Evidence map›Paper›PMID 37693382›Full record

ArticlebioRxiv : the preprint server for biology2023

Large-scale annotated dataset for cochlear hair cell detection and classification.

Christopher J Buswinka, David B Rosenberg, Rubina G Simikyan, Richard T Osgood, Katharine Fernandez, Hidetomi Nitta, Yushi Hayashi, Leslie W Liberman, Emily Nguyen, Erdem Yildiz and 33 more

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PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed
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1 · What the graph read from it

What it found

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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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3 · Its place in the literature

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0 citing papers in PubMed, 0 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

43 authors at 16 institutions in 3 countries.

Christopher J BuswinkaEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
David B RosenbergEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Rubina G SimikyanEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Richard T OsgoodEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Katharine FernandezSection on Sensory Cell Biology, National Institute on Deafness and Other Communication Disorders, National Institutes of Health, Bethesda, MD, 20814, USA.
Hidetomi NittaEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Yushi HayashiEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Leslie W LibermanEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Emily NguyenEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Erdem YildizDepartment of Otolaryngology, Head and Neck Surgery, Vienna General Hospital and Medical University of Vienna, 1090 Vienna, Austria.
Jinkyung KimDepartment of Otolaryngology, Washington University School of Medicine, St. Louis, MO, USA.
Amandine JarystaThe Jackson Laboratory, Bar Harbor, ME, 04609, USA.
Justine RenauldDepartment of Otolaryngology-Head and Neck Surgery, Case Western Reserve University School of Medicine, Cleveland, OH, 44106, USA.
Ella WessonEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Punam ThapaThe University of Mississippi Medical Center, Dept. of Otolaryngology - Head and Neck Surgery, Jackson, MS, USA.
Pierrick BordigaEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Noah McMurtryDepartment of Otolaryngology-Head and Neck Surgery, Indiana University School of Medicine, Indianapolis, IN, 46202, USA.
Juan LlamasEli and Edythe Broad CIRM Center for Regenerative Medicine and Stem Cell Research, University of Southern California, Los Angeles, CA, 90033, USA.
Siân R KitcherSussex Neuroscience, School of Life Sciences, University of Sussex, Brighton, United Kingdom.
Ana I López-PorrasDepartment of Physiology, University of Kentucky, Lexington, KY, 40536, USA.
Runjia CuiSection on Sensory Physiology and Biophysics, National Institute on Deafness and Other Communication Disorders, National Institutes of Health, Bethesda, MD, 20814, USA.
Ghazaleh BehnammaneshDepartment of Pharmacology and Therapeutics, University of Florida, Gainesville, FL, 32610, USA; Myology Institute, University of Florida, Gainesville, FL, 32610, USA.
Jonathan E BirdDepartment of Pharmacology and Therapeutics, University of Florida, Gainesville, FL, 32610, USA; Myology Institute, University of Florida, Gainesville, FL, 32610, USA.
Angela BallesterosSection on Sensory Physiology and Biophysics, National Institute on Deafness and Other Communication Disorders, National Institutes of Health, Bethesda, MD, 20814, USA.
A Catalina Vélez-OrtegaDepartment of Physiology, University of Kentucky, Lexington, KY, 40536, USA.
Albert Sb EdgeEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Michael R DeansDepartment of Neurobiology, Spencer Fox Eccles School of Medicine at the University of Utah, Salt Lake City, UT 84112, USA.
Ksenia GnedevaEli and Edythe Broad CIRM Center for Regenerative Medicine and Stem Cell Research, University of Southern California, Los Angeles, CA, 90033, USA.
Brikha R ShresthaEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Uri ManorWaitt Advanced Biophotonics Center, Salk Institute for Biological Studies, 10010 N. Torrey Pines Road, La Jolla, CA, 92037, USA.
Bo ZhaoDepartment of Otolaryngology-Head and Neck Surgery, Indiana University School of Medicine, Indianapolis, IN, 46202, USA.
Anthony J RicciDepartment of Otolaryngology, Stanford University School of Medicine, Stanford, CA, 94305, USA.
Basile TarchiniThe Jackson Laboratory, Bar Harbor, ME, 04609, USA.
Martin BaschDepartment of Otolaryngology-Head and Neck Surgery, Case Western Reserve University School of Medicine, Cleveland, OH, 44106, USA.
Ruben S StepanyanDepartment of Otolaryngology-Head and Neck Surgery, Case Western Reserve University School of Medicine, Cleveland, OH, 44106, USA.
Lukas D LandeggerDepartment of Otolaryngology, Head and Neck Surgery, Vienna General Hospital and Medical University of Vienna, 1090 Vienna, Austria.
Mark RutherfordDepartment of Otolaryngology, Washington University, 660 S. Euclid Avenue, Campus Box 8115, St. Louis, MO, 63110, USA.
M Charles LibermanEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Bradley J WaltersThe University of Mississippi Medical Center, Dept. of Otolaryngology - Head and Neck Surgery, Jackson, MS, USA.
Corné J KrosSussex Neuroscience, School of Life Sciences, University of Sussex, Brighton, United Kingdom.
Guy P RichardsonSussex Neuroscience, School of Life Sciences, University of Sussex, Brighton, United Kingdom.
Lisa L CunninghamSection on Sensory Cell Biology, National Institute on Deafness and Other Communication Disorders, National Institutes of Health, Bethesda, MD, 20814, USA.
Artur A IndzhykulianEaton Peabody Laboratories, Mass Eye and Ear, Boston, MA, 02114, USA.
Massachusetts Eye and Ear Infirmary · USNational Institutes of Health · USUniversity of Sussex · GBUniversity School · USIndiana University School of MedicineJackson Memorial Hospital · USUniversity of Florida · USUniversity of Kentucky · USUniversity of Southern California · USVienna General Hospital · ATWashington University in St. Louis · USJackson Laboratory · USSalk Institute for Biological Studies · USStanford University · USTufts University · USUniversity of Utah · US

