Evidence map›Paper›PMID 30613392›Full record

ArticleF1000Research2018

NovoGraph: Human genome graph construction from multiple long-read

Evan Biederstedt, Jeffrey C Oliver, Nancy F Hansen, Aarti Jajoo, Nathan Dunn, Andrew Olson, Ben Busby, Alexander T Dilthey

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in F1000Research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing 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

10 citing papers in PubMed.

  1. Review
  2. A gentle introduction to pangenomics.Briefings in bioinformatics · 2024
    Review
  3. Review
  4. Article
  5. Article
  6. Article
  7. Article
  8. Pangenome Graphs.Annual review of genomics and human genetics · 2020
    Review
  9. Article
  10. 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.

Evan BiederstedtWeill Cornell Medicine, New York, NY, 10065, USA.
Jeffrey C OliverOffice of Digital Innovation and Stewardship, University Libraries, University of Arizona, Tucson, AZ, 85721, USA.
Nancy F HansenNational Human Genome Research Institute, National Institutes of Health, Bethesda, MD, 20817, USA.
Aarti JajooBaylor College of Medicine, Houston, TX, 77030, USA.
Nathan DunnLawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.ORCID 0000-0002-4862-3181
Andrew OlsonCold Spring Harbor Laboratory, Cold Spring Harbor, NY, 11724, USA.
Ben BusbyNational Center for Biotechnology Information, National Institutes of Health, Bethesda, MD, 20817, USA.
Alexander T DiltheyNational Human Genome Research Institute, National Institutes of Health, Bethesda, MD, 20817, USA.ORCID 0000-0002-6394-4581

Funding

Comparative Genomics Unit ResearchZIAHG200330 · NHGRI · NATIONAL HUMAN GENOME RESEARCH INSTITUTE · PI MULLIKIN, JAMES C · 2009 to 2022
$17.9M
6 · The paper itself

Abstract

Genome graphs are emerging as an important novel approach to the analysis of high-throughput human sequencing data. By explicitly representing genetic variants and alternative haplotypes in a mappable data structure, they can enable the improved analysis of structurally variable and hyperpolymorphic regions of the genome. In most existing approaches, graphs are constructed from variant call sets derived from short-read sequencing. As long-read sequencing becomes more cost-effective and enables

Indexed as

Genome, HumanHigh-Throughput Nucleotide SequencingHaplotypesHumansSequence AlignmentSequence Analysis, DNAalignmentde novo assemblyGenome graphmultiple sequence alignmentNovoGraphpopulation reference graph

Identifiers

PMID30613392
PMCPMC6305223

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.