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Diagnostic Accuracy of a Custom Large Language Model on Rare Pediatric Disease Case Reports 定制大语言模型对罕见儿科疾病病例报告的诊断准确性
IF 2 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-13 DOI: 10.1002/ajmg.a.63878
Cameron C. Young, Ellie Enichen, Christian Rivera, Corinne A. Auger, Nathan Grant, Arya Rao, Marc D. Succi
Accurately diagnosing rare pediatric diseases frequently represent a clinical challenge due to their complex and unusual clinical presentations. Here, we explore the capabilities of three large language models (LLMs), GPT‐4, Gemini Pro, and a custom‐built LLM (GPT‐4 integrated with the Human Phenotype Ontology [GPT‐4 HPO]), by evaluating their diagnostic performance on 61 rare pediatric disease case reports. The