Evidence map›Paper›PMID 39368969›Full record

ArticleNPJ genomic medicine2024

A genotype imputation reference panel specific for native Southeast Asian populations.

Alvin Cengnata, Lian Deng, Wai-Sum Yap, Lay-Hong Renee Lim, Chee-Onn Leong, Shuhua Xu, Boon-Peng Hoh

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In one paragraph

Article in NPJ genomic medicine, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Imputed HLA typing as a practical approach to molecular mismatch risk stratification in kidney transplantation.Transplant international : official journal of the European Society for Organ Transplantation · 2026
    Article
  5. Review
  6. Review
  7. 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.

Alvin CengnataFaculty of Applied Sciences, UCSI University, Kuala Lumpur, Malaysia.
Lian DengState Key Laboratory of Genetic Engineering, Human Phenome Institute, Zhangjiang Fudan International Innovation Center, Center for Evolutionary Biology, School of Life Sciences, Fudan University, Shanghai, China.
Wai-Sum YapFaculty of Applied Sciences, UCSI University, Kuala Lumpur, Malaysia.
Lay-Hong Renee LimFaculty of Applied Sciences, UCSI University, Kuala Lumpur, Malaysia.
Chee-Onn LeongAdvanced Genomics Technology Center, AGTC Genomics Inc., Kuala Lumpur, Malaysia.
Shuhua XuState Key Laboratory of Genetic Engineering, Human Phenome Institute, Zhangjiang Fudan International Innovation Center, Center for Evolutionary Biology, School of Life Sciences, Fudan University, Shanghai, China.
Boon-Peng HohDivision of Applied Biomedical Sciences and Biotechnology, School of Health Sciences, IMU University, Kuala Lumpur, Malaysia. hoh.boonpeng@gmail.com.ORCID http://orcid.org/0000-0001-9249-4965

Funding

National Natural Science Foundation of China (National Science Foundation of China) 32030020, 32288101, 32270665
6 · The paper itself

Abstract

We report the development of a "Southeast Asian Specific (SEA-specific) Reference Panel" through a "Cross-panel Imputation" approach, consisting of 2550 samples derived from the GA100K, SG10K, and the Peninsular Malaysia Orang Asli (OA) datasets, covering 113,851,450 variants. The SEA-specific panel produced more high confidence variants than 1000 Genomes Project (1KGP) when imputing the OA (8.9 million SEA-specific vs 8.1 million 1KGP) and the Singapore Genome Variation Project (SGVP) (12.5 million SEA-specific vs 11.8 million 1KGP) genotyping datasets. Further, the SEA-specific panel imputed SNPs with better estimated quality scores (INFO, DR2 and R

Identifiers

PMID39368969
PMCPMC11455956

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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.