Evidence map›Paper›PMID 40987526›Full record

ArticleGenome research2025

Long-read reconstruction of many diverse haplotypes with devider.

Jim Shaw, Christina Boucher, Yun William Yu, Noelle Noyes, Heng Li

Abstract read
In one paragraph

Article in Genome research, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Distinct mechanisms of CNV formation at the human 15q13.3 locus.bioRxiv : the preprint server for biology · 2026
    Article
  5. Article
  6. 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.

Jim ShawDepartment of Data Science, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA; jshaw@ds.dfci.harvard.edu.ORCID 0000-0002-6990-7829
Christina BoucherDepartment of Computer and Information Science and Engineering, University of Florida, Gainesville, Florida 32611, USA.ORCID 0000-0001-9509-9725
Yun William YuRay and Stephanie Lane Computational Biology Department, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA.ORCID 0000-0002-8275-9576
Noelle NoyesDepartment of Veterinary Population Medicine, University of Minnesota, St. Paul, Minnesota 55421, USA.ORCID 0000-0001-6149-1008
Heng LiDepartment of Data Science, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA.ORCID 0000-0003-4874-2874

Funding

Advanced computational methods in analyzing high-throughput sequencing dataR01HG010040 · NHGRI · DANA-FARBER CANCER INST · PI Heng Li · 2018 to 2026
$3.7M
Triple-enriched metagenomics for robust resistome analysisR01AI173928 · NIAID · UNIVERSITY OF MINNESOTA · PI Noelle Noyes · 2024 to 2026
$2.2M
Developing Computational Methods for Surveillance of Antimicrobial Resistant AgentsR01AI141810 · NIAID · UNIVERSITY OF FLORIDA · PI BOUCHER, CHRISTINA, PROSPERI, MATTIA · 2019 to 2023
$2.1M
NHGRI NIH HHS R01 HG010040NIAID NIH HHS R01 AI141810NIAID NIH HHS R01 AI173928
6 · The paper itself

Abstract

Reconstructing exact haplotypes is important when sequencing a mixture of similar sequences. Long-read sequencing can connect distant alleles to disentangle similar haplotypes, but handling sequencing errors requires specialized techniques. Here, we present

Indexed as

AlgorithmsHaplotypesSequence Analysis, DNASoftwareHigh-Throughput Nucleotide SequencingHIV-1Humans

Identifiers

PMID40987526
PMCPMC12642997

What OpenQuestion holds

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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.