}},
  author = {Bezanson, J. and Edelman, A. and Karpinski, S. and Shah, V.},
  date = {2017-01-01},
  journaltitle = {SIAM Review},
  volume = {59},
  number = {1},
  pages = {65--98},
  issn = {0036-1445},
  doi = {10.1137/141000671}
}

@article{Boeckaerts2021PreBac,
  title = {Predicting Bacteriophage Hosts Based on Sequences of Annotated Receptor-Binding Proteins},
  author = {Boeckaerts, Dimitri and Stock, Michiel and Criel, Bjorn and Gerstmans, Hans and De Baets, Bernard and Briers, Yves},
  date = {2021-01-14},
  journaltitle = {Scientific Reports},
  volume = {11},
  number = {1},
  pages = {1467},
  publisher = {{Nature Publishing Group}},
  issn = {2045-2322},
  doi = {10.1038/s41598-021-81063-4},
  issue = {1},
  langid = {english}
}

@article{Braga2021PhyRec,
  title = {Phylogenetic Reconstruction of Ancestral Ecological Networks through Time for Pierid Butterflies and Their Host Plants},
  author = {Braga, Mariana P. and Janz, Niklas and Nylin, S\"oren and Ronquist, Fredrik and Landis, Michael J.},
  date = {2021},
  journaltitle = {Ecology Letters},
  volume = {n/a},
  number = {n/a},
  issn = {1461-0248},
  doi = {10.1111/ele.13842},
  langid = {english}
}

@article{BramonMora2018IdeCom,
  title = {Identifying a Common Backbone of Interactions Underlying Food Webs from Different Ecosystems},
  author = {Bramon Mora, Bernat and Gravel, Dominique and Gilarranz, Luis J. and Poisot, Timoth\'ee and Stouffer, Daniel B.},
  date = {2018-07-04},
  journaltitle = {Nature Communications},
  volume = {9},
  number = {1},
  pages = {2603},
  issn = {2041-1723},
  doi = {10.1038/s41467-018-05056-0},
  langid = {english}
}

@article{Brose2006ConRes,
  title = {Consumer\textendash{{Resource Body-Size Relationships}} in {{Natural Food Webs}}},
  author = {Brose, Ulrich and Jonsson, Tomas and Berlow, Eric L. and Warren, Philip and Banasek-Richter, Carolin and Bersier, Louis-F\'elix and Blanchard, Julia L. and Brey, Thomas and Carpenter, Stephen R. and Blandenier, Marie-France Cattin and Cushing, Lara and Dawah, Hassan Ali and Dell, Tony and Edwards, Francois and Harper-Smith, Sarah and Jacob, Ute and Ledger, Mark E. and Martinez, Neo D. and Memmott, Jane and Mintenbeck, Katja and Pinnegar, John K. and Rall, Bj\"orn C. and Rayner, Thomas S. and Reuman, Daniel C. and Ruess, Liliane and Ulrich, Werner and Williams, Richard J. and Woodward, Guy and Cohen, Joel E.},
  date = {2006-10-01},
  journaltitle = {Ecology},
  volume = {87},
  number = {10},
  pages = {2411--2417},
  issn = {1939-9170},
  doi = {10.1890/0012-9658(2006)87[2411:CBRINF]2.0.CO;2},
  langid = {english}
}

@article{Buxton2021KeyInf,
  title = {Key Information Needs to Move from Knowledge to Action for Biodiversity Conservation in {{Canada}}},
  author = {Buxton, Rachel T. and Bennett, Joseph R. and Reid, Andrea J. and Shulman, Charles and Cooke, Steven J. and Francis, Charles M. and Nyboer, Elizabeth A. and Pritchard, Gary and Binley, Allison D. and Avery-Gomm, Stephanie and Ban, Natalie C. and Beazley, Karen F. and Bennett, Elena and Blight, Louise K. and Bortolotti, Lauren E. and Camfield, Alaine F. and Gadallah, Fawziah and Jacob, Aerin L. and Naujokaitis-Lewis, Ilona and Raudsepp-Hearne, Ciara and Roche, Dominique G. and Soulard, Fran\c{c}ois and Stralberg, Diana and Sadler, Kella D. and Solarik, Kevin A. and Ziter, Carly D. and Brandt, James and McKindsey, Christopher W. and Greenwood, David A. and Boxall, Peter C. and Ngolah, Cyprian F. and Chan, Kai M. A. and Lapen, David and Poser, Scott and Girard, Judith and DiBacco, Claudio and Hayne, Shari and Orihel, Diane and Lewis, Doug and Littlechild, Danika and Marshall, Shawn J. and McDermott, Larry and Whitlow, Rod and Browne, David and Sunday, Jennifer and Smith, Paul A.},
  date = {2021-04-01},
  journaltitle = {Biological Conservation},
  volume = {256},
  pages = {108983},
  issn = {0006-3207},
  doi = {10.1016/j.biocon.2021.108983},
  langid = {english}
}

@online{Cai2017ComSur,
  title = {A {{Comprehensive Survey}} of {{Graph Embedding}}: {{Problems}}, {{Techniques}} and {{Applications}}},
  author = {Cai, Hongyun and Zheng, Vincent W. and Chang, Kevin Chen-Chuan},
  date = {2017},
  eprint = {1709.07604},
  eprinttype = {arxiv},
  archiveprefix = {arXiv}
}

@article{Cameron2019UneGlo,
  title = {Uneven Global Distribution of Food Web Studies under Climate Change},
  author = {Cameron, Erin K. and Sundqvist, Maja K. and Keith, Sally A. and CaraDonna, Paul J. and Mousing, Erik A. and Nilsson, Karin A. and Metcalfe, Daniel B. and Classen, Aim\'ee T.},
  date = {2019},
  journaltitle = {Ecosphere},
  volume = {10},
  number = {3},
  pages = {e02645},
  issn = {2150-8925},
  doi = {10.1002/ecs2.2645},
  langid = {english}
}

@article{Cao2019NetEmb,
  title = {Network Embedding for Link Prediction: {{The}} Pitfall and Improvement},
  author = {Cao, Ren-Meng and Liu, Si-Yuan and Xu, Xiao-Ke},
  date = {2019-10-01},
  journaltitle = {Chaos: An Interdisciplinary Journal of Nonlinear Science},
  volume = {29},
  number = {10},
  pages = {103102},
  issn = {1054-1500},
  doi = {10.1063/1.5120724}
}

@article{Carlson2019GloEst,
  title = {Global Estimates of Mammalian Viral Diversity Accounting for Host Sharing},
  author = {Carlson, Colin J. and Zipfel, Casey M. and Garnier, Romain and Bansal, Shweta},
  date = {2019-07},
  journaltitle = {Nature Ecology \& Evolution},
  volume = {3},
  number = {7},
  pages = {1070--1075},
  publisher = {{Nature Publishing Group}},
  issn = {2397-334X},
  doi = {10.1038/s41559-019-0910-6},
  issue = {7},
  langid = {english}
}

@article{Cavender-Bares2009MerCom,
  title = {The Merging of Community Ecology and Phylogenetic Biology},
  author = {Cavender-Bares, Jeannine and Kozak, Kenneth H. and Fine, Paul V. A. and Kembel, Steven W.},
  date = {2009},
  journaltitle = {Ecology Letters},
  volume = {12},
  number = {7},
  pages = {693--715},
  issn = {1461-0248},
  doi = {10.1111/j.1461-0248.2009.01314.x},
  langid = {english}
}

