Evidence map›Paper›PMID 37131148›Full record

ArticleBMC genomic data2023

HostSeq: a Canadian whole genome sequencing and clinical data resource.

S Yoo, E Garg, L T Elliott, R J Hung, A R Halevy, J D Brooks, S B Bull, F Gagnon, Cmt Greenwood, J F Lawless and 42 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomic data, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed, 1 pooled it
–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

6 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
  3. Article
  4. Article
  5. Article
  6. 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

52 authors.

S Yoo *The Hospital for Sick Children, Toronto, ON, Canada.
E Garg *Simon Fraser University, Burnaby, BC, Canada.
L T ElliottSimon Fraser University, Burnaby, BC, Canada.
R J HungUniversity of Toronto, Toronto, ON, Canada.
A R HalevyThe Hospital for Sick Children, Toronto, ON, Canada.
J D BrooksUniversity of Toronto, Toronto, ON, Canada.
S B BullUniversity of Toronto, Toronto, ON, Canada.
F GagnonUniversity of Toronto, Toronto, ON, Canada.
Cmt GreenwoodMcGill University, Montreal, QC, Canada.
J F LawlessUniversity of Waterloo, Waterloo, ON, Canada.
A D PatersonThe Hospital for Sick Children, Toronto, ON, Canada.
L SunUniversity of Toronto, Toronto, ON, Canada.
M H ZawatiMcGill University, Montreal, QC, Canada.
J Lerner-EllisUniversity of Toronto, Toronto, ON, Canada.
Rjs AbrahamCanada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada.
I BirolCanada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada.
G BourqueMcGill University, Montreal, QC, Canada.
J-M GarantCanada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada.
C GosselinCanada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada.
J LiCanada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada.
J WhitneyThe Hospital for Sick Children, Toronto, ON, Canada.
B ThiruvahindrapuramThe Hospital for Sick Children, Toronto, ON, Canada.
J-A HerbrickThe Hospital for Sick Children, Toronto, ON, Canada.
M LorentiThe Hospital for Sick Children, Toronto, ON, Canada.
M S ReuterThe Hospital for Sick Children, Toronto, ON, Canada.
O O AdeoyeThe Hospital for Sick Children, Toronto, ON, Canada.
S LiuThe Hospital for Sick Children, Toronto, ON, Canada.
U AllenThe Hospital for Sick Children, Toronto, ON, Canada.
F P BernierUniversity of Calgary, Calgary, AB, Canada.
C M BiggsUniversity of British Columbia, Vancouver, BC, Canada.
A M CheungUniversity Health Network, Toronto, ON, Canada.
J CowanUniversity of Ottawa, Ottawa, ON, Canada.
M HerridgeUniversity Health Network, Toronto, ON, Canada.
D M MasloveQueen's University, Kingston, ON, Canada.
B P ModiBC Children's Hospital, Vancouver, BC, Canada.
V MooserMcGill University, Montreal, QC, Canada.
S K MorrisThe Hospital for Sick Children, Toronto, ON, Canada.
M OstrowskiUniversity of Toronto, Toronto, ON, Canada.
R S ParekhThe Hospital for Sick Children, Toronto, ON, Canada.
G PfefferUniversity of Calgary, Calgary, AB, Canada.
O SuchowerskyUniversity of Alberta, Edmonton, AB, Canada.
J TaherUniversity of Toronto, Toronto, ON, Canada.
J UptonThe Hospital for Sick Children, Toronto, ON, Canada.
R L WarrenCanada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada.
Rsm YeungThe Hospital for Sick Children, Toronto, ON, Canada.
N AzizThe Hospital for Sick Children, Toronto, ON, Canada.
S E TurveyUniversity of British Columbia, Vancouver, BC, Canada.
B M KnoppersMcGill University, Montreal, QC, Canada.
M LathropMcGill University, Montreal, QC, Canada.
Sjm JonesCanada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada.
S W SchererThe Hospital for Sick Children, Toronto, ON, Canada.
L J StrugThe Hospital for Sick Children, Toronto, ON, Canada. lisa.strug@utoronto.ca.ORCID 0000-0003-0503-9740

Funding

CIHR 447643CIHR 461170CIHR 461304CIHR GA4-177739CIHR MM1-181123CIHR VR1-172,711CIHR VR4-172753
6 · The paper itself

Abstract

HostSeq was launched in April 2020 as a national initiative to integrate whole genome sequencing data from 10,000 Canadians infected with SARS-CoV-2 with clinical information related to their disease experience. The mandate of HostSeq is to support the Canadian and international research communities in their efforts to understand the risk factors for disease and associated health outcomes and support the development of interventions such as vaccines and therapeutics. HostSeq is a collaboration among 13 independent epidemiological studies of SARS-CoV-2 across five provinces in Canada. Aggregated data collected by HostSeq are made available to the public through two data portals: a phenotype portal showing summaries of major variables and their distributions, and a variant search portal enabling queries in a genomic region. Individual-level data is available to the global research community for health research through a Data Access Agreement and Data Access Compliance Office approval. Here we provide an overview of the collective project design along with summary level information for HostSeq. We highlight several statistical considerations for researchers using the HostSeq platform regarding data aggregation, sampling mechanism, covariate adjustment, and X chromosome analysis. In addition to serving as a rich data source, the diversity of study designs, sample sizes, and research objectives among the participating studies provides unique opportunities for the research community.

Indexed as

COVID-19SARS-CoV-2CanadaGenomicsHumansWhole Genome SequencingClinical databankCOVID-19Host geneticsSARS-CoV-2Whole genome sequencing

Identifiers

PMID37131148
PMCPMC10152008

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.