Evidence map›Paper›PMID 33979321›Full record

ArticlePLoS computational biology2021

Swarm: A federated cloud framework for large-scale variant analysis.

Amir Bahmani, Kyle Ferriter, Vandhana Krishnan, Arash Alavi, Amir Alavi, Philip S Tsao, Michael P Snyder, Cuiping Pan

Abstract read
In one paragraph

Article in PLoS computational biology, 2021. 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
  2. Article
  3. 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

8 authors.

Amir BahmaniStanford Healthcare Innovation Lab, Stanford University, California, United States of America.ORCID 0000-0003-4533-9334
Kyle FerriterStanford Center for Genomics and Personalized Medicine, Stanford University, California, United States of America.
Vandhana KrishnanStanford Center for Genomics and Personalized Medicine, Stanford University, California, United States of America.ORCID 0000-0002-6475-8019
Arash AlaviStanford Center for Genomics and Personalized Medicine, Stanford University, California, United States of America.
Amir AlaviStanford Center for Genomics and Personalized Medicine, Stanford University, California, United States of America.
Philip S TsaoDivision of Cardiovascular Medicine, Stanford University, California, United States of America.ORCID 0000-0001-7274-9318
Michael P SnyderStanford Healthcare Innovation Lab, Stanford University, California, United States of America.ORCID 0000-0003-0784-7987
Cuiping PanPalo Alto Epidemiology Research and Information Center for Genomics, VA Palo Alto, California, United States of America.ORCID 0000-0002-8152-2489

Funding

A Data Coordinating Center for ENCODEU24HG009397 · NHGRI · STANFORD UNIVERSITY · PI CHERRY, J. MICHAEL · 2017 to 2023
$26.0M
Center for Personal Dynamic RegulomesRM1HG007735 · NHGRI · STANFORD UNIVERSITY · PI CHANG, HOWARD Y · 2019 to 2023
$13.8M
NHGRI NIH HHS RM1 HG007735NHGRI NIH HHS U24 HG009397
6 · The paper itself

Abstract

Genomic data analysis across multiple cloud platforms is an ongoing challenge, especially when large amounts of data are involved. Here, we present Swarm, a framework for federated computation that promotes minimal data motion and facilitates crosstalk between genomic datasets stored on various cloud platforms. We demonstrate its utility via common inquiries of genomic variants across BigQuery in the Google Cloud Platform (GCP), Athena in the Amazon Web Services (AWS), Apache Presto and MySQL. Compared to single-cloud platforms, the Swarm framework significantly reduced computational costs, run-time delays and risks of security breach and privacy violation.

Indexed as

Cloud ComputingGenomicsComputational BiologyComputer SecurityDatasets as TopicPrivacySoftware

Identifiers

PMID33979321
PMCPMC8143397

What OpenQuestion holds

Textmetadata
LicenceCC0
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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.