@incollection{Choudry2013SavBio,
  title = {Saving Biodiversity, for Whom and for What? {{Conservation NGOs}}, Complicity, Colonialism and Conquest in an Era of Capitalist Globalization},
  booktitle = {{{NGOization}}: {{Complicity}}, Contradictions and Prospects},
  author = {Choudry, Aziz},
  date = {2013},
  pages = {24--44},
  publisher = {{Bloomsbury Publishing}}
}

@article{Cirtwill2019QuaFra,
  title = {A Quantitative Framework for Investigating the Reliability of Empirical Network Construction},
  author = {Cirtwill, Alyssa R. and Ekl\"\cyrchar\cyrof, Anna and Roslin, Tomas and Wootton, Kate and Gravel, Dominique},
  date = {2019},
  journaltitle = {Methods in Ecology and Evolution},
  volume = {0},
  issn = {2041-210X},
  doi = {10.1111/2041-210X.13180},
  issue = {ja},
  langid = {english}
}

@article{Cirtwill2021BuiFoo,
  title = {Building Food Networks from Molecular Data: {{Bayesian}} or Fixed-Number Thresholds for Including Links},
  author = {Cirtwill, Alyssa R. and Hamb\"ack, Peter},
  date = {2021-02-01},
  journaltitle = {Basic and Applied Ecology},
  volume = {50},
  pages = {67--76},
  issn = {1439-1791},
  doi = {10.1016/j.baae.2020.11.007},
  langid = {english}
}

@article{Csermely2004StrLin,
  title = {Strong Links Are Important, but Weak Links Stabilize Them},
  author = {Csermely, Peter},
  date = {2004-07},
  journaltitle = {Trends in Biochemical Sciences},
  volume = {29},
  number = {7},
  pages = {331--334},
  issn = {09680004},
  doi = {10.1016/j.tibs.2004.05.004},
  langid = {english}
}

@article{Dale2010GraSpa,
  title = {From {{Graphs}} to {{Spatial Graphs}}},
  author = {Dale, M.R.T. and Fortin, M.-J.},
  date = {2010},
  journaltitle = {Annual Review of Ecology, Evolution, and Systematics},
  volume = {41},
  eprint = {27896212},
  eprinttype = {jstor},
  pages = {21--38},
  publisher = {{Annual Reviews}},
  issn = {1543-592X}
}

@article{DallaRiva2016ExpEvo,
  title = {Exploring the Evolutionary Signature of Food Webs' Backbones Using Functional Traits},
  author = {Dalla Riva, Giulio V. and Stouffer, Daniel B.},
  date = {2016-04},
  journaltitle = {Oikos},
  volume = {125},
  number = {4},
  pages = {446--456},
  issn = {00301299},
  doi = {10.1111/oik.02305},
  langid = {english}
}

@article{Dallas2017PreCry,
  title = {Predicting Cryptic Links in Host-Parasite Networks},
  author = {Dallas, Tad and Park, Andrew W. and Drake, John M.},
  date = {2017-05-25},
  journaltitle = {PLOS Computational Biology},
  volume = {13},
  number = {5},
  pages = {e1005557},
  publisher = {{Public Library of Science}},
  issn = {1553-7358},
  doi = {10.1371/journal.pcbi.1005557},
  langid = {english}
}

@article{Dansereau2021SimJl,
  title = {{{SimpleSDMLayers}}.Jl and {{GBIF}}.Jl: {{A Framework}} for {{Species Distribution Modeling}} in {{Julia}}},
  author = {Dansereau, Gabriel and Poisot, Timoth\'ee},
  date = {2021-01-27},
  journaltitle = {Journal of Open Source Software},
  volume = {6},
  number = {57},
  pages = {2872},
  issn = {2475-9066},
  doi = {10.21105/joss.02872},
  langid = {english}
}

@article{Delmas2018AnaEco,
  title = {Analysing Ecological Networks of Species Interactions},
  author = {Delmas, Eva and Besson, Mathilde and Brice, Marie-H\'el\`ene and Burkle, Laura A. and Dalla Riva, Giulio V. and Fortin, Marie-Jos\'ee and Gravel, Dominique and Guimar\~aes, Paulo R. and Hembry, David H. and Newman, Erica A. and Olesen, Jens M. and Pires, Mathias M. and Yeakel, Justin D. and Poisot, Timoth\'ee},
  date = {2018-06-20},
  journaltitle = {Biological Reviews},
  pages = {112540},
  issn = {14647931},
  doi = {10.1111/brv.12433},
  langid = {english}
}

@article{Dominguez2020DecCon,
  title = {Decolonising {{Conservation Policy}}: {{How Colonial Land}} and {{Conservation Ideologies Persist}} and {{Perpetuate Indigenous Injustices}} at the {{Expense}} of the {{Environment}}},
  author = {Dom\'inguez, Lara and Luoma, Colin},
  date = {2020-03},
  journaltitle = {Land},
  volume = {9},
  number = {3},
  pages = {65},
  publisher = {{Multidisciplinary Digital Publishing Institute}},
  doi = {10.3390/land9030065},
  issue = {3},
  langid = {english}
}

@article{Dormann2010EvoCli,
  title = {Evolution of Climate Niches in {{European}} Mammals?},
  author = {Dormann, Carsten F. and Gruber, Bernd and Winter, Marten and Herrmann, Dirk},
  date = {2010-04-23},
  journaltitle = {Biology Letters},
  volume = {6},
  number = {2},
  pages = {229--232},
  publisher = {{Royal Society}},
  doi = {10.1098/rsbl.2009.0688}
}

@incollection{Dunne2006NetStr,
  title = {The {{Network Structure}} of {{Food Webs}}},
  booktitle = {Ecological Networks: {{Linking}} Structure and Dynamics},
  author = {Dunne, Jennifer A},
  editor = {Dunne, Jennifer A and Pascual, Mercedes},
  date = {2006},
  pages = {27--86},
  publisher = {{Oxford University Press}}
}

@article{Eichhorn2019SteDec,
  title = {Steps towards Decolonising Biogeography},
  author = {Eichhorn, Markus P. and Baker, Kate and Griffiths, Mark},
  date = {2019},
  journaltitle = {Frontiers of Biogeography},
  volume = {12},
  number = {1},
  pages = {1--7},
  publisher = {{International Biogeography Society, IBS}},
  issn = {1948-6596},
  doi = {10.21425/F5FBG44795},
  langid = {english}
}

@article{Eklof2016PhyCom,
  title = {The Phylogenetic Component of Food Web Structure and Intervality},
  author = {Ekl\"of, Anna and Stouffer, Daniel B.},
  date = {2016-02-01},
  journaltitle = {Theoretical Ecology},
  volume = {9},
  number = {1},
  pages = {107--115},
  issn = {1874-1738, 1874-1746},
  doi = {10.1007/s12080-015-0273-9},
  langid = {english}
}

@article{Fortin2021NetEco,
  title = {Network Ecology in Dynamic Landscapes},
  author = {Fortin, Marie-Jos\'ee and Dale, Mark R. T. and Brimacombe, Chris},
  date = {2021-04-28},
  journaltitle = {Proceedings of the Royal Society B: Biological Sciences},
  volume = {288},
  number = {1949},
  pages = {rspb.2020.1889, 20201889},
  issn = {0962-8452, 1471-2954},
  doi = {10.1098/rspb.2020.1889},
  langid = {english}
}

