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references.bib
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title = {{Engagement of Neural Circuits Underlying 2D Spatial Navigation in a Rodent Virtual Reality System}},
year = {2014},
journal = {Neuron},
author = {Aronov, D. and Tank, D. W.},
number = {2},
pages = {442--456},
volume = {84},
publisher = {Elsevier Inc.},
url = {http://dx.doi.org/10.1016/j.neuron.2014.08.042},
doi = {10.1016/j.neuron.2014.08.042}
}
@article{Buehlmann2018,
title = {{The interaction of path integration and terrestrial visual cues in navigating desert ants: What can we learn from path characteristics?}},
year = {2018},
journal = {Journal of Experimental Biology},
author = {Buehlmann, C. and Fernandes, A. S. D. and Graham, P.},
number = {1},
volume = {221},
doi = {10.1242/jeb.167304},
issn = {00220949},
keywords = {Cataglyphis, Multimodal interactions, Navigation, Visual guidance, Walking speed}
}
@article{Dahmen2017,
title = {{Naturalistic path integration of Cataglyphis desert ants on an air-cushioned lightweight spherical treadmill}},
year = {2017},
journal = {The Journal of Experimental Biology},
author = {Dahmen, H. and Wahl, V. L. and Pfeffer, S. E. and Mallot, H. A. and Wittlinger, M.},
number = {4},
pages = {634--644},
volume = {220},
doi = {10.1242/jeb.148213},
keywords = {ant navigation, fast response treadmill, homing, optical mouse motion, orientation behaviour, sensors}
}
@article{Fernandes2017a,
title = {{Visual associative learning in wood ants}},
year = {2017},
journal = {The Journal of Experimental Biology},
author = {Fernandes, A. S. D. and Buckley, C. L. and Niven, J. E.},
number = {3},
month = {2},
pages = {jeb173260},
volume = {221},
publisher = {Company of Biologists Ltd},
doi = {10.1242/jeb.173260},
keywords = {Appetitive conditioning, Classical conditioning, Formica rufa, Memory, Visual cues, appetitive conditioning, classical conditioning, cues, formica rufa, memory, visual}
}
@article{Linander2015,
title = {{Bumblebees measure optic flow for position and speed control flexibly within the frontal visual field}},
year = {2015},
journal = {Journal of Experimental Biology},
author = {Linander, N. and Dacke, M. and Baird, E.},
number = {7},
pages = {1051--1059},
volume = {218},
doi = {10.1242/jeb.107409},
keywords = {Bombus terrestris, Centring, Flight control, Flight speed, Image motion, Viewing angle}
}
@article{Schone1996,
title = {{Optokinetic speed control and estimation of travel distance in walking honeybees}},
year = {1996},
journal = {Journal of Comparative Physiology - A Sensory, Neural, and Behavioral Physiology},
author = {Sch{\"{o}}ne, H.},
number = {4},
pages = {587--592},
volume = {179},
issn = {03407594},
keywords = {Distance estimation, Optokinetic control, Path control, Path integration, Pattern flow}
}
@article{Pfeffer2016,
title = {{Optic flow odometry operates independently of stride integration in carried ants}},
year = {2016},
journal = {Science},
author = {Pfeffer, S. E. and Wittlinger, M.},
number = {6304},
pages = {1155--1157},
volume = {353},
doi = {10.1126/science.aaf9754}
}
@article{Ronacher1995,
title = {{Desert ants Cataglyphis fortis use self-induced optic flow to measure distances travelled}},
year = {1995},
journal = {Journal of Comparative Physiology A},
author = {Ronacher, B. and Wehner, R.},
number = {1},
pages = {21--27},
volume = {177},
doi = {10.1007/BF00243395},
keywords = {Ants, Cataglyphis, Distance estimation, Optic flow, Orientation, Vector navigation}
}
@article{Sobel1990b,
title = {{The locust's use of motion parallax to measure distance}},
year = {1990},
journal = {Journal of Comparative Physiology A},
author = {Sobel, E. C.},
number = {5},
pages = {579--588},
volume = {167},
doi = {10.1007/BF00192653},
pmid = {2074547},
keywords = {Depth perception, Distance, Locust, Motion parallax, Peering}
}
@article{Srinivasan1996,
title = {{Honeybee navigation en route to the goal: Visual flight control and odometry}},
year = {1996},
journal = {Journal of Experimental Biology},
