Publications
2022
Neuropeptide signalling shapes feeding and reproductive behaviours in male Caenorhabditis elegans. Life Science Alliance. 2022 Jun 23.
Gadenne M, Hardege I, Yemini E, Suleski D, Jaggers P, Beets I, Schafer W, and Chew Y.
Toward a more accurate 3D atlas of C. elegans neurons. BMC Bioinformatics. 2022 May 28.
Skuhersky M, Wu T, Yemini E, Nejatbakhsh, Boyden E, Tegmark M.
Integrating bulk and single cell RNA-seq refines transcriptomic profiles of specific C. elegans neurons. bioRxiv. 2022 Apr 8.
Barrett A, Varol E, Weinreb A, Taylor SR, McWhirter R, Cros C, Basavaraju M, Poff A, Tipps JA, Majeed M, Vidal B, Wang C, Yemini E, Bayer EA, Sun HS, Hobert O, Miller DM, Hammarlund M.
2021
Visualizing the organization and differentiation of the male-specific nervous system of C. elegans. Development. 2021 Aug 20.
Tekieli T, Yemini E, Nejatbakhsh A, Wang C, Varol E, Fernandez RW, Masoudi N, Paninski L, Hobert O.
Molecular topography of an entire nervous system. Cell. 2021 Aug 5.
Taylor SR, Santpere G, Weinreb A, Barrett A, Reilly MB, Xu C, Varol E, Oikonomou P, Glenwinkel L, McWhirter R, Poff A, Basavaraju M, Rafi I, Yemini E, Cook SJ, Abrams A, Vidal B, Cros C, Tavazoie S, Sestan N, Hammarlund M, Hobert O, Miller DM.
In silico analysis of the transcriptional regulatory logic of neuronal identity specification throughout the C. elegans nervous system. eLife. 2021 Jun 24.
Glenwinkel L, Taylor SR, Langebeck-Jensen K, Pereira L, Reilly MB, Basavaraju M, Rafi I, Yemini E, Pocock R, Sestan N, Hammarlund M, Miller DM, Hobert O.
Methods for analyzing neuronal structure and activity in Caenorhabditis elegans. Genetics. 2021 Jun 20.
Emmons SW, Yemini E, Zimmer M.
Piecemeal regulation of convergent neuronal lineages by bHLH transcription factors in Caenorhabditis elegans. Development. 2021 Jun 8.
Masoudi N, Yemini E, Schnabel R, Hobert O.
State-dependent network interactions differentially gate sensory input at the motor and command neuron level in Caenorhabditis elegans. bioRxiv. 2021 Apr 9.
Cecere ZT, Quach KT, Yemini E, How JJ, Sharpee TO, Chalasani SH.
NeuroPAL: A Multicolor Atlas for Whole-Brain Neuronal Identification in C. elegans. Cell. 2021 Jan 7;184(1):272-288.e11.
Yemini E, Lin A, Nejatbakhsh A, Varol E, Sun R, Mena GE, Samuel ADT, Paninski L, Venkatachalam V, Hobert O.
2020
Demixing Calcium Imaging Data in C. elegans via Deformable Non-negative Matrix Factorization. MICCAI. 2020 Sep 29;12265:14-24.
Nejatbakhsh A, Varol E, Yemini E, Venkatachalam V, Lin A, Samuel ADT, Hobert O, Paninski L.
Statistical Atlas of C. elegans Neurons. MICCAI. 2020 Sep 29;12265:119-129.
Varol E, Nejatbakhsh A, Sun R, Mena GE, Yemini E, Hobert O, Paninski L.
Probabilistic Joint Segmentation and Labeling of C. elegans Neurons. MICCAI. 2020 Sep 29;12265:130-140.
Nejatbakhsh A, Varol E, Yemini E, Hobert O, Paninski L.
Unique homeobox codes delineate all the neuron classes of C. elegans. Nature. 2020 Aug 19;584(7822):595-601.
Reilly MB, Cros C, Varol E, Yemini E, Hobert O.
The connectome of the Caenorhabditis elegans pharynx. J Comp Neurol. 2020 Apr 30;10.1002/cne.24932.
Cook SJ, Crouse CM, Yemini E, Hall DH, Emmons SW, Hobert O.
2018
An open-source platform for analyzing and sharing worm-behavior data. Nat Methods. 2018 Sep;15(9):645-646.
Javer A, Currie M, Lee CW, Hokanson J, Li K, Martineau CN, Yemini E, Grundy LJ, Li C, Ch’ng Q, Schafer WR, Nollen EAA, Kerr R, Brown AEX.
2016
The Multilayer Connectome of Caenorhabditis elegans. PLoS Comput Biol. 2016 Dec 16;12(12):e1005283.
Bentley B, Branicky R, Barnes CL, Chew YL, Yemini E, Bullmore ET, Vértes PE, Schafer WR.
2015
Global brain dynamics embed the motor command sequence of Caenorhabditis elegans. Cell. 2015 Oct 22;163(3):656-69.
Kato S, Kaplan HS, Schrödel T, Skora S, Lindsay TH, Yemini E, Lockery S, Zimmer M.
Tracking Single C. elegans Using a USB Microscope on a Motorized Stage. Methods Mol Biol. 2015;1327:181-97.
Yemini EI, Brown AE.
A consistent muscle activation strategy underlies crawling and swimming in Caenorhabditis elegans. J R Soc Interface. 2015 Jan 6;12(102):20140963.
Butler VJ, Branicky R, Yemini E, Liewald JF, Gottschalk A, Kerr RA, Chklovskii DB, Schafer WR.
2013
A database of Caenorhabditis elegans behavioral phenotypes. Nat Methods. 2013 Sep;10(9):877-9.
Yemini E, Grundy L, Jucikas T, Brown AEX, Schafer WR.
A dictionary of behavioral motifs reveals genes affecting C. elegans locomotion. Proc Natl Acad Sci U S A. 2013 Jan 8;110(2):791-6.
Brown AEX, Yemini E, Grundy L, Jucikas T, Schafer WR.
2012
Locomotion analysis identifies roles of mechanosensory neurons in governing locomotion dynamics of C. elegans. J Exp Biol. 2012 Oct 15;215(Pt 20):3639-48.
Cohen E, Yemini E, Schafer WR, Feitelson DG, Treinin M.
2011
Preparation of samples for single-worm tracking. Cold Spring Harb Protoc. 2011 Dec 1;2011(12):1475-9.
Yemini E, Kerr RA, Schafer WR.
Illumination for worm tracking and behavioral imaging. Cold Spring Harb Protoc. 2011 Dec 1;2011(12):1480-2.
Yemini E, Kerr RA, Schafer WR.
Tracking movement behavior of multiple worms on food. Cold Spring Harb Protoc. 2011 Dec 1;2011(12):1483-7.
Yemini E, Kerr RA, Schafer WR.