@article{Galiana2018SpaSca,
  title = {The Spatial Scaling of Species Interaction Networks},
  author = {Galiana, N\'uria and Lurgi, Miguel and Claramunt-L\'opez, Bernat and Fortin, Marie-Jos\'ee and Leroux, Shawn and Cazelles, Kevin and Gravel, Dominique and Montoya, Jos\'e M.},
  date = {2018-05},
  journaltitle = {Nature Ecology \& Evolution},
  volume = {2},
  number = {5},
  pages = {782--790},
  issn = {2397-334X},
  doi = {10.1038/s41559-018-0517-3},
  langid = {english}
}

@article{Galiana2019GeoVar,
  title = {The Geographical Variation of Network Structure Is Scale Dependent: Understanding the Biotic Specialization of Host\textendash Parasitoid Networks},
  author = {Galiana, N\'uria and Hawkins, Bradford A. and Montoya, Jos\'e M.},
  date = {2019},
  journaltitle = {Ecography},
  volume = {42},
  number = {6},
  pages = {1175--1187},
  issn = {1600-0587},
  doi = {10.1111/ecog.03684},
  langid = {english}
}

@article{Galiana2021SpaSca,
  title = {The Spatial Scaling of Food Web Structure across {{European}} Biogeographical Regions},
  author = {Galiana, N\'uria and Barros, Ceres and Braga, Jo\~ao and Ficetola, Gentile Francesco and Maiorano, Luigi and Thuiller, Wilfried and Montoya, Jos\'e M. and Lurgi, Miguel},
  date = {2021},
  journaltitle = {Ecography},
  volume = {n/a},
  number = {n/a},
  issn = {1600-0587},
  doi = {10.1111/ecog.05229},
  langid = {english}
}

@article{Garland1999IntPhy,
  title = {An {{Introduction}} to {{Phylogenetically Based Statistical Methods}}, with a {{New Method}} for {{Confidence Intervals}} on {{Ancestral Values1}}},
  author = {Garland, JR., THEODORE and Midford, PETER E. and Ives, ANTHONY R.},
  date = {1999-04-01},
  journaltitle = {American Zoologist},
  volume = {39},
  number = {2},
  pages = {374--388},
  issn = {0003-1569},
  doi = {10.1093/icb/39.2.374}
}

@article{Garlaschelli2018CovStr,
  title = {Covariance Structure behind Breaking of Ensemble Equivalence in Random Graphs},
  author = {Garlaschelli, Diego and den Hollander, Frank and Roccaverde, Andrea},
  date = {2018-11},
  journaltitle = {Journal of Statistical Physics},
  volume = {173},
  number = {3-4},
  eprint = {1711.04273},
  eprinttype = {arxiv},
  pages = {644--662},
  issn = {0022-4715, 1572-9613},
  doi = {10.1007/s10955-018-2114-x},
  archiveprefix = {arXiv}
}

@article{GBIFSecretariat2021GbiBac,
  title = {{{GBIF Backbone Taxonomy}}},
  author = {{GBIF Secretariat}},
  date = {2021},
  doi = {10.15468/39omei},
  langid = {english}
}

@article{Gerhold2015PhyPat,
  title = {Phylogenetic Patterns Are Not Proxies of Community Assembly Mechanisms (They Are Far Better)},
  author = {Gerhold, Pille and Cahill, James F. and Winter, Marten and Bartish, Igor V. and Prinzing, Andreas},
  date = {2015},
  journaltitle = {Functional Ecology},
  volume = {29},
  number = {5},
  pages = {600--614},
  issn = {1365-2435},
  doi = {10.1111/1365-2435.12425},
  langid = {english}
}

@article{Ginebreda2019QuaEco,
  title = {Quantification of Ecological Complexity and Resilience from Multivariate Biological Metrics Datasets Using Singular Value Decomposition Entropy},
  author = {Ginebreda, Antoni and Sabater-Liesa, Laia and Barcel\'o, Dami\`a},
  date = {2019},
  journaltitle = {MethodsX},
  volume = {6},
  pages = {1668--1676},
  issn = {22150161},
  doi = {10.1016/j.mex.2019.07.020},
  langid = {english}
}

@article{Goyal2018GraEmb,
  title = {Graph Embedding Techniques, Applications, and Performance: {{A}} Survey},
  author = {Goyal, Palash and Ferrara, Emilio},
  date = {2018-07-01},
  journaltitle = {Knowledge-Based Systems},
  volume = {151},
  pages = {78--94},
  issn = {0950-7051},
  doi = {10.1016/j.knosys.2018.03.022},
  langid = {english}
}

@article{Gravel2018BriElt,
  title = {Bringing {{Elton}} and {{Grinnell}} Together: A Quantitative Framework to Represent the Biogeography of Ecological Interaction Networks},
  author = {Gravel, Dominique and Baiser, Benjamin and Dunne, Jennifer A. and Kopelke, Jens-Peter and Martinez, Neo D. and Nyman, Tommi and Poisot, Timoth\'ee and Stouffer, Daniel B. and Tylianakis, Jason M. and Wood, Spencer A. and Roslin, Tomas},
  date = {2018-10},
  journaltitle = {Ecography},
  volume = {0},
  number = {0},
  issn = {1600-0587},
  doi = {10.1111/ecog.04006},
  langid = {english}
}

@article{Grenie2021HarTax,
  title = {Harmonizing Taxon Names in Biodiversity Data: A Review of Tools, Databases, and Best Practices},
  author = {Greni\'e, Matthias and Berti, Emilio and Carvajal-Quintero, Juan D. and Winter, Marten and Sagouis, Alban},
  date = {2021-09-03T07:37:13},
  publisher = {{EcoEvoRxiv}},
  doi = {10.32942/osf.io/e3qnz}
}

@article{Grunig2020CroFor,
  title = {Crop and Forest Pest Metawebs Shift towards Increased Linkage and Suitability Overlap under Climate Change},
  author = {Gr\"unig, Marc and Mazzi, Dominique and Calanca, Pierluigi and Karger, Dirk Nikolaus and Pellissier, Lo\"ic},
  date = {2020-05-11},
  journaltitle = {Communications Biology},
  volume = {3},
  number = {1},
  pages = {1--10},
  publisher = {{Nature Publishing Group}},
  issn = {2399-3642},
  doi = {10.1038/s42003-020-0962-9},
  issue = {1},
  langid = {english}
}

@article{Halevy2009UnrEff,
  title = {The {{Unreasonable Effectiveness}} of {{Data}}},
  author = {Halevy, A. and Norvig, P. and Pereira, F.},
  date = {2009-03},
  journaltitle = {IEEE Intelligent Systems},
  volume = {24},
  number = {2},
  pages = {8--12},
  issn = {1541-1672},
  doi = {10.1109/MIS.2009.36}
}

@article{Halko2011FinStr,
  title = {Finding {{Structure}} with {{Randomness}}: {{Probabilistic Algorithms}} for {{Constructing Approximate Matrix Decompositions}}},
  author = {Halko, N. and Martinsson, P. G. and Tropp, J. A.},
  date = {2011-01-01},
  journaltitle = {SIAM Review},
  volume = {53},
  number = {2},
  pages = {217--288},
  publisher = {{Society for Industrial and Applied Mathematics}},
  issn = {0036-1445},
  doi = {10.1137/090771806}
}

