Evidence map›Paper›PMID 40343041›Full record

ArticlemedRxiv : the preprint server for health sciences2025

Noora Siddiqui, Breanna Lee, Victoria Yi, Jesse Farek, Ziad Khan, Sara E Kalla, Qiaoyan Wang, Kimberly Walker, James Meldrim, Christopher Kachulis and 7 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in medRxiv : the preprint server for health sciences, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

17 authors.

Noora SiddiquiProstate Cancer Clinical Trials Consortium, New York, NY. USA.
Breanna LeeHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
Victoria YiHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
Jesse FarekHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
Ziad KhanHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
Sara E KallaHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
Qiaoyan WangHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
Kimberly WalkerHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
James MeldrimBroad Institute of MIT and Harvard, Cambridge, MA. USA.
Christopher KachulisBroad Institute of MIT and Harvard, Cambridge, MA. USA.
Michael GatzenBroad Institute of MIT and Harvard, Cambridge, MA. USA.
Niall J LennonBroad Institute of MIT and Harvard, Cambridge, MA. USA.
Shyamal MehtaliaIllumina, Inc, San Diego, CA. USA.
Severine CatreuxIllumina, Inc, San Diego, CA. USA.
Rami MehioIllumina, Inc, San Diego, CA. USA.
Richard A GibbsHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.
Eric VennerHuman Genome Sequencing Center, Baylor College of Medicine, Houston, TX. USA.

Funding

The Broad-LMM-Color Genome Center for All of UsOT2OD002750 · OD · BROAD INSTITUTE, INC. · PI GABRIEL, STACEY, REHM, HEIDI L · 2018 to 2023
$264.7M
The Baylor-Hopkins Clinical Genomics Center for All of UsOT2OD002751 · OD · BAYLOR COLLEGE OF MEDICINE · PI BOERWINKLE, ERIC A., DOHENY, KIMBERLY F · 2018 to 2023
$152.8M
NIH HHS OT2 OD002750NIH HHS OT2 OD002751
6 · The paper itself

Abstract

Background: The Results: In 12 months of production (within a single Amazon Web Services (AWS) Region), around 200 million serverless functions and over 20 million messages coordinated the analysis of 1.8 million bioinformatics, quality control, and clinical reporting jobs. Adapting WGS analysis to clinical projects requires adaptation of variant-calling methods to enrich the reliable detection of variants with known clinical importance. Thus, we also share the process by which we tuned the variant-calling pipeline in use by the multiple genome centers supporting Conclusions: When combined with hardware-accelerated implementations for genomic analysis, Celeste had far-reaching, positive implications for turn-around time, dynamic scalability, security, and storage of analysis for one hundred-thousand whole-genome samples and counting. Other groups may align their sequencing workflows to this harmonized pipeline standard, included within the

Indexed as

Cloud computenext-generation sequencingpopulation genomics

Identifiers

PMID40343041
PMCPMC12060955

What OpenQuestion holds

Textmetadata
LicenceCC BY-ND
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.