author = {Srinivasan, M. V. and Zhang, S. W. and Lehrer, M. and Collett, T. S.},
number = {1},
pages = {237--244},
volume = {199},
issn = {00220949},
keywords = {Compound eye, Honeybee, Insect, Movement perception, Odometry, Optic flow}
}
%%% For showing something in frontbackmatter/4_publications.tex
@UNPUBLISHED{Webel2023-hi,
title = "Mass spectrometry-based proteomics imputation using
self-supervised deep learning",
author = "\textbf{Webel, H.} and Niu, Lili and Nielsen, Annelaura Bach and
Locard-Paulet, Marie and Mann, Matthias and Jensen, Lars Juhl and
Rasmussen, Simon",
journal = "bioRxiv",
pages = "2023.01.12.523792",
year = 2023,
doi = "10.1101/2023.01.12.523792"
}
@unpublished{Webel2023-kc,
title = "Mass spectrometry-based proteomics data from thousands of {HeLa}
control samples",
author = "\textbf{Webel, H.} and Perez-Riverol, Yasset and Nielson, Annelaura
Bach and Rasmussen, Simon",
journal = "Research Square",
year = 2023,
doi = "10.21203/rs.3.rs-3083547/v2"
}
@ARTICLE{Mynster_Kronborg2023-ek,
title = "Markers of inflammation predict survival in newly diagnosed
cirrhosis: a prospective registry study",
author = "Mynster Kronborg, Thit and \textbf{Webel, H.} and O'Connell, Malene
Barfod and Danielsen, Karen Vagner and Hobolth, Lise and
M{\o}ller, S{\o}ren and Jensen, Rasmus Tanderup and Bendtsen,
Flemming and Hansen, Torben and Rasmussen, Simon and Juel,
Helene B{\ae}k and Kimer, Nina",
journal = "Sci. Rep.",
publisher = "Nature Publishing Group",
volume = 13,
number = 1,
pages = "1--11",
year = 2023,
doi = "10.1038/s41598-023-47384-2"
}
@ARTICLE{Niu2022-el,
title = "Noninvasive proteomic biomarkers for alcohol-related liver
disease",
author = "Niu, Lili and Thiele, Maja and Geyer, Philipp E and Rasmussen,
Ditlev Nytoft and \textbf{Webel, H.} and Santos, Alberto and
Gupta, Rajat and Meier, Florian and Strauss, Maximilian and
Kjaergaard, Maria and Lindvig, Katrine and Jacobsen, Suganya and
Rasmussen, Simon and Hansen, Torben and Krag, Aleksander and
Mann, Matthias",
journal = "Nat. Med.",
volume = 28,
number = 6,
pages = "1277--1287",
year = 2022,
keywords = "biomarkers;ML",
issn = "1078-8956, 1546-170X",
pmid = "35654907",
doi = "10.1038/s41591-022-01850-y",
pmc = "PMC9205783"
}
@ARTICLE{Allesoe2023-ry,
title = "Deep Learning for {Cross-Diagnostic} Prediction of Mental
Disorder Diagnosis and Prognosis Using Danish Nationwide Register
and Genetic Data",
author = "Alles{\o}e, Rosa Lundbye and Thompson, Wesley K and
Bybjerg-Grauholm, Jonas and Hougaard, David M and Nordentoft,
Merete and Werge, Thomas and Rasmussen, Simon and Benros, Michael
Eriksen",
journal = "JAMA Psychiatry",
volume = 80,
number = 2,
pages = "146--155",
year = 2023,
issn = "2168-622X, 2168-6238",
pmid = "36477816",
doi = "10.1001/jamapsychiatry.2022.4076",
pmc = "PMC9857190"
}
@ARTICLE{Dai2021-hq,
title = "A proteomics sample metadata representation for multiomics
integration and big data analysis",
author = "Dai, Chengxin and F{\"u}llgrabe, Anja and Pfeuffer, Julianus and
Solovyeva, Elizaveta M and Deng, Jingwen and Moreno, Pablo and
Kamatchinathan, Selvakumar and Kundu, Deepti Jaiswal and George,
Nancy and Fexova, Silvie and Gr{\"u}ning, Bj{\"o}rn and
F{\"o}ll, Melanie Christine and Griss, Johannes and Vaudel, Marc
and Audain, Enrique and Locard-Paulet, Marie and Turewicz,
Michael and Eisenacher, Martin and Uszkoreit, Julian and Van Den
Bossche, Tim and Schw{\"a}mmle, Veit and \textbf{Webel, H.} and
Schulze, Stefan and Bouyssi{\'e}, David and Jayaram, Savita and
Duggineni, Vinay Kumar and Samaras, Patroklos and Wilhelm,
Mathias and Choi, Meena and Wang, Mingxun and Kohlbacher, Oliver
and Brazma, Alvis and Papatheodorou, Irene and Bandeira, Nuno
and Deutsch, Eric W and Vizca{\'\i}no, Juan Antonio and Bai,
Mingze and Sachsenberg, Timo and Levitsky, Lev I and
Perez-Riverol, Yasset",
journal = "Nat. Commun.",
publisher = "Springer Science and Business Media LLC",
volume = 12,
number = 1,
pages = "5854",
year = 2021,
keywords = "proteomics;Proteomics-Software;my\_publications",