Funding

Viral Vector Core (VVC)P30CA014195 · NCI · SALK INSTITUTE FOR BIOLOGICAL STUDIES · PI Alan Saghatelian · 1985 to 2026
$82.8M
Synaptopathy, Neural Pathophysiology and Suprathreshold Processing in Gerbils with Normal or Elevated ThresholdsP50DC015857 · NIDCD · MASSACHUSETTS EYE AND EAR INFIRMARY · PI Daniel B. Polley · 2017 to 2026
$28.1M
Mechanisms of Sensory Hair Cell Survival and DeathZIADC000079 · NIDCD · NATIONAL INSTITUTE ON DEAFNESS AND OTHER COMMUNICATION DISORDERS · PI CUNNINGHAM, LISA L · 2011 to 2025
$27.2M
TRAINING FOR SPEECH AND HEARING SCIENCEST32DC000038 · NIDCD · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Gwenaelle S Geleoc · 1992 to 2026
$21.8M
EXCITATION AND EXCITOTOXICITY IN TYPE I COCHLEAR AFFERENTS: SYNAPTIC STRUCTURE AND FUNCTIONR01DC014712 · NIDCD · WASHINGTON UNIVERSITY · PI Mark Allen Rutherford · 2016 to 2026
$5.6M
Hair Cell Polarization and Sensory Bundle DevelopmentR01DC015242 · NIDCD · JACKSON LABORATORY · PI Basile Robin Tarchini · 2017 to 2026
$5.4M
Molecular Basis of Hair Cell Stereocilia Bundle MorphologyR01DC017166 · NIDCD · MASSACHUSETTS EYE AND EAR INFIRMARY · PI INDZHYKULIAN, ARTUR · 2018 to 2022
$3.5M
Development of Gene Therapy for Hereditary Deafness using Rational Protein EngineeringR01DC020190 · NIDCD · MASSACHUSETTS EYE AND EAR INFIRMARY · PI DAVID P COREY, Artur Indzhykulian · 2022 to 2026
$3.3M
Investigating the mechanisms of stereocilia length regulation and innovative strategies for restoring hearingR01DC021075 · NIDCD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Uri Manor · 2023 to 2026
$3.2M
Determination of Hair Cell Fate from Postnatal Cochlear Supporting CellsR01DC020322 · NIDCD · MASSACHUSETTS EYE AND EAR INFIRMARY · PI Albert Edge · 2022 to 2026
$3.1M
Molecular Mechanisms of Hair Bundle Development and MaintenanceR01DC018827 · NIDCD · UNIVERSITY OF FLORIDA · PI Jonathan Edward Bird · 2020 to 2026
$3.0M
Mechanotransduction and calcium regulation in cochlear hair cellsR01DC015016 · NIDCD · CASE WESTERN RESERVE UNIVERSITY · PI STEPANYAN, RUBEN · 2016 to 2020
$1.7M
Intramural NIH HHS ZIA DC000079NCI NIH HHS P30 CA014195NIDCD NIH HHS P50 DC015857NIDCD NIH HHS R01 DC014712NIDCD NIH HHS R01 DC015242NIDCD NIH HHS R01 DC016365NIDCD NIH HHS R01 DC017166NIDCD NIH HHS R01 DC020190NIDCD NIH HHS R01 DC020268NIDCD NIH HHS R01 DC020322NIDCD NIH HHS R01 DC021075NIDCD NIH HHS R01 DC021325NIDCD NIH HHS R21 DC018237NIDCD NIH HHS R21 DC020312NIDCD NIH HHS T32 DC000038
6 · The paper itself

Abstract

Our sense of hearing is mediated by cochlear hair cells, localized within the sensory epithelium called the organ of Corti. There are two types of hair cells in the cochlea, which are organized in one row of inner hair cells and three rows of outer hair cells. Each cochlea contains a few thousands of hair cells, and their survival is essential for our perception of sound because they are terminally differentiated and do not regenerate after insult. It is often desirable in hearing research to quantify the number of hair cells within cochlear samples, in both pathological conditions, and in response to treatment. However, the sheer number of cells along the cochlea makes manual quantification impractical. Machine learning can be used to overcome this challenge by automating the quantification process but requires a vast and diverse dataset for effective training. In this study, we present a large collection of annotated cochlear hair-cell datasets, labeled with commonly used hair-cell markers and imaged using various fluorescence microscopy techniques. The collection includes samples from mouse, human, pig and guinea pig cochlear tissue, from normal conditions and following

Indexed as

annotationcochleadetectionhair cellsinner hair cellmachine-learning-ready dataouter hair cell

Identifiers

PMID37693382
PMCPMC10491224
OpenAlexW4386352014

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LicenceCC BY-NC
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.