Literature DB >> 23202433

JAABA: interactive machine learning for automatic annotation of animal behavior.

Mayank Kabra1, Alice A Robie, Marta Rivera-Alba, Steven Branson, Kristin Branson.   

Abstract

We present a machine learning-based system for automatically computing interpretable, quantitative measures of animal behavior. Through our interactive system, users encode their intuition about behavior by annotating a small set of video frames. These manual labels are converted into classifiers that can automatically annotate behaviors in screen-scale data sets. Our general-purpose system can create a variety of accurate individual and social behavior classifiers for different organisms, including mice and adult and larval Drosophila.

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Year:  2012        PMID: 23202433     DOI: 10.1038/nmeth.2281

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


  11 in total

1.  A portrait of locomotor behaviour in Drosophila determined by a video-tracking paradigm.

Authors:  Jean-René Martin
Journal:  Behav Processes       Date:  2004-09-30       Impact factor: 1.777

2.  Computerized video analysis of social interactions in mice.

Authors:  Fabrice de Chaumont; Renata Dos-Santos Coura; Pierre Serreau; Arnaud Cressant; Jonathan Chabout; Sylvie Granon; Jean-Christophe Olivo-Marin
Journal:  Nat Methods       Date:  2012-03-04       Impact factor: 28.547

3.  Object preference by walking fruit flies, Drosophila melanogaster, is mediated by vision and graviperception.

Authors:  Alice A Robie; Andrew D Straw; Michael H Dickinson
Journal:  J Exp Biol       Date:  2010-07-15       Impact factor: 3.312

4.  A new chamber for studying the behavior of Drosophila.

Authors:  Jasper C Simon; Michael H Dickinson
Journal:  PLoS One       Date:  2010-01-27       Impact factor: 3.240

5.  Tools for neuroanatomy and neurogenetics in Drosophila.

Authors:  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; Chris Mungall; Rob Svirskas; James T Kadonaga; Chris Q Doe; Michael B Eisen; Susan E Celniker; Gerald M Rubin
Journal:  Proc Natl Acad Sci U S A       Date:  2008-07-09       Impact factor: 11.205

6.  High-throughput behavioral analysis in C. elegans.

Authors:  Nicholas A Swierczek; Andrew C Giles; Catharine H Rankin; Rex A Kerr
Journal:  Nat Methods       Date:  2011-06-05       Impact factor: 28.547

7.  Active sampling and decision making in Drosophila chemotaxis.

Authors:  Alex Gomez-Marin; Greg J Stephens; Matthieu Louis
Journal:  Nat Commun       Date:  2011-08-23       Impact factor: 14.919

8.  High-throughput ethomics in large groups of Drosophila.

Authors:  Kristin Branson; Alice A Robie; John Bender; Pietro Perona; Michael H Dickinson
Journal:  Nat Methods       Date:  2009-05-03       Impact factor: 28.547

9.  Automated monitoring and analysis of social behavior in Drosophila.

Authors:  Heiko Dankert; Liming Wang; Eric D Hoopfer; David J Anderson; Pietro Perona
Journal:  Nat Methods       Date:  2009-03-08       Impact factor: 28.547

10.  A GAL4-driver line resource for Drosophila neurobiology.

Authors:  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 R Svirskas; Eugene W Myers; Zbigniew R Iwinski; Yoshinori Aso; Gina M DePasquale; Adrianne Enos; Phuson Hulamm; Shing Chun Benny 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
Journal:  Cell Rep       Date:  2012-10-11       Impact factor: 9.423

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  150 in total

1.  Establishment of open-source semi-automated behavioral analysis system and quantification of the difference of sexual motivation between laboratory and wild strains.

Authors:  Soma Tomihara; Yoshitaka Oka; Shinji Kanda
Journal:  Sci Rep       Date:  2021-05-25       Impact factor: 4.379

Review 2.  Singing on the fly: sensorimotor integration and acoustic communication in Drosophila.

Authors:  Philip Coen; Mala Murthy
Journal:  Curr Opin Neurobiol       Date:  2016-03-03       Impact factor: 6.627

3.  Mapping Sub-Second Structure in Mouse Behavior.

Authors:  Alexander B Wiltschko; Matthew J Johnson; Giuliano Iurilli; Ralph E Peterson; Jesse M Katon; Stan L Pashkovski; Victoria E Abraira; Ryan P Adams; Sandeep Robert Datta
Journal:  Neuron       Date:  2015-12-16       Impact factor: 17.173

4.  An unsupervised method for quantifying the behavior of paired animals.

Authors:  Ugne Klibaite; Gordon J Berman; Jessica Cande; David L Stern; Joshua W Shaevitz
Journal:  Phys Biol       Date:  2017-02-16       Impact factor: 2.583

5.  Statistical structure of locomotion and its modulation by odors.

Authors:  Liangyu Tao; Siddhi Ozarkar; Jeffrey M Beck; Vikas Bhandawat
Journal:  Elife       Date:  2019-01-08       Impact factor: 8.140

6.  A multilevel multimodal circuit enhances action selection in Drosophila.

Authors:  Tomoko Ohyama; Casey M Schneider-Mizell; Richard D Fetter; Javier Valdes Aleman; Romain Franconville; Marta Rivera-Alba; Brett D Mensh; Kristin M Branson; Julie H Simpson; James W Truman; Albert Cardona; Marta Zlatic
Journal:  Nature       Date:  2015-04-20       Impact factor: 49.962

7.  Automated identification of social interaction criteria in Drosophila melanogaster.

Authors:  J Schneider; J D Levine
Journal:  Biol Lett       Date:  2014-10       Impact factor: 3.703

8.  Automated gesture tracking in head-fixed mice.

Authors:  A Giovannucci; E A Pnevmatikakis; B Deverett; T Pereira; J Fondriest; M J Brady; S S-H Wang; W Abbas; P Parés; D Masip
Journal:  J Neurosci Methods       Date:  2017-07-17       Impact factor: 2.390

Review 9.  Perceptual Decision-Making: A Field in the Midst of a Transformation.

Authors:  Farzaneh Najafi; Anne K Churchland
Journal:  Neuron       Date:  2018-10-24       Impact factor: 17.173

10.  anTraX, a software package for high-throughput video tracking of color-tagged insects.

Authors:  Asaf Gal; Jonathan Saragosti; Daniel Jc Kronauer
Journal:  Elife       Date:  2020-11-19       Impact factor: 8.140

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