@book{Herbert1965Dun,
  title = {Dune},
  author = {Herbert, Frank},
  date = {1965},
  edition = {1},
  publisher = {{Chilton Book Company}},
  location = {{Philadelphia}},
  isbn = {978-0-425-26654-0},
  langid = {english}
}

@article{Hoffmann2019MacLea,
  title = {Machine Learning in a Data-Limited Regime: {{Augmenting}} Experiments with Synthetic Data Uncovers Order in Crumpled Sheets},
  author = {Hoffmann, Jordan and Bar-Sinai, Yohai and Lee, Lisa M. and Andrejevic, Jovana and Mishra, Shruti and Rubinstein, Shmuel M. and Rycroft, Chris H.},
  date = {2019-04-01},
  journaltitle = {Science Advances},
  volume = {5},
  number = {4},
  pages = {eaau6792},
  issn = {2375-2548},
  doi = {10.1126/sciadv.aau6792},
  langid = {english}
}

@article{Holm2019DefBla,
  title = {In Defense of the Black Box},
  author = {Holm, Elizabeth A.},
  date = {2019-04-05},
  journaltitle = {Science},
  volume = {364},
  number = {6435},
  eprint = {30948538},
  eprinttype = {pmid},
  pages = {26--27},
  issn = {0036-8075, 1095-9203},
  doi = {10.1126/science.aax0162},
  langid = {english}
}

@article{Hortal2015SevSho,
  title = {Seven {{Shortfalls}} That {{Beset Large-Scale Knowledge}} of {{Biodiversity}}},
  author = {Hortal, Joaqu\'in and de Bello, Francesco and Diniz-Filho, Jos\'e Alexandre F. and Lewinsohn, Thomas M. and Lobo, Jorge M. and Ladle, Richard J.},
  options = {useprefix=true},
  date = {2015},
  journaltitle = {Annual Review of Ecology, Evolution, and Systematics},
  volume = {46},
  number = {1},
  pages = {523--549},
  doi = {10.1146/annurev-ecolsys-112414-054400}
}

@article{Hutchinson2017CopSig,
  title = {Cophylogenetic Signal Is Detectable in Pollination Interactions across Ecological Scales},
  author = {Hutchinson, Matthew C. and Cagua, Edgar Fernando and Stouffer, Daniel B.},
  date = {2017},
  journaltitle = {Ecology},
  pages = {n/a-n/a},
  issn = {1939-9170},
  doi = {10.1002/ecy.1955},
  langid = {english}
}

@article{Jordano2016ChaEco,
  title = {Chasing {{Ecological Interactions}}},
  author = {Jordano, Pedro},
  date = {2016-09-15},
  journaltitle = {PLOS Biol},
  volume = {14},
  number = {9},
  pages = {e1002559},
  issn = {1545-7885},
  doi = {10.1371/journal.pbio.1002559}
}

@article{Jordano2016SamNet,
  ids = {Jord16a},
  title = {Sampling Networks of Ecological Interactions},
  author = {Jordano, Pedro},
  editor = {Stouffer, Daniel},
  date = {2016-12},
  journaltitle = {Functional Ecology},
  volume = {30},
  number = {12},
  pages = {1883--1893},
  issn = {02698463},
  doi = {10.1111/1365-2435.12763},
  langid = {english}
}

@article{Kawatsu2021AreNet,
  title = {Are Networks of Trophic Interactions Sufficient for Understanding the Dynamics of Multi-Trophic Communities? {{Analysis}} of a Tri-Trophic Insect Food-Web Time-Series},
  author = {Kawatsu, Kazutaka and Ushio, Masayuki and van Veen, F. J. Frank and Kondoh, Michio},
  options = {useprefix=true},
  date = {2021},
  journaltitle = {Ecology Letters},
  volume = {24},
  number = {3},
  pages = {543--552},
  issn = {1461-0248},
  doi = {10.1111/ele.13672},
  langid = {english}
}

@article{Kefi2012MorMea,
  ids = {KefiBerl12},
  title = {More than a Meal\ldots{} Integrating Non-Feeding Interactions into Food Webs: {{More}} than a Meal \ldots},
  author = {K\'efi, Sonia and Berlow, Eric L. and Wieters, Evie A. and Navarrete, Sergio A. and Petchey, Owen L. and Wood, Spencer A. and Boit, Alice and Joppa, Lucas N. and Lafferty, Kevin D. and Williams, Richard J. and Martinez, Neo D. and Menge, Bruce A. and Blanchette, Carol A. and Iles, Alison C. and Brose, Ulrich},
  date = {2012-04},
  journaltitle = {Ecology Letters},
  volume = {15},
  number = {4},
  pages = {291--300},
  issn = {1461023X},
  doi = {10.1111/j.1461-0248.2011.01732.x},
  langid = {english}
}

@article{Lamba2019DeeLea,
  title = {Deep Learning for Environmental Conservation},
  author = {Lamba, Aakash and Cassey, Phillip and Segaran, Ramesh Raja and Koh, Lian Pin},
  date = {2019-10-07},
  journaltitle = {Current Biology},
  volume = {29},
  number = {19},
  pages = {R977-R982},
  issn = {0960-9822},
  doi = {10.1016/j.cub.2019.08.016},
  langid = {english}
}

@article{Landi2018ComSta,
  title = {Complexity and Stability of Ecological Networks: A Review of the Theory},
  author = {Landi, Pietro and Minoarivelo, Henintsoa O. and Br\"annstr\"om, \AA ke and Hui, Cang and Dieckmann, Ulf},
  date = {2018-10-01},
  journaltitle = {Population Ecology},
  volume = {60},
  number = {4},
  pages = {319--345},
  issn = {1438-390X},
  doi = {10.1007/s10144-018-0628-3},
  langid = {english}
}

@article{Litsios2012EffPhy,
  title = {Effects of {{Phylogenetic Signal}} on {{Ancestral State Reconstruction}}},
  author = {Litsios, Glenn and Salamin, Nicolas},
  date = {2012-05-01},
  journaltitle = {Systematic Biology},
  volume = {61},
  number = {3},
  pages = {533--538},
  issn = {1063-5157},
  doi = {10.1093/sysbio/syr124}
}

@article{MacDonald2020RevLin,
  title = {Revisiting the {{Links-Species Scaling Relationship}} in {{Food Webs}}},
  author = {MacDonald, Arthur Andrew Meahan and Banville, Francis and Poisot, Timoth\'ee},
  date = {2020-07-29},
  journaltitle = {Patterns},
  volume = {0},
  number = {0},
  publisher = {{Elsevier}},
  issn = {2666-3899},
  doi = {10.1016/j.patter.2020.100079},
  langid = {english}
}

@article{Machen2021ThiAlg,
  title = {Thinking Algorithmically: {{The}} Making of Hegemonic Knowledge in Climate Governance},
  author = {Machen, Ruth and Nost, Eric},
  date = {2021},
  journaltitle = {Transactions of the Institute of British Geographers},
  volume = {46},
  number = {3},
  pages = {555--569},
  issn = {1475-5661},
  doi = {10.1111/tran.12441},
  langid = {english}
}

