Evidence map›Paper›PMID 35881666›Full record

ArticleMedical review (2021)2021

TahcoRoll: fast genomic signature profiling via thinned automaton and rolling hash.

Chelsea J-T Ju, Jyun-Yu Jiang, Ruirui Li, Zeyu Li, Wei Wang

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Medical review (2021), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. 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

5 authors.

Chelsea J-T JuDepartment of Computer Science, University of California, Los Angeles, USA.
Jyun-Yu JiangDepartment of Computer Science, University of California, Los Angeles, USA.
Ruirui LiDepartment of Computer Science, University of California, Los Angeles, USA.
Zeyu LiDepartment of Computer Science, University of California, Los Angeles, USA.
Wei WangDepartment of Computer Science, University of California, Los Angeles, USA.ORCID https://orcid.org/0000-0002-8180-2886

Funding

Omics Phenotyping for Identifying Molecular Signatures of the Healthy and Failing Heart: An Integrated Data Science PlatformR35HL135772 · NHLBI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI PING, PEIPEI · 2017 to 2023
$6.4M
PREMIERE: A PREdictive Model Index and Exchange REpositoryR01EB027650 · NIBIB · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI BUI, ALEX · 2019 to 2023
$3.0M
NHLBI NIH HHS R35 HL135772NIBIB NIH HHS R01 EB027650
6 · The paper itself

Abstract

Objectives: Genomic signatures like Methods: In this paper, we present a novel genomic signature profiling approach, TahcoRoll, by extending the Aho-Corasick algorithm (AC) for the task of profiling variable-length Results: In extensive experiments, TahcoRoll significantly outperforms the most state-of-the-art Conclusions: The single-thread version of TahcoRoll is as efficient as the eight-thread version of the state-of-the-art, JellyFish, while the eight-thread TahcoRoll outperforms the eight-thread JellyFish by at least four times.

Indexed as

Aho–Corasick algorithmgenome sequencingk-mersmultiple pattern matchingrolling hash

Identifiers

PMID35881666
PMCPMC9027990

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.