Evidence map›Paper›PMID 30042402›Full record

ArticleScientific reports2018

Identification of novel transcripts and peptides in developing murine lens.

Shahid Y Khan, Muhammad Ali, Firoz Kabir, Ruiqiang Chen, Chan Hyun Na, Mei-Chong W Lee, Nader Pourmand, Sean F Hackett, S Amer Riazuddin

Abstract read
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In one paragraph

Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
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

3 citing papers in PubMed.

  1. Article
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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

9 authors.

Shahid Y KhanThe Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, MD, 21287, USA.
Muhammad AliThe Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, MD, 21287, USA.
Firoz KabirThe Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, MD, 21287, USA.
Ruiqiang ChenDepartment of Biological Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USA.
Chan Hyun NaDepartment of Biological Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, 21205, USA.
Mei-Chong W LeeDepartment of Biomolecular Engineering, University of California, Santa Cruz, CA, 94305, USA.
Nader PourmandDepartment of Biomolecular Engineering, University of California, Santa Cruz, CA, 94305, USA.
Sean F HackettThe Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, MD, 21287, USA.
S Amer RiazuddinThe Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, MD, 21287, USA. riazuddin@jhmi.edu.

Funding

Identification of Lens Function Through Analysis of Human CataractsR01EY022714 · NEI · JOHNS HOPKINS UNIVERSITY · PI RIAZUDDIN, AMER · 2014 to 2018
$2.0M
NEI NIH HHS R01 EY022714
6 · The paper itself

Abstract

We previously investigated the transcriptome and proteome profiles of the murine ocular lens at six developmental time points including two embryonic (E15 and E18) and four postnatal time points (P0, P3, P6, and P9). Here, we extend our analyses to identify novel transcripts and peptides in developing  mouse lens. We identified a total of 9,707 novel transcripts and 325 novel fusion genes in developing mouse lens. Additionally, we identified 13,281 novel alternative splicing (AS) events in mouse lens including 6,990 exon skipping (ES), 2,447 alternative 3' splice site (A3SS), 1,900 alternative 5' splice site (A5SS), 1,771 mutually exclusive exons (MXE), and 173 intron retention (IR). Finally, we integrated our OMIC (Transcriptome and Proteome) datasets identifying 20 novel peptides in mouse lens. All 20 peptides were validated through matching MS/MS spectra of synthetic peptides. To the best of our knowledge, this is the first report integrating OMIC datasets to identify novel peptides in developing murine lens.

Indexed as

AlgorithmsAlternative SplicingAnimalsChromatography, LiquidDatabases, GeneticExonsFemaleHigh-Throughput Nucleotide SequencingIntronsLens, CrystallineMiceOrganogenesisPeptidesPregnancyProteomeRNA Splice SitesPeptidesProteomeRNA Splice Sites

Identifiers

PMID30042402
PMCPMC6057992

What OpenQuestion holds

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LicenceCC BY
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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.