Evidence map›Paper›PMID 26246169›Full record

ArticleScience translational medicine2015

Automated identification of abnormal respiratory ciliary motion in nasal biopsies.

Shannon P Quinn, Maliha J Zahid, John R Durkin, Richard J Francis, Cecilia W Lo, S Chakra Chennubhotla

Abstract read
In one paragraph

Article in Science translational medicine, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
3.1field-weighted citation impact, top 9% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

17 citing papers in PubMed, 47 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Review
  7. Article
  8. Quantifying Ciliary Dynamics during Assembly Reveals Stepwise Waveform Maturation in Airway Cells.American journal of respiratory cell and molecular biology · 2018
    Article
  9. Review
  10. Article
  11. Seeing cilia: imaging modalities for ciliary motion and clinical connections.American journal of physiology. Lung cellular and molecular physiology · 2018
    Review
  12. Article
  13. Article
  14. Article
  15. Article
  16. Primary Ciliary Dyskinesia.Clinics in chest medicine · 2016
    Review
  17. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 1 institution in 1 country.

Shannon P QuinnJoint Carnegie Mellon-University of Pittsburgh Ph.D. Program in Computational Biology, Department of Computation and Systems Biology, University of Pittsburgh, Pittsburgh, PA 15260, USA. Department of Computational and Systems Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15260, USA.
Maliha J ZahidDepartment of Developmental Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15201, USA.
John R DurkinUniversity of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA.
Richard J FrancisDepartment of Developmental Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15201, USA.
Cecilia W LoDepartment of Developmental Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15201, USA. cel36@pitt.edu chakracs@pitt.edu.
S Chakra ChennubhotlaDepartment of Computational and Systems Biology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15260, USA. cel36@pitt.edu chakracs@pitt.edu.
University of Pittsburgh · US

Funding

Modeling the genetic basis for human congenital heart disease in miceU01HL098180 · NHLBI · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI LO, CECILIA W. · 2009 to 2014
$8.5M
Assaying Heterotaxy Patient Genes in Cilia Motility and Left-Right PatterningR01GM104412 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI CHENNUBHOTLA, SRINIVAS CHAKRA, LO, CECILIA W. · 2014 to 2017
$2.4M
NHLBI NIH HHS HL-098180NHLBI NIH HHS U01 HL098180NIGMS NIH HHS 1R01GM104412-01A1NIGMS NIH HHS R01 GM104412
6 · The paper itself

Abstract

Motile cilia lining the nasal and bronchial passages beat synchronously to clear mucus and foreign matter from the respiratory tract. This mucociliary defense mechanism is essential for pulmonary health, because respiratory ciliary motion defects, such as those in patients with primary ciliary dyskinesia (PCD) or congenital heart disease, can cause severe sinopulmonary disease necessitating organ transplant. The visual examination of nasal or bronchial biopsies is critical for the diagnosis of ciliary motion defects, but these analyses are highly subjective and error-prone. Although ciliary beat frequency can be computed, this metric cannot sensitively characterize ciliary motion defects. Furthermore, PCD can present without any ultrastructural defects, limiting the use of other detection methods, such as electron microscopy. Therefore, an unbiased, computational method for analyzing ciliary motion is clinically compelling. We present a computational pipeline using algorithms from computer vision and machine learning to decompose ciliary motion into quantitative elemental components. Using this framework, we constructed digital signatures for ciliary motion recognition and quantified specific properties of the ciliary motion that allowed high-throughput classification of ciliary motion as normal or abnormal. We achieved >90% classification accuracy in two independent data cohorts composed of patients with congenital heart disease, PCD, or heterotaxy, as well as healthy controls. Clinicians without specialized knowledge in machine learning or computer vision can operate this pipeline as a "black box" toolkit to evaluate ciliary motion.

Indexed as

BiopsyAlgorithmsArtificial IntelligenceChildCiliaHeart Defects, CongenitalHumansKartagener SyndromeNose

Identifiers

PMID26246169
PMCPMC4972186
OpenAlexW2265357491

What OpenQuestion holds

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Registered trials

None linked

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.