@dataset{Maiorano2020DatTet,
  title = {Data from: {{Tetra-EU}} 1.0: A Species-Level Trophic Meta-Web of {{European}} Tetrapods},
  author = {Maiorano, Luigi and Montemaggiori, Alessandro and Ficetola, Gentile Francesco and O'Connor, Louise and Thuiller, Wilfried},
  date = {2020},
  pages = {16596876 bytes},
  publisher = {{Dryad}},
  doi = {10.5061/DRYAD.JM63XSJ7B},
  langid = {english},
  version = {3}
}

@article{Maiorano2020TetSpe,
  title = {{{TETRA-EU}} 1.0: {{A}} Species-Level Trophic Metaweb of {{European}} Tetrapods},
  author = {Maiorano, Luigi and Montemaggiori, Alessandro and Ficetola, Gentile Francesco and O'Connor, Louise and Thuiller, Wilfried},
  date = {2020-09},
  journaltitle = {Global Ecology and Biogeography},
  volume = {29},
  number = {9},
  pages = {1452--1457},
  issn = {1466-8238},
  doi = {10.1111/geb.13138},
  langid = {english}
}

@article{Marco2018ChaHum,
  title = {Changes in Human Footprint Drive Changes in Species Extinction Risk},
  author = {Marco, Moreno Di and Venter, Oscar and Possingham, Hugh P. and Watson, James E. M.},
  date = {2018-11-05},
  journaltitle = {Nature Communications},
  volume = {9},
  number = {1},
  pages = {4621},
  issn = {2041-1723},
  doi = {10.1038/s41467-018-07049-5},
  langid = {english}
}

@article{McCann2007ProBio,
  title = {Protecting Biostructure},
  author = {McCann, Kevin},
  date = {2007-03-01},
  journaltitle = {Nature},
  volume = {446},
  number = {7131},
  pages = {29--29},
  issn = {0028-0836},
  doi = {10.1038/446029a},
  langid = {english}
}

@article{McLeod2021SamAsy,
  title = {Sampling and Asymptotic Network Properties of Spatial Multi-Trophic Networks},
  author = {McLeod, Anne and Leroux, Shawn J. and Gravel, Dominique and Chu, Cindy and Cirtwill, Alyssa R. and Fortin, Marie-Jos\'ee and Galiana, N\'uria and Poisot, Timoth\'ee and Wood, Spencer A.},
  date = {2021},
  journaltitle = {Oikos},
  volume = {n/a},
  number = {n/a},
  issn = {1600-0706},
  doi = {10.1111/oik.08650},
  langid = {english}
}

@article{Morales-Castilla2015InfBio,
  ids = {mora15ibi},
  title = {Inferring Biotic Interactions from Proxies},
  author = {Morales-Castilla, Ignacio and Matias, Miguel G. and Gravel, Dominique and Ara\'ujo, Miguel B.},
  date = {2015-06},
  journaltitle = {Trends in Ecology \& Evolution},
  volume = {30},
  number = {6},
  pages = {347--356},
  doi = {10.1016/j.tree.2015.03.014},
  owner = {tpoisot}
}

@article{MoseboFernandes2020MacLea,
  title = {Machine {{Learning}} for {{Conservation Planning}} in a {{Changing Climate}}},
  author = {Mosebo Fernandes, Ana Cristina and Quintero Gonzalez, Rebeca and Lenihan-Clarke, Marie Ann and Leslie Trotter, Ezra Francis and Jokar Arsanjani, Jamal},
  date = {2020-01},
  journaltitle = {Sustainability},
  volume = {12},
  number = {18},
  pages = {7657},
  publisher = {{Multidisciplinary Digital Publishing Institute}},
  doi = {10.3390/su12187657},
  issue = {18},
  langid = {english}
}

@article{Mouquet2012EcoAdv,
  title = {Ecophylogenetics: Advances and Perspectives},
  author = {Mouquet, Nicolas and Devictor, Vincent and Meynard, Christine N. and Munoz, Francois and Bersier, Louis-F\'elix and Chave, J\'er\^ome and Couteron, Pierre and Dalecky, Ambroise and Fontaine, Colin and Gravel, Dominique and Hardy, Olivier J. and Jabot, Franck and Lavergne, S\'ebastien and Leibold, Mathew and Mouillot, David and M\"unkem\"uller, Tamara and Pavoine, Sandrine and Prinzing, Andreas and Rodrigues, Ana S. L. and Rohr, Rudolf P. and Th\'ebault, Elisa and Thuiller, Wilfried},
  date = {2012},
  journaltitle = {Biological Reviews},
  volume = {87},
  number = {4},
  pages = {769--785},
  issn = {1469-185X},
  doi = {10.1111/j.1469-185X.2012.00224.x},
  langid = {english}
}

@article{Nelson2019EmbNot,
  title = {To {{Embed}} or {{Not}}: {{Network Embedding}} as a {{Paradigm}} in {{Computational Biology}}},
  author = {Nelson, Walter and Zitnik, Marinka and Wang, Bo and Leskovec, Jure and Goldenberg, Anna and Sharan, Roded},
  date = {2019},
  journaltitle = {Frontiers in Genetics},
  volume = {10},
  issn = {1664-8021},
  doi = {10.3389/fgene.2019.00381},
  langid = {english}
}

@article{Nenzen2014Imp850,
  title = {The {{Impact}} of 850,000 {{Years}} of {{Climate Changes}} on the {{Structure}} and {{Dynamics}} of {{Mammal Food Webs}}},
  author = {Nenz\'en, Hedvig K. and Montoya, Daniel and Varela, Sara},
  date = {2014-09-10},
  journaltitle = {PLOS ONE},
  volume = {9},
  number = {9},
  pages = {e106651},
  issn = {1932-6203},
  doi = {10.1371/journal.pone.0106651},
  langid = {english}
}

@article{Neutel2002StaRea,
  title = {Stability in {{Real Food Webs}}: {{Weak Links}} in {{Long Loops}}},
  author = {Neutel, Anje-Margriet and Heesterbeek, Johan A. P. and de Ruiter, Peter C.},
  options = {useprefix=true},
  date = {2002-05-10},
  journaltitle = {Science},
  volume = {296},
  number = {5570},
  pages = {1120--1123},
  publisher = {{American Association for the Advancement of Science}},
  doi = {10.1126/science.1068326}
}

@article{Nokmaq2021AwaSle,
  title = {``{{Awakening}} the Sleeping Giant'': Re-{{Indigenization}} Principles for Transforming Biodiversity Conservation in {{Canada}} and Beyond},
  author = {No'kmaq, M'sit and Marshall, Albert and Beazley, Karen F. and Hum, Jessica and {joudry}, shalan and Papadopoulos, Anastasia and Pictou, Sherry and Rabesca, Janet and Young, Lisa and Zurba, Melanie},
  date = {2021},
  journaltitle = {FACETS},
  volume = {6},
  number = {1},
  pages = {839--869},
  publisher = {{Canadian Science Publishing 1840 Woodward Drive, Suite 1, Ottawa, ON K2C 0P7}}
}

@article{Nost2021PolEco,
  title = {A Political Ecology of Data},
  author = {Nost, Eric and Goldstein, Jenny Elaine},
  date = {2021-09-23},
  journaltitle = {Environment and Planning E: Nature and Space},
  pages = {25148486211043503},
  issn = {2514-8486},
  doi = {10.1177/25148486211043503},
  langid = {english}
}