copyright = "https://creativecommons.org/licenses/by/4.0",
issn = "2041-1723",
pmid = "34615866",
doi = "10.1038/s41467-021-26111-3",
pmc = "PMC8494749"
}
@ARTICLE{Jespersen2023-hc,
title = "Global within-species phylogenetics of sewage microbes suggest
that local adaptation shapes geographical bacterial clustering",
author = "Jespersen, Marie Louise and Munk, Patrick and Johansen, Joachim
and Kaas, Rolf Sommer and \textbf{Webel, H.} and Vigre, H{\aa}kan and
Nielsen, Henrik Bj{\o}rn and Rasmussen, Simon and Aarestrup,
Frank M",
journal = "Commun Biol",
volume = 6,
number = 1,
pages = "700",
year = 2023,
keywords = "my\_publications",
issn = "2399-3642",
pmid = "37422584",
doi = "10.1038/s42003-023-05083-8",
pmc = "PMC10329687"
}
@ARTICLE{Luo2022-nu,
title = "A Comprehensive Evaluation of Consensus Spectrum Generation
Methods in Proteomics",
author = "Luo, Xiyang and Bittremieux, Wout and Griss, Johannes and
Deutsch, Eric W and Sachsenberg, Timo and Levitsky, Lev I and
Ivanov, Mark V and Bubis, Julia A and Gabriels, Ralf and \textbf{Webel,
H.} and Sanchez, Aniel and Bai, Mingze and K{\"a}ll, Lukas and
Perez-Riverol, Yasset",
journal = "J. Proteome Res.",
volume = 21,
number = 6,
pages = "1566--1574",
year = 2022,
keywords = "ProteomeXchange; benchmark; big data; clustering; consensus
spectra; mass spectrometry; pride database; spectral
libraries;my\_publications",
issn = "1535-3893, 1535-3907",
pmid = "35549218",
doi = "10.1021/acs.jproteome.2c00069",
pmc = "PMC9171829"
}
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title = {{The behavioral ecology of intermittent locomotion}},
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author = {Kramer, D. L. and McLaughlin, R. L.},
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title = {{Walking on inclines: Energetics of locomotion in the ant Camponotus}},
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author = {Lipp, A. and Wolf, H. and Lehmann, F. O.},
number = {4},
pages = {707--719},
volume = {208},
doi = {10.1242/jeb.01434},
keywords = {Ant, Camponotus sp., Insect, Locomotion, Metabolic rate, Respirometry, Slope walking}
}
@article{Wahl2015,
title = {{Walking and running in the desert ant Cataglyphis fortis}},
year = {2015},
journal = {Journal of Comparative Physiology A: Neuroethology, Sensory, Neural, and Behavioral Physiology},
author = {Wahl, V. L. and Pfeffer, S. E. and Wittlinger, M.},
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volume = {201},
publisher = {Springer Berlin Heidelberg},
url = {http://dx.doi.org/10.1007/s00359-015-0999-2},
doi = {10.1007/s00359-015-0999-2},
keywords = {Cataglyphis, Desert ant, Gait, Inter-leg coordination, Stepping pattern}
}
@article{Harris2007,
title = {{Visual Cues for the Retrieval of Landmark Memories by Navigating Wood Ants}},
year = {2007},
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author = {Harris, R. A. and Graham, P. and Collett, T. S.},
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url = {http://dx.doi.org/10.1016/j.cub.2006.10.068},
doi = {10.1016/j.cub.2006.10.068},
keywords = {SYSNEURO}
}
@article{Buatois2017,
title = {{Associative visual learning by tethered bees in a controlled visual environment}},
year = {2017},
journal = {Scientific Reports},
author = {Buatois, A. and Pichot, C. and Schultheiss, P. and Sandoz, J.-C. and Lazzari, C. R. and Chittka, L. and Avargu{\`{e}}s-Weber, A. and Giurfa, M.},
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volume = {7},
url = {https://doi.org/10.1038/s41598-017-12631-w},
doi = {10.1038/s41598-017-12631-w}
}
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title = {{Studying sensorimotor processing with physiology in behaving drosophila}},
year = {2011},
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isbn = {9780123870032},
doi = {10.1016/B978-0-12-387003-2.00007-0},
keywords = {Behavior, Circuit computation, Electrophysiology, Flying, GCaMP, Sensorimotor, Two-photon imaging, Walking}
}
@article{Takalo2012,
title = {{A fast and flexible panoramic virtual reality system for behavioural and electrophysiological experiments}},
