Genome-wide alignment-free phylogenetic distance estimation under a no strand-bias model.

Metin Balaban, Nishat Anjum Bristy, Ahnaf Faisal, Md Shamsuzzoha Bayzid, Siavash Mirarab

Abstract read

In one paragraph

Article in Bioinformatics advances, 2022. 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.

Estimating Genome-Wide Phylogenies Using Probabilistic Topic Modeling.Systematic biology · 2025
Article
Challenges in Assembling the Dated Tree of Life.Genome biology and evolution · 2024
Article
Quantifying the uncertainty of assembly-free genome-wide distance estimates and phylogenetic relationships using subsampling.Cell systems · 2022
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.

Metin BalabanBioinformatics and System Biology Program, University of California San Diego, San Diego, CA 92093, USA.ORCID https://orcid.org/0000-0002-6947-5915

Nishat Anjum BristyComputer Science and Engineering, Bangladesh University of Engineering and Technology, Dhaka 1205, Bangladesh.

Ahnaf FaisalComputer Science and Engineering, Bangladesh University of Engineering and Technology, Dhaka 1205, Bangladesh.

Md Shamsuzzoha BayzidComputer Science and Engineering, Bangladesh University of Engineering and Technology, Dhaka 1205, Bangladesh.ORCID https://orcid.org/0000-0002-5640-0615

Siavash MirarabBioinformatics and System Biology Program, University of California San Diego, San Diego, CA 92093, USA.ORCID https://orcid.org/0000-0001-5410-1518

Funding

Biology-aware machine learning methods for characterizing microbiome genotype and phenotypeR35GM142725 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI MIR ARABBAYGI, SIAVASH · 2021 to 2025

$1.9M

NIGMS NIH HHS R35 GM142725

6 · The paper itself

Abstract

Availability and implementation: Our software is available open source at https://github.com/nishatbristy007/NSB. Supplementary information: Supplementary data are available at

Identifiers

PMID35992043

DOI10.1093/bioadv/vbac055

PMCPMC9383262

What OpenQuestion holds

Textmetadata

LicenceCC BY

Read underepoch 390

Registered trials

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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.