@article{OConnor2020UnvFoo,
  title = {Unveiling the Food Webs of Tetrapods across {{Europe}} through the Prism of the {{Eltonian}} Niche},
  author = {O'Connor, Louise M. J. and Pollock, Laura J. and Braga, Jo\~ao and Ficetola, Gentile Francesco and Maiorano, Luigi and Martinez-Almoyna, Camille and Montemaggiori, Alessandro and Ohlmann, Marc and Thuiller, Wilfried},
  date = {2020-01},
  journaltitle = {Journal of Biogeography},
  volume = {47},
  number = {1},
  pages = {181--192},
  issn = {0305-0270, 1365-2699},
  doi = {10.1111/jbi.13773},
  langid = {english}
}

@article{Pan2010SurTra,
  title = {A {{Survey}} on {{Transfer Learning}}},
  author = {Pan, Sinno Jialin and Yang, Qiang},
  date = {2010-10},
  journaltitle = {IEEE Transactions on Knowledge and Data Engineering},
  volume = {22},
  number = {10},
  pages = {1345--1359},
  issn = {1558-2191},
  doi = {10.1109/TKDE.2009.191},
  eventtitle = {{{IEEE Transactions}} on {{Knowledge}} and {{Data Engineering}}}
}

@article{Park2004StaMec,
  title = {Statistical Mechanics of Networks},
  author = {Park, Juyong and Newman, M. E. J.},
  date = {2004-12-07},
  journaltitle = {Physical Review E},
  volume = {70},
  number = {6},
  pages = {066117},
  publisher = {{American Physical Society}},
  doi = {10.1103/PhysRevE.70.066117}
}

@article{Pedersen2017SigCol,
  title = {Signatures of the Collapse and Incipient Recovery of an Overexploited Marine Ecosystem},
  author = {Pedersen, Eric J. and Thompson, Patrick L. and Ball, R. Aaron and Fortin, Marie-Jos\'ee and Gouhier, Tarik C. and Link, Heike and Moritz, Charlotte and Nenzen, Hedvig and Stanley, Ryan R. E. and Taranu, Zofia E. and Gonzalez, Andrew and Guichard, Fr\'ed\'eric and Pepin, Pierre},
  date = {2017-07},
  journaltitle = {Royal Society Open Science},
  volume = {4},
  number = {7},
  pages = {170215},
  issn = {2054-5703},
  doi = {10.1098/rsos.170215},
  langid = {english}
}

@article{Perretti2013ModFor,
  title = {Model-Free Forecasting Outperforms the Correct Mechanistic Model for Simulated and Experimental Data},
  author = {Perretti, Charles T. and Munch, Stephan B. and Sugihara, George},
  date = {2013-03-26},
  journaltitle = {Proceedings of the National Academy of Sciences},
  volume = {110},
  number = {13},
  eprint = {23440207},
  eprinttype = {pmid},
  pages = {5253--5257},
  issn = {0027-8424, 1091-6490},
  doi = {10.1073/pnas.1216076110},
  langid = {english}
}

@article{Pires2015PleMeg,
  title = {Pleistocene Megafaunal Interaction Networks Became More Vulnerable after Human Arrival},
  author = {Pires, Mathias M. and Koch, Paul L. and Fari\~na, Richard A. and de Aguiar, Marcus A. M. and dos Reis, S\'ergio F. and Guimar\~aes, Paulo R.},
  options = {useprefix=true},
  date = {2015-09-07},
  journaltitle = {Proceedings of the Royal Society B: Biological Sciences},
  volume = {282},
  number = {1814},
  pages = {20151367},
  issn = {0962-8452, 1471-2954},
  doi = {10.1098/rspb.2015.1367},
  langid = {english}
}

@article{Poelen2014GloBio,
  title = {Global Biotic Interactions: {{An}} Open Infrastructure to Share and Analyze Species-Interaction Datasets},
  author = {Poelen, Jorrit H. and Simons, James D. and Mungall, Chris J.},
  date = {2014-11-01},
  journaltitle = {Ecological Informatics},
  volume = {24},
  pages = {148--159},
  issn = {1574-9541},
  doi = {10.1016/j.ecoinf.2014.08.005},
  langid = {english}
}

@article{Poisot2012DisSpe,
  title = {The Dissimilarity of Species Interaction Networks},
  author = {Poisot, Timoth\'ee and Canard, Elsa and Mouillot, David and Mouquet, Nicolas and Gravel, Dominique},
  date = {2012},
  journaltitle = {Ecology Letters},
  volume = {15},
  number = {12},
  pages = {1353--1361},
  issn = {1461023X},
  doi = {10.1111/ele.12002},
  langid = {english}
}

@article{Poisot2015SpeWhy,
  ids = {PoisStou15},
  title = {Beyond Species: Why Ecological Interaction Networks Vary through Space and Time},
  author = {Poisot, Timoth\'ee and Stouffer, Daniel B. and Gravel, Dominique},
  date = {2015-03},
  journaltitle = {Oikos},
  volume = {124},
  number = {3},
  pages = {243--251},
  issn = {00301299},
  doi = {10.1111/oik.01719},
  langid = {english}
}

@article{Poisot2016StrPro,
  title = {The Structure of Probabilistic Networks},
  author = {Poisot, Timoth\'ee and Cirtwill, Alyssa R. and Cazelles, K\'evin and Gravel, Dominique and Fortin, Marie-Jos\'ee and Stouffer, Daniel B.},
  editor = {Vamosi, Jana},
  date = {2016-03},
  journaltitle = {Methods in Ecology and Evolution},
  volume = {7},
  number = {3},
  pages = {303--312},
  issn = {2041210X},
  doi = {10.1111/2041-210X.12468},
  langid = {english}
}

@article{Poisot2018IntRet,
  title = {Interactions Retain the Co-Phylogenetic Matching That Communities Lost},
  author = {Poisot, Timoth\'ee and Stouffer, Daniel B.},
  date = {2018-02-01},
  journaltitle = {Oikos},
  volume = {127},
  number = {2},
  pages = {230--238},
  issn = {1600-0706},
  doi = {10.1111/oik.03788},
  langid = {english}
}

@article{Poisot2019EcoJl,
  title = {{{EcologicalNetworks}}.Jl - Analysing Ecological Networks},
  author = {Poisot, Timoth\'ee and Belisle, Zacharie and Hoebeke, Laura and Stock, Michiel and Szefer, Piotr},
  date = {2019},
  journaltitle = {Ecography},
  doi = {10.1111/ecog.04310},
  langid = {english}
}

@article{Poisot2021GloKno,
  title = {Global Knowledge Gaps in Species Interaction Networks Data},
  author = {Poisot, Timoth\'ee and Bergeron, Gabriel and Cazelles, Kevin and Dallas, Tad and Gravel, Dominique and MacDonald, Andrew and Mercier, Benjamin and Violet, Cl\'ement and Vissault, Steve},
  date = {2021},
  journaltitle = {Journal of Biogeography},
  volume = {n/a},
  number = {n/a},
  issn = {1365-2699},
  doi = {10.1111/jbi.14127},
  langid = {english}
}

