Journal ArticleDOI
JAABA: interactive machine learning for automatic annotation of animal behavior
Mayank Kabra,Alice A. Robie,Marta Rivera-Alba,Marta Rivera-Alba,Steven Branson,Steven Branson,Kristin Branson +6 more
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TLDR
This work presents a machine learning–based system that can create a variety of accurate individual and social behavior classifiers for different organisms, including mice and adult and larval Drosophila.Abstract:
Open-source software that allows biologists to create a variety of behavior classifiers for automatically annotating video of behaving animals is presented. The program, called JAABA, uses state-of-the-art machine-learning methods and is applicable to tracking data from different organisms, including mice and adult and larval Drosophila.read more
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Using DeepLabCut for 3D markerless pose estimation across species and behaviors
TL;DR: This protocol describes how to use an open-source toolbox, DeepLabCut, to train a deep neural network to precisely track user-defined features with limited training data, which allows noninvasive behavioral tracking of movement.
Journal ArticleDOI
Mapping Sub-Second Structure in Mouse Behavior.
Alexander B. Wiltschko,Matthew J. Johnson,Giuliano Iurilli,Ralph E. Peterson,Jesse Katon,Stan L. Pashkovski,Victoria E. Abraira,Ryan P. Adams,Sandeep Robert Datta +8 more
TL;DR: Depth imaging is used to show that 3D mouse pose dynamics are structured at the sub-second timescale and reveals that mouse body language is built from identifiable components and is organized in a predictable fashion; deciphering this language establishes an objective framework for characterizing the influence of environmental cues, genes and neural activity on behavior.
Journal ArticleDOI
Mushroom body output neurons encode valence and guide memory-based action selection in Drosophila
Yoshinori Aso,Divya Sitaraman,Toshiharu Ichinose,Karla R. Kaun,Katrin Vogt,Ghislain Belliart-Guérin,Pierre-Yves Plaçais,Alice A. Robie,Nobuhiro Yamagata,Christopher Schnaitmann,William J Rowell,Rebecca M. Johnston,Teri T.B. Ngo,Nan Chen,Wyatt Korff,Michael N. Nitabach,Ulrike Heberlein,Thomas Preat,Kristin Branson,Hiromu Tanimoto,Gerald M. Rubin +20 more
TL;DR: This work studied the role of MBONs in several associative learning tasks and in sleep regulation, revealing the extent to which information flow is segregated into distinct channels and suggesting possible roles for the multi-layered MBON network.
Journal ArticleDOI
Mapping the stereotyped behaviour of freely moving fruit flies
TL;DR: In this paper, a method for mapping an animal's actions, relying only upon the underlying structure of postural movement data to organize and classify behaviours, was introduced, and applied to the ground-based behaviour of the fruit fly, Drosophila melanogaster.
Journal ArticleDOI
Automated image-based tracking and its application in ecology
Anthony I. Dell,John A. Bender,Kristin Branson,Iain D. Couzin,Gonzalo G. de Polavieja,Lucas P. J. J. Noldus,Alfonso Pérez-Escudero,Pietro Perona,Andrew Straw,Martin Wikelski,Martin Wikelski,Ulrich Brose +11 more
TL;DR: Automated image-based tracking should continue to advance the field of ecology by enabling better understanding of the linkages between individual and higher-level ecological processes, via high-throughput quantitative analysis of complex ecological patterns and processes across scales, including analysis of environmental drivers.
References
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Journal ArticleDOI
Additive Logistic Regression : A Statistical View of Boosting
TL;DR: This work shows that this seemingly mysterious phenomenon of boosting can be understood in terms of well-known statistical principles, namely additive modeling and maximum likelihood, and develops more direct approximations and shows that they exhibit nearly identical results to boosting.
Journal ArticleDOI
Human activity analysis: A review
Jake K. Aggarwal,Michael S. Ryoo +1 more
TL;DR: This article provides a detailed overview of various state-of-the-art research papers on human activity recognition, discussing both the methodologies developed for simple human actions and those for high-level activities.
Journal ArticleDOI
A GAL4-Driver Line Resource for Drosophila Neurobiology
Arnim Jenett,Gerald M. Rubin,Teri-T B. Ngo,David Shepherd,Christine Murphy,Heather Dionne,Barret D. Pfeiffer,Amanda Cavallaro,Donald Hall,Jennifer Jeter,Nirmala Iyer,Dona Fetter,Joanna H. Hausenfluck,Hanchuan Peng,Eric T. Trautman,Robert Svirskas,Eugene W. Myers,Zbigniew R. Iwinski,Yoshinori Aso,Gina M. DePasquale,Adrianne Enos,Phuson Hulamm,S. Lam,Hsing-Hsi Li,Todd R. Laverty,Fuhui Long,Lei Qu,Sean D. Murphy,Konrad Rokicki,Todd Safford,Kshiti Shaw,Julie H. Simpson,Allison Sowell,Susana Tae,Yang Yu,Christopher T. Zugates +35 more
TL;DR: The utility of 7,000 transgenic lines of Drosophila melanogaster for identifying novel neuronal cell types, revealing brain asymmetry, and describing the nature and extent of neuronal shape stereotypy is illustrated.
Journal ArticleDOI
Tools for neuroanatomy and neurogenetics in Drosophila
Barret D. Pfeiffer,Arnim Jenett,Ann S. Hammonds,Teri T.B. Ngo,Sima Misra,Christine Murphy,Audra Scully,Joseph W. Carlson,Kenneth H. Wan,Todd R. Laverty,Christopher J. Mungall,Rob Svirskas,James T. Kadonaga,Chris Q. Doe,Michael B. Eisen,Susan E. Celniker,Gerald M. Rubin +16 more
TL;DR: The results suggest that the D. melanogaster genome contains >50,000 enhancers and that multiple enhancers drive distinct subsets of expression of a gene in each tissue and developmental stage.
Journal ArticleDOI
High-throughput Ethomics in Large Groups of Drosophila
TL;DR: A camera-based method for automatically quantifying the individual and social behaviors of fruit flies, Drosophila melanogaster, interacting in a planar arena finds that behavioral differences between individuals were consistent over time and were sufficient to accurately predict gender and genotype.