Literature DB >> 30761327

Blinded Visual Scoring of Images Using the Freely-available Software Blinder.

Steven D Cothren1, Joel N Meyer2, Jessica H Hartman2.   

Abstract

In nearly all subfields of biomedical sciences, there are phenotypes that are currently classified by expert visual scoring. In research applications, these classifications require the experimenter to be blinded to the treatment group in order to avoid unintentional bias in scoring. Currently, many labs either use laborious and tedious methods to manually blind the images, require multiple experimenters to gather and score the data blindly or fail to properly blind the data altogether. In this protocol, we present a simple, freely available software that we created that allows the experimenter to blindly score images. In our protocol, the user loads unblinded images and defines a scoring system. The software then shows the user the images in a random order, allowing the user to select a score from their defined scoring system for each image. Furthermore, the software has an optional "quality control" mechanism where the user will be shown some images multiple times to test the robustness of the visual scoring. Finally, the software summarizes the results in an exportable file that includes unblinded summary data for each group and a full list of images with their scores. In this protocol, we briefly present directions for using the software, potential applications, and caveats/limitations to this approach.

Entities:  

Keywords:  Bias; Blind; Blinder; Classification; Diagnosis; Histopathology; Immunohistochemistry; Microscopy; Visual scoring

Year:  2018        PMID: 30761327      PMCID: PMC6370323          DOI: 10.21769/BioProtoc.3103

Source DB:  PubMed          Journal:  Bio Protoc        ISSN: 2331-8325


  13 in total

1.  Development and Validation of a Deep Learning Algorithm for Detection of Diabetic Retinopathy in Retinal Fundus Photographs.

Authors:  Varun Gulshan; Lily Peng; Marc Coram; Martin C Stumpe; Derek Wu; Arunachalam Narayanaswamy; Subhashini Venugopalan; Kasumi Widner; Tom Madams; Jorge Cuadros; Ramasamy Kim; Rajiv Raman; Philip C Nelson; Jessica L Mega; Dale R Webster
Journal:  JAMA       Date:  2016-12-13       Impact factor: 56.272

2.  Dermatologist-level classification of skin cancer with deep neural networks.

Authors:  Andre Esteva; Brett Kuprel; Roberto A Novoa; Justin Ko; Susan M Swetter; Helen M Blau; Sebastian Thrun
Journal:  Nature       Date:  2017-01-25       Impact factor: 49.962

3.  A high-resolution C. elegans essential gene network based on phenotypic profiling of a complex tissue.

Authors:  Rebecca A Green; Huey-Ling Kao; Anjon Audhya; Swathi Arur; Jonathan R Mayers; Heidi N Fridolfsson; Monty Schulman; Siegfried Schloissnig; Sherry Niessen; Kimberley Laband; Shaohe Wang; Daniel A Starr; Anthony A Hyman; Tim Schedl; Arshad Desai; Fabio Piano; Kristin C Gunsalus; Karen Oegema
Journal:  Cell       Date:  2011-04-29       Impact factor: 41.582

4.  Hepatic Responses of Juvenile Fundulus heteroclitus from Pollution-adapted and Nonadapted Populations Exposed to Elizabeth River Sediment Extract.

Authors:  Amanda K Riley; Melissa Chernick; Daniel R Brown; David E Hinton; Richard T Di Giulio
Journal:  Toxicol Pathol       Date:  2016-03-18       Impact factor: 1.902

5.  Hepatic steatosis in response to acute alcohol exposure in zebrafish requires sterol regulatory element binding protein activation.

Authors:  Michael J Passeri; Ayca Cinaroglu; Chuan Gao; Kirsten C Sadler
Journal:  Hepatology       Date:  2009-02       Impact factor: 17.425

6.  A mating plug protein reduces early female remating in Drosophila melanogaster.

Authors:  Amanda Bretman; Mara K N Lawniczak; James Boone; Tracey Chapman
Journal:  J Insect Physiol       Date:  2010-01       Impact factor: 2.354

7.  Feasibility study for assessing liver fibrosis in paediatric and adolescent patients using real-time shear wave elastography.

