Evidence map›Paper›PMID 23727008›Full record

ArticleNeuroscience2013

Transcriptome characterization by RNA-Seq reveals the involvement of the complement components in noise-traumatized rat cochleae.

M Patel, Z Hu, J Bard, J Jamison, Q Cai, B H Hu

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Neuroscience, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.

0numbers the graph read from it
0cells of the map it votes in
30citing papers in PubMed
1.7field-weighted citation impact, top 18% 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

30 citing papers in PubMed, 40 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Review
  8. The Genomics of Auditory Function and Disease.Annual review of genomics and human genetics · 2022
    Review
  9. Article
  10. Cochlear Immune Response in Presbyacusis: a Focus on Dysregulation of Macrophage Activity.Journal of the Association for Research in Otolaryngology : JARO · 2022
    Review
  11. Article
  12. Article
  13. Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Inflammation associated with noise-induced hearing loss.The Journal of the Acoustical Society of America · 2019
    Review
  19. Review
  20. Article
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.

M PatelCenter for Hearing and Deafness, State University of New York at Buffalo, 137 Cary Hall, 3435 Main Street, Buffalo, NY 14214, USA. Electronic address: minalpat@buffalo.edu.
Z HuCenter for Computational Research, New York State Center of Excellence in Bioinformatics & Life Sciences, State University of New York at Buffalo, 701 Ellicott Street, Buffalo, NY 14260, USA; Department of Biostatistics, State University of New York at Buffalo, 701 Ellicott Street, Buffalo, NY 14260, USA; Department of Ophthalmology and Department of Medicine, State University of New York at Buffalo, 701 Ellicott Street, Buffalo, NY 14260, USA. Electronic address: zihuahu@ccr.buffalo.edu.
J BardNext-Generation Sequencing and Expression Analysis Core, New York State Center of Excellence in Bioinformatics and Life Sciences, State University of New York at Buffalo, 701 Ellicott Street, Buffalo, NY 14260, USA. Electronic address: jbard@buffalo.edu.
J JamisonNext-Generation Sequencing and Expression Analysis Core, New York State Center of Excellence in Bioinformatics and Life Sciences, State University of New York at Buffalo, 701 Ellicott Street, Buffalo, NY 14260, USA. Electronic address: jjamison@buffalo.edu.
Q CaiCenter for Hearing and Deafness, State University of New York at Buffalo, 137 Cary Hall, 3435 Main Street, Buffalo, NY 14214, USA. Electronic address: qcai@buffalo.edu.
B H HuCenter for Hearing and Deafness, State University of New York at Buffalo, 137 Cary Hall, 3435 Main Street, Buffalo, NY 14214, USA. Electronic address: bhu@buffalo.edu.
University at Buffalo, State University of New York · US

Funding

Noise-induced acute hair cell DeathR01DC010154 · NIDCD · STATE UNIVERSITY OF NEW YORK AT BUFFALO · PI HU, BO HUA · 2010 to 2014
$2.0M
NIDCD NIH HHS 1R01DC010154NIDCD NIH HHS R01 DC010154
6 · The paper itself

Abstract

Acoustic trauma, a leading cause of sensorineural hearing loss in adults, induces a complex degenerative process in the cochlea. Although previous investigations have identified multiple stress pathways, a comprehensive analysis of cochlear responses to acoustic injury is still lacking. In the current study, we used the next-generation RNA-sequencing (RNA-Seq) technique to sequence the whole transcriptome of the normal and noise-traumatized cochlear sensory epithelia (CSE). CSE tissues were collected from rat inner ears 1d after the rats were exposed to a 120-dB (sound pressure level) noise for 2 h. The RNA-Seq generated over 176 million sequence reads for the normal CSE and over 164 million reads for the noise-traumatized CSE. Alignment of these sequences with the rat Rn4 genome revealed the expression of over 17,000 gene transcripts in the CSE, over 2000 of which were exclusively expressed in either the normal or noise-traumatized CSE. Seventy-eight gene transcripts were differentially expressed (70 upregulated and 8 downregulated) after acoustic trauma. Many of the differentially expressed genes are related to the innate immune system. Further expression analyses using quantitative real time PCR confirmed the constitutive expression of multiple complement genes in the normal organ of Corti and the changes in the expression levels of the complement factor I (Cfi) and complement component 1, s subcomponent (C1s) after acoustic trauma. Moreover, protein expression analysis revealed strong expression of Cfi and C1s proteins in the organ of Corti. Importantly, these proteins exhibited expression changes following acoustic trauma. Collectively, the results of the current investigation suggest the involvement of the complement components in cochlear responses to acoustic trauma.

Indexed as

Gene Expression ProfilingAnimalsCochleaFemaleHearing Loss, Noise-InducedMaleRatsRats, Sprague-DawleySequence Analysis, RNASignal Transductioncochleacomplement componentsnoiseratRNA-Seqsensory cells

Identifiers

PMID23727008
PMCPMC3868636
OpenAlexW2071433416

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

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.