@online{Poisot2021ImpMam,
  title = {Imputing the Mammalian Virome with Linear Filtering and Singular Value Decomposition},
  author = {Poisot, Timoth\'ee and Ouellet, Marie-Andr\'ee and Mollentze, Nardus and Farrell, Maxwell J. and Becker, Daniel J. and Albery, Gregory F. and Gibb, Rory J. and Seifert, Stephanie N. and Carlson, Colin J.},
  date = {2021-05-31},
  eprint = {2105.14973},
  eprinttype = {arxiv},
  primaryclass = {q-bio},
  archiveprefix = {arXiv}
}

@book{Price2003MacThe,
  title = {Macroevolutionary Theory on Macroecological Patterns},
  author = {Price, Peter W},
  date = {2003},
  publisher = {{Cambridge University Press}}
}

@article{Ray2021BioCri,
  title = {The Biodiversity Crisis in {{Canada}}: Failures and Challenges of Federal and Sub-National Strategic and Legal Frameworks},
  author = {Ray, Justina C. and Grimm, Jaime and Olive, Andrea},
  date = {2021-01-01},
  journaltitle = {FACETS},
  volume = {6},
  pages = {1044--1068},
  publisher = {{Canadian Science Publishing}},
  doi = {10.1139/facets-2020-0075}
}

@online{Reeve2016HowPar,
  title = {How to Partition Diversity},
  author = {Reeve, Richard and Leinster, Tom and Cobbold, Christina A. and Thompson, Jill and Brummitt, Neil and Mitchell, Sonia N. and Matthews, Louise},
  date = {2016-12-08},
  eprint = {1404.6520},
  eprinttype = {arxiv},
  primaryclass = {q-bio},
  archiveprefix = {arXiv}
}

@article{Rosado2013GoiBac,
  title = {Going {{Back}} to {{Basics}}: {{Importance}} of {{Ecophysiology}} When {{Choosing Functional Traits}} for {{Studying Communities}} and {{Ecosystems}}},
  author = {Rosado, Bruno H. P. and Dias, Andr\'e and de Mattos, Eduardo},
  options = {useprefix=true},
  date = {2013-07-01},
  journaltitle = {Natureza \& conserva\c{c}\textasciitilde ao revista brasileira de conserva\c{c}\textasciitilde ao da natureza},
  volume = {11},
  pages = {15--22},
  doi = {10.4322/natcon.2013.002}
}

@article{Runghen2021ExpNod,
  title = {Exploiting Node Metadata to Predict Interactions in Large Networks Using Graph Embedding and Neural Networks},
  author = {Runghen, Rogini and Stouffer, Daniel B and Dalla Riva, Giulio V},
  date = {2021-06-11},
  doi = {10.1101/2021.06.10.447991},
  langid = {english}
}

@article{Schoener1989FooWeb,
  title = {Food Webs from the Small to the Large},
  author = {Schoener, Thomas W},
  date = {1989},
  journaltitle = {Ecology},
  volume = {70},
  number = {6},
  pages = {1559--1589}
}

@article{Seibold2018NecMul,
  title = {The {{Necessity}} of {{Multitrophic Approaches}} in {{Community Ecology}}},
  author = {Seibold, Sebastian and Cadotte, Marc W. and MacIvor, J. Scott and Thorn, Simon and M\"uller, J\"org},
  date = {2018-10-01},
  journaltitle = {Trends in Ecology \& Evolution},
  volume = {33},
  number = {10},
  eprint = {30146326},
  eprinttype = {pmid},
  pages = {754--764},
  issn = {0169-5347},
  doi = {10.1016/j.tree.2018.07.001},
  langid = {english}
}

@online{Shlens2014TutPri,
  title = {A {{Tutorial}} on {{Principal Component Analysis}}},
  author = {Shlens, Jonathon},
  date = {2014-04-03},
  eprint = {1404.1100},
  eprinttype = {arxiv},
  primaryclass = {cs, stat},
  archiveprefix = {arXiv}
}

@article{Solis-Lemus2017PhyPac,
  title = {{{PhyloNetworks}}: {{A Package}} for {{Phylogenetic Networks}}},
  author = {Sol\'is-Lemus, Claudia and Bastide, Paul and An\'e, C\'ecile},
  date = {2017-12-01},
  journaltitle = {Molecular Biology and Evolution},
  volume = {34},
  number = {12},
  pages = {3292--3298},
  issn = {0737-4038},
  doi = {10.1093/molbev/msx235}
}

@article{Stock2021PaiLea,
  title = {Pairwise Learning for Predicting Pollination Interactions Based on Traits and Phylogeny},
  author = {Stock, Michiel},
  date = {2021},
  journaltitle = {Ecological Modelling},
  pages = {14},
  langid = {english}
}

@article{Stouffer2012EvoCon,
  title = {Evolutionary {{Conservation}} of {{Species}}' {{Roles}} in {{Food Webs}}},
  author = {Stouffer, D. B. and Sales-Pardo, M. and Sirer, M. I. and Bascompte, J.},
  date = {2012-03-23},
  journaltitle = {Science},
  volume = {335},
  number = {6075},
  pages = {1489--1492},
  issn = {0036-8075, 1095-9203},
  doi = {10.1126/science.1216556},
  langid = {english}
}

@article{Strong2014ImpNon,
  title = {Impact of {{Non-Native Terrestrial Mammals}} on the {{Structure}} of the {{Terrestrial Mammal Food Web}} of {{Newfoundland}}, {{Canada}}},
  author = {Strong, Justin S. and Leroux, Shawn J.},
  date = {2014-08-29},
  journaltitle = {PLOS ONE},
  volume = {9},
  number = {8},
  pages = {e106264},
  issn = {1932-6203},
  doi = {10.1371/journal.pone.0106264}
}

@article{Strydom2021RoaPre,
  title = {A Roadmap towards Predicting Species Interaction Networks (across Space and Time)},
  author = {Strydom, Tanya and Catchen, Michael D. and Banville, Francis and Caron, Dominique and Dansereau, Gabriel and Desjardins-Proulx, Philippe and Forero-Mu\~noz, Norma R. and Higino, Gracielle and Mercier, Benjamin and Gonzalez, Andrew and Gravel, Dominique and Pollock, Laura and Poisot, Timoth\'ee},
  date = {2021-11-08},
  journaltitle = {Philosophical Transactions of the Royal Society B: Biological Sciences},
  volume = {376},
  number = {1837},
  pages = {20210063},
  publisher = {{Royal Society}},
  doi = {10.1098/rstb.2021.0063}
}

@article{Strydom2021SvdEnt,
  title = {{{SVD Entropy Reveals}} the {{High Complexity}} of {{Ecological Networks}}},
  author = {Strydom, Tanya and Dalla Riva, Giulio V. and Poisot, Timoth\'ee},
  date = {2021},
  journaltitle = {Frontiers in Ecology and Evolution},
  volume = {9},
  publisher = {{Frontiers}},
  issn = {2296-701X},
  doi = {10.3389/fevo.2021.623141},
  langid = {english}
}

@article{Thessen2014KnoExt,
  title = {Knowledge Extraction and Semantic Annotation of Text from the Encyclopedia of Life},
  author = {Thessen, Anne E. and Parr, Cynthia Sims},
  date = {2014},
  journaltitle = {PloS one},
  volume = {9},
  number = {3},
  pages = {e89550},
  publisher = {{Public Library of Science San Francisco, USA}}
}