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issn = {03407594}
}
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title = {{Optomotor control of speed and height by free-flying Drosophila.}},
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volume = {82}
}
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title = {{Range perception through apparent image speed in freely flying honeybees}},
year = {1991},
journal = {Visual Neuroscience},
author = {Srinivasan, M. V. and Lehrer, M. and Kirchner, W. H. and Zhang, S. W.},
number = {5},
pages = {519--535},
volume = {6},
publisher = {Copenhagen University Library},
doi = {10.1017/S095252380000136X},
keywords = {Apparent motion, Depth, Distance, Insect flight, Optical flow, Vision}
}
@article{Gibson1958a,
title = {{Visually Controlled Locomotion and Visual Orientation in Animals}},
year = {1958},
journal = {British Journal of Psychology},
author = {Gibson, J. J.},
number = {3},
pages = {182--194},
volume = {49},
address = {Oxford, UK},
doi = {10.1111/j.2044-8295.1958.tb00656.x},
keywords = {Psychology}
}
@article{Warren1988,
title = {{Direction of self-motion is perceived from optical flow}},
year = {1988},
journal = {Nature},
author = {Warren, W. H. and Hannon, D. J.},
number = {6},
pages = {162},
volume = {10(336) ER},
publisher = {Oxford Univ. Press},
url = {https://www.nature.com/articles/336162a0.pdf},
doi = {10.1038/336162a0}
}
@article{Kautzky2016,
title = {{Estimation of self-motion duration and distance in rodents}},
year = {2016},
journal = {Royal Society Open Science},
author = {Kautzky, M. and Thurley, K.},
number = {5},
volume = {3},
doi = {10.1098/rsos.160118},
keywords = {Bisection task, Interval timing, Odometry, Path integration, Rodent navigation, Virtual reality}
}
@article{Wang2019,
title = {{Selective processing of all rotational and translational optic flow directions in the zebrafish pretectum and tectum}},
year = {2019},
journal = {BMC Biology},
author = {Wang, K. and Hinz, J. and Haikala, V. and Reiff, D. F. and Arrenberg, A. B.},
number = {1},
month = {3},
pages = {1--18},
volume = {17},
publisher = {BMC Biology},
doi = {10.1186/s12915-019-0648-2},
keywords = {Binocular integration, Calcium imaging, Optic flow, Optic tectum, Optokinetic response, Optomotor response, Pretectum, Zebrafish}
}
@article{Horseman2011,
title = {{Neuronal processing of translational optic flow in the visual system of the shore crab Carcinus maenas}},
year = {2011},
journal = {Journal of Experimental Biology},
author = {Horseman, B. G. and MacAuley, M. W. S. and Barnes, W. J. P.},
number = {9},
pages = {1586--1598},
volume = {214},
doi = {10.1242/jeb.050955},
keywords = {Crab, Crustacea, Optic flow, Self-motion detection, Visual interneurone}
}
@article{Longden2009,
title = {{State-dependent performance of optic-flow processing interneurons}},
year = {2009},
journal = {Journal of Neurophysiology},
author = {Longden, K. D. and Krapp, H. G.},
number = {6},
pages = {3606--3618},
volume = {102},
doi = {10.1152/jn.00395.2009}
}
@article{Raudies2013,
title = {{Optic flow}},
year = {2013},
journal = {Scholarpedia},
author = {Raudies, F.},
number = {7},
volume = {8},
doi = {10.4249/scholarpedia.30724}
}
@article{Land1999,
title = {{Motion and vision: Why animals move their eyes}},
year = {1999},
journal = {Journal of Comparative Physiology - A Sensory, Neural, and Behavioral Physiology},
author = {Land, M. F.},
number = {4},
pages = {341--352},
volume = {185},
doi = {10.1007/s003590050393},
issn = {03407594},
keywords = {Eye movement, Flow-field, Insect, Vertebrate, Vision}
}
@article{Krogh1949TheFlight,
title = {{The Respiratory Exchange of the Desert Locust ( Schistocerca Gregaria ) Before , During and After Flight}},
year = {1949},
journal = {Journal of Experimental Biology},
author = {Krogh, A. and Weis-fogh, T.},
number = {3},
pages = {344--357},
volume = {28},
keywords = {anaerobic exercise, biochemistry, biology, ecology, respiratory system, schistocerca, spite}
}