Evidence map›Paper›PMID 41715217›Full record

ArticleHuman genomics2026

Addressing the diagnostic gap through deep phenotyping.

John Guozhuang Li, Kexin Xu, Bin Xiao, Jingnan Li, Yi-Cheng Zhu, Hongzhong Jin, Qingwei Qi, Lianlei Wang, Lina Zhao, Zhihong Wu and 3 more

Abstract read
In one paragraph

Article in Human genomics, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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

13 authors.

John Guozhuang Li *Department of Orthopedic Surgery, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Kexin Xu *Department of Orthopedic Surgery, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Bin XiaoDepartment of Spine Surgery, Beijing Jishuitan Hospital, Capital Medical University, National Centre for Orthopaedics, Beijing, China.
Jingnan LiDepartment of Gastroenterology, Key Laboratory of Gut Microbiota Translational Medicine Research, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Yi-Cheng ZhuDepartment of Neurology, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science & Peking Union Medical College, Beijing, China.
Hongzhong JinDepartment of Dermatology, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Qingwei QiDepartment of Obstetrics, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Lianlei WangDepartment of Orthopedics, Qilu Hospital of Shandong University, Jinan, Shandong, China.
Lina ZhaoBeijing Key Laboratory of Big Data Innovation and Application for Skeletal Health Medical Care, Beijing, China.
Zhihong WuDepartment of Orthopedic Surgery, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Sen ZhaoDepartment of Orthopedic Surgery, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Terry Jianguo ZhangDepartment of Orthopedic Surgery, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Nan WuDepartment of Orthopedic Surgery, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China. dr.wunan@pumch.cn.

Funding

Beijing Natural Science Foundation 7244389CAMS Innovation Fund for Medical Sciences 2021-I2M-1-051, 2021-I2M-1-052, 2023-I2M-C&T-A-003CAMS Innovation Fund for Medical Sciences 2021-I2M-1-051, 2024-I2M-TS-002, 2025-I2M-XHJC-002CAMS Innovation Fund for Medical Sciences 2025-I2M-XHXX-020Independent Research Fund of the State Key Laboratory of Complex, Severe, and Rare Diseases 2025-I-PY-006National High Level Hospital Clinical Research Funding 2025-PUMCH-A-115National High Level Hospital Clinical Research Funding 2025-PUMCH-C-003National High Level Hospital Clinical Research Funding 2025-PUMCH-D-001, 2025-PUMCH-C-002National Key Research and Development Program of China 2022YFC2703901National Key Research and Development Program of China 2023YFC2507700National Key Research and Development Program of China 2023YFC2507700, 2022YFC2703102National Natural Science Foundation of China 82402760National Natural Science Foundation of China 82572698
6 · The paper itself

Abstract

backgroundRare diseases remain a substantial challenge for healthcare systems worldwide, and 80% are attributable to genetic factors. Although exome sequencing (ES) and genome sequencing (GS) have become routine and widely accessible in our current clinical practice due to reduced costs and policy support, progress in systematically capturing deep and structured phenotypic data has lagged behind, limiting diagnostic accuracy. Integrating deep phenotyping with genomic analysis may help close the diagnostic gap. However, its value has not been comprehensively assessed in clinical practice, particularly in the absence of a systematic medical geneticist program in our current clinical settings.

methodsWe accessed and reviewed the clinical and sequencing data of patients with a rare or suspected genetic disorder assessed at our center between 2022 and 2024. Through detailed case vignettes, we evaluated how granular bedside data influenced the diagnostic outcomes. Expert consensus and literature review were then used to construct a continually updated Recommended Phenotypes Panel and to build a nine-domain framework termed iDREAMS (integrating Deep phenotyping with genetic analysis for Rare disease Evaluation And Management Strategies).

resultsDeep phenotyping uncovered diagnostic clues missed by standard assessments across all nine domains, guiding genome analysis, shortening the diagnostic odyssey, and refining counselling in numerous cases. The panel streamlined data capture for clinicians, improved multidisciplinary case discussions, and fed directly into the iDREAMS framework, offering a reproducible pathway from phenotype to genotype.

conclusionsSystematic deep phenotyping is pivotal for closing the “sequencing-analysis” gap in rare disease diagnostics. The iDREAMS framework provides a practical, scalable model that enhances diagnostic accuracy, lowers the entry barrier for resource-limited settings, and extends the reach of precision medicine to patients who had long remained undiagnosed.

Indexed as

Genetic TestingPhenotypeRare DiseasesExome SequencingGenomicsHumansDeep phenotypingGenetic diagnosisPhenotypesRare diseasesReanalysis

Identifiers

PMID41715217
PMCPMC13019781

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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 Socratic graph.