@incollection{Torrey2010TraLea,
  title = {Transfer Learning},
  booktitle = {Handbook of Research on Machine Learning Applications and Trends: Algorithms, Methods, and Techniques},
  author = {Torrey, Lisa and Shavlik, Jude},
  date = {2010},
  pages = {242--264},
  publisher = {{IGI global}}
}

@article{Trojelsgaard2016EcoNet,
  title = {Ecological Networks in Motion: Micro- and Macroscopic Variability across Scales},
  author = {Tr\o jelsgaard, Kristian and Olesen, Jens M.},
  date = {2016-07-01},
  journaltitle = {Functional Ecology},
  volume = {30},
  number = {12},
  pages = {1926--1935},
  issn = {1365-2435},
  doi = {10.1111/1365-2435.12710},
  langid = {english}
}

@article{Turak2017UsiEss,
  title = {Using the Essential Biodiversity Variables Framework to Measure Biodiversity Change at National Scale},
  author = {Turak, Eren and Brazill-Boast, James and Cooney, Tim and Drielsma, Michael and DelaCruz, Jocelyn and Dunkerley, Gillian and Fernandez, Miguel and Ferrier, Simon and Gill, Mike and Jones, Hugh and Koen, Terry and Leys, John and McGeoch, Melodie and Mihoub, Jean-Baptiste and Scanes, Peter and Schmeller, Dirk and Williams, Kristen},
  date = {2017-09-01},
  journaltitle = {Biological Conservation},
  series = {{{SI}}:{{Measures}} of Biodiversity},
  volume = {213},
  pages = {264--271},
  issn = {0006-3207},
  doi = {10.1016/j.biocon.2016.08.019},
  langid = {english}
}

@article{Upham2019InfMam,
  title = {Inferring the Mammal Tree: {{Species-level}} Sets of Phylogenies for Questions in Ecology, Evolution, and Conservation},
  author = {Upham, Nathan S. and Esselstyn, Jacob A. and Jetz, Walter},
  date = {2019-12-04},
  journaltitle = {PLOS Biology},
  volume = {17},
  number = {12},
  pages = {e3000494},
  publisher = {{Public Library of Science}},
  issn = {1545-7885},
  doi = {10.1371/journal.pbio.3000494},
  langid = {english}
}

@article{vanderHoorn2018SpaMax,
  title = {Sparse {{Maximum-Entropy Random Graphs}} with a {{Given Power-Law Degree Distribution}}},
  author = {van der Hoorn, Pim and Lippner, Gabor and Krioukov, Dmitri},
  options = {useprefix=true},
  date = {2018-11},
  journaltitle = {Journal of Statistical Physics},
  volume = {173},
  number = {3-4},
  eprint = {1705.10261},
  eprinttype = {arxiv},
  pages = {806--844},
  issn = {0022-4715, 1572-9613},
  doi = {10.1007/s10955-017-1887-7},
  archiveprefix = {arXiv}
}

@article{Vermaat2009MajDim,
  title = {Major Dimensions in Food-Web Structure Properties.},
  author = {Vermaat, Jan E and Dunne, Jennifer A and Gilbert, Alison J},
  date = {2009},
  journaltitle = {Ecology},
  volume = {90},
  number = {1},
  eprint = {19294932},
  eprinttype = {pubmed},
  pages = {278--282}
}

@article{Wood2015EffSpa,
  title = {Effects of Spatial Scale of Sampling on Food Web Structure},
  author = {Wood, Spencer A. and Russell, Roly and Hanson, Dieta and Williams, Richard J. and Dunne, Jennifer A.},
  date = {2015},
  journaltitle = {Ecology and Evolution},
  volume = {5},
  number = {17},
  pages = {3769--3782},
  issn = {2045-7758},
  doi = {10.1002/ece3.1640},
  langid = {english}
}

@article{Xing2021RisEco,
  title = {The Rise of Ecological Network Meta-Analyses: {{Problems}} and Prospects},
  author = {Xing, Shuang and Fayle, Tom M.},
  date = {2021-10-01},
  journaltitle = {Global Ecology and Conservation},
  volume = {30},
  pages = {e01805},
  issn = {2351-9894},
  doi = {10.1016/j.gecco.2021.e01805},
  langid = {english}
}

@online{Xu2020UndGra,
  title = {Understanding Graph Embedding Methods and Their Applications},
  author = {Xu, Mengjia},
  date = {2020-12-14},
  eprint = {2012.08019},
  eprinttype = {arxiv},
  primaryclass = {cs, math},
  archiveprefix = {arXiv}
}

@article{Yeakel2014ColEco,
  title = {Collapse of an Ecological Network in {{Ancient Egypt}}},
  author = {Yeakel, Justin D. and Pires, Mathias M. and Rudolf, Lars and Dominy, Nathaniel J. and Koch, Paul L. and Guimar\~aes, Paulo R. and Gross, Thilo},
  date = {2014-10},
  journaltitle = {PNAS},
  volume = {111},
  number = {40},
  pages = {14472--14477},
  doi = {10.1073/pnas.1408471111}
}

@article{Youden1950IndRat,
  title = {Index for Rating Diagnostic Tests},
  author = {Youden, W. J.},
  date = {1950},
  journaltitle = {Cancer},
  volume = {3},
  number = {1},
  pages = {32--35},
  issn = {1097-0142},
  doi = {10.1002/1097-0142(1950)3:1<32::AID-CNCR2820030106>3.0.CO;2-3},
  langid = {english}
}

@inproceedings{Young2007RanDot,
  title = {Random {{Dot Product Graph Models}} for {{Social Networks}}},
  booktitle = {Algorithms and {{Models}} for the {{Web-Graph}}},
  author = {Young, Stephen J. and Scheinerman, Edward R.},
  editor = {Bonato, Anthony and Chung, Fan R. K.},
  date = {2007},
  series = {Lecture {{Notes}} in {{Computer Science}}},
  pages = {138--149},
  publisher = {{Springer}},
  location = {{Berlin, Heidelberg}},
  doi = {10.1007/978-3-540-77004-6_11},
  isbn = {978-3-540-77004-6},
  langid = {english}
}

@article{Young2021BayInf,
  title = {Bayesian Inference of Network Structure from Unreliable Data},
  author = {Young, Jean-Gabriel and Cantwell, George T and Newman, M E J},
  date = {2021-03-07},
  journaltitle = {Journal of Complex Networks},
  volume = {8},
  number = {6},
  issn = {2051-1329},
  doi = {10.1093/comnet/cnaa046}
}

@article{Young2021RecPla,
  title = {Reconstruction of Plant\textendash Pollinator Networks from Observational Data},
  author = {Young, Jean-Gabriel and Valdovinos, Fernanda S. and Newman, M. E. J.},
  date = {2021-06-23},
  journaltitle = {Nature Communications},
  volume = {12},
  number = {1},
  pages = {3911},
  publisher = {{Nature Publishing Group}},
  issn = {2041-1723},
  doi = {10.1038/s41467-021-24149-x},
  issue = {1},
  langid = {english}
}

@article{Zhu2006AutDim,
  title = {Automatic Dimensionality Selection from the Scree Plot via the Use of Profile Likelihood},
  author = {Zhu, Mu and Ghodsi, Ali},
  date = {2006-11-15},
  journaltitle = {Computational Statistics \& Data Analysis},
  volume = {51},
  number = {2},
  pages = {918--930},
  issn = {0167-9473},
  doi = {10.1016/j.csda.2005.09.010},
  langid = {english}
}