Authors:  Manish Dhyani; Michael S Gee; Joseph Misdraji; Esther Jacobowitz Israel; Uzma Shah; Anthony E Samir
Journal:  J Med Imaging Radiat Oncol       Date:  2015-10-27       Impact factor: 1.735

8.  Deep learning based tissue analysis predicts outcome in colorectal cancer.

Authors:  Dmitrii Bychkov; Nina Linder; Riku Turkki; Stig Nordling; Panu E Kovanen; Clare Verrill; Margarita Walliander; Mikael Lundin; Caj Haglund; Johan Lundin
Journal:  Sci Rep       Date:  2018-02-21       Impact factor: 4.379

9.  Exposure to mitochondrial genotoxins and dopaminergic neurodegeneration in Caenorhabditis elegans.

Authors:  Claudia P González-Hunt; Maxwell C K Leung; Rakesh K Bodhicharla; Madeline G McKeever; Andrew E Arrant; Kathleen M Margillo; Ian T Ryde; Derek D Cyr; Sara G Kosmaczewski; Marc Hammarlund; Joel N Meyer
Journal:  PLoS One       Date:  2014-12-08       Impact factor: 3.240

10.  Deep learning for digital pathology image analysis: A comprehensive tutorial with selected use cases.

Authors:  Andrew Janowczyk; Anant Madabhushi
Journal:  J Pathol Inform       Date:  2016-07-26
View more
  7 in total

1.  Quantifying Levels of Dopaminergic Neuron Morphological Alteration and Degeneration in Caenorhabditis elegans.

Authors:  Shefali R Bijwadia; Katherine Morton; Joel N Meyer
Journal:  J Vis Exp       Date:  2021-11-20       Impact factor: 1.355

2.  Drosophila Tet Is Required for Maintaining Glial Homeostasis in Developing and Adult Fly Brains.

Authors:  Felice Frey; Jawdat Sandakly; Mirna Ghannam; Caren Doueiry; Fredrik Hugosson; Johannes Berlandi; Joy N Ismail; Tenzin Gayden; Martin Hasselblatt; Nada Jabado; Margret Shirinian
Journal:  eNeuro       Date:  2022-04-26

3.  Swim exercise in Caenorhabditis elegans extends neuromuscular and gut healthspan, enhances learning ability, and protects against neurodegeneration.

Authors:  Ricardo Laranjeiro; Girish Harinath; Jennifer E Hewitt; Jessica H Hartman; Mary Anne Royal; Joel N Meyer; Siva A Vanapalli; Monica Driscoll
Journal:  Proc Natl Acad Sci U S A       Date:  2019-11-04       Impact factor: 11.205

4.  Mild pentachlorophenol-mediated uncoupling of mitochondria depletes ATP but does not cause an oxidized redox state or dopaminergic neurodegeneration in Caenorhabditis elegans.

Authors:  Zachary R Markovich; Jessica H Hartman; Ian T Ryde; Kathleen A Hershberger; Abigail S Joyce; Patrick L Ferguson; Joel N Meyer
Journal:  Curr Res Toxicol       Date:  2022-08-02

5.  Resistance of mitochondrial DNA to cadmium and Aflatoxin B1 damage-induced germline mutation accumulation in C. elegans.

Authors:  Tess C Leuthner; Laura Benzing; Brendan F Kohrn; Christina M Bergemann; Michael J Hipp; Kathleen A Hershberger; Danielle F Mello; Tymofii Sokolskyi; Kevin Stevenson; Ilaria R Merutka; Sarah A Seay; Simon G Gregory; Scott R Kennedy; Joel N Meyer
Journal:  Nucleic Acids Res       Date:  2022-08-10       Impact factor: 19.160

6.  Mechanosensitive expression of the mesenchymal subtype marker connective tissue growth factor in glioblastoma.

Authors:  Thomas James Grundy; Louise Orcheston-Findlay; Eshana de Silva; Thuvarahan Jegathees; Victoria Prior; Farhana Amy Sarker; Geraldine Margaret O'Neill
Journal:  Sci Rep       Date:  2022-09-02       Impact factor: 4.996

7.  Prediction of biological age by morphological staging of sarcopenia in Caenorhabditis elegans.

Authors:  Ineke Dhondt; Clara Verschuuren; Aleksandra Zečić; Tim Loier; Bart P Braeckman; Winnok H De Vos
Journal:  Dis Model Mech       Date:  2021-11-30       Impact factor: 5.758

  7 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.