Evidence map›Paper›PMID 37949886›Full record

ArticleNature communications2023

Leveraging information between multiple population groups and traits improves fine-mapping resolution.

Feng Zhou, Opeyemi Soremekun, Tinashe Chikowore, Segun Fatumo, Inês Barroso, Andrew P Morris, Jennifer L Asimit

Abstract read
In one paragraph

Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed, 1 pooled it
–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

9 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Review
  3. Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. Article
  9. Improved multi-ancestry fine-mapping identifiesmedRxiv : the preprint server for health sciences · 2024
    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

7 authors.

Feng ZhouMRC Biostatistics Unit, University of Cambridge, Cambridge, UK.ORCID 0000-0002-9851-8312
Opeyemi SoremekunThe African Computational Genomic (TACG) Research Group, MRC/UVRI and LSHTM, Entebbe, Uganda.
Tinashe ChikoworeSydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.ORCID 0000-0002-6743-751X
Segun FatumoThe African Computational Genomic (TACG) Research Group, MRC/UVRI and LSHTM, Entebbe, Uganda.ORCID 0000-0003-4525-3362
Inês BarrosoExeter Centre of Excellence for Diabetes Research (EXCEED), University of Exeter Medical School, Exeter, UK.ORCID 0000-0001-5800-4520
Andrew P MorrisCentre for Genetics and Genomics Versus Arthritis, Centre for Musculoskeletal Research, University of Manchester, Manchester, UK.ORCID 0000-0002-6805-6014
Jennifer L AsimitMRC Biostatistics Unit, University of Cambridge, Cambridge, UK. jennifer.asimit@mrc-bsu.cam.ac.uk.ORCID 0000-0002-4857-2249

Funding

Medical Research Council MC_UU_00002/4Medical Research Council MC_UU_00033/3Medical Research Council MR/R021368/1Medical Research Council MR/W029626/1Wellcome Trust
6 · The paper itself

Abstract

Statistical fine-mapping helps to pinpoint likely causal variants underlying genetic association signals. Its resolution can be improved by (i) leveraging information between traits; and (ii) exploiting differences in linkage disequilibrium structure between diverse population groups. Using association summary statistics, MGflashfm jointly fine-maps signals from multiple traits and population groups; MGfm uses an analogous framework to analyse each trait separately. We also provide a practical approach to fine-mapping with out-of-sample reference panels. In simulation studies we show that MGflashfm and MGfm are well-calibrated and that the mean proportion of causal variants with PP > 0.80 is above 0.75 (MGflashfm) and 0.70 (MGfm). In our analysis of four lipids traits across five population groups, MGflashfm gives a median 99% credible set reduction of 10.5% over MGfm. MGflashfm and MGfm only require summary level data, making them very useful fine-mapping tools in consortia efforts where individual-level data cannot be shared.

Indexed as

Genome-Wide Association StudyPopulation GroupsChromosome MappingHumansLinkage DisequilibriumPolymorphism, Single Nucleotide

Identifiers

PMID37949886
PMCPMC10638399

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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.