Evidence map›Paper›PMID 29122821›Full record

ArticleThe British journal of ophthalmology2018

Metagenomic deep sequencing of aqueous fluid detects intraocular lymphomas.

John Gonzales, Thuy Doan, Jessica G Shantha, Michele Bloomer, Michael R Wilson, Joseph L DeRisi, Nisha Acharya

Open access · hybridAbstract readCase Reports
In one paragraph

Article in The British journal of ophthalmology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
1.4field-weighted citation impact, top 16% 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

12 citing papers in PubMed, 31 citations in OpenAlex.

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  10. Metagenomics in ophthalmology: Hypothesis or real prospective?Biotechnology reports (Amsterdam, Netherlands) · 2019
    Review
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  12. 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

7 authors at 2 institutions in 1 country.

John GonzalesFrancis I Proctor Foundation, University of California, San Francisco, California, USA.
Thuy DoanFrancis I Proctor Foundation, University of California, San Francisco, California, USA.
Jessica G ShanthaFrancis I Proctor Foundation, University of California, San Francisco, California, USA.
Michele BloomerDepartment of Ophthalmology, University of California San Francisco, San Francisco, California, USA.
Michael R WilsonWeill Institute for Neurosciences, University of California, San Francisco, California, USA.
Joseph L DeRisiDepartment of Biochemistry and Biophysics, University of California, San Francisco, California, USA.
Nisha AcharyaFrancis I Proctor Foundation, University of California, San Francisco, California, USA.
University of California, San Francisco · USUniversity of California System · US

Funding

Neuro HPA Project 1U54AG062334 · NIA · EMORY UNIVERSITY · PI Ighovwerha Ofotokun · 2018 to 2026
$12.2M
Emory University BIRCWH ProgramK12HD085850 · NICHD · EMORY UNIVERSITY · PI OFOTOKUN, IGHOVWERHA, STERK, CLAIRE E · 2015 to 2023
$4.4M
Emory R38 Research Training ProgramR38AI140299 · NIAID · EMORY UNIVERSITY · PI OFOTOKUN, IGHOVWERHA, ROUPHAEL, NADINE GEORGES · 2018 to 2021
$1.4M
Ocular Surface Microbiome, Virome, and Pathogens in Ophthalmic Disease and HealthK08EY026986 · NEI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI DOAN, THUY A · 2016 to 2020
$1.2M
Next-Generation Diagnostics for Acute EncephalitisK08NS096117 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI WILSON, MICHAEL R · 2017 to 2021
$999k
NEI NIH HHS K08 EY026986NIAID NIH HHS R38 AI140299NIA NIH HHS U54 AG062334NICHD NIH HHS K12 HD085850NINDS NIH HHS K08 NS096117
6 · The paper itself

Abstract

introductionCurrently, the detection of pathogens or mutations associated with intraocular lymphomas heavily relies on prespecified, directed PCRs. With metagenomic deep sequencing (MDS), an unbiased high-throughput sequencing approach, all pathogens as well as all mutations present in the host's genome can be detected in the same small amount of ocular fluid.

methodsIn this cross-sectional case series, aqueous fluid samples from two patients were submitted to MDS to identify pathogens as well as common and rare cancer mutations.

resultsMDS of aqueous fluid from the first patient with vitreal lymphoma revealed the presence of both Epstein-Barr virus (HHV-4/EBV) and human herpes virus 8 (HHV-8) RNA. Aqueous fluid from the second patient with intraocular B-cell lymphoma demonstrated a less common mutation in the

conclusionMDS detects pathogens that, in some instances, may drive the development of intraocular lymphomas. Moreover, MDS is able to identify both common and rare mutations associated with lymphomas.

Indexed as

MutationAdultAqueous HumorBiomarkers, TumorCross-Sectional StudiesDNA Mutational AnalysisDNA, NeoplasmFemaleHigh-Throughput Nucleotide SequencingHumansIn Situ HybridizationIntraocular LymphomaLymphoma, B-CellMaleMiddle AgedMyeloid Differentiation Factor 88Biomarkers, TumorDNA, NeoplasmMYD88 protein, humanMyeloid Differentiation Factor 88aqueous humourimmunologyinfectioninflammation

Identifiers

PMID29122821
PMCPMC5754869
OpenAlexW2767616458

What OpenQuestion holds

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LicenceCC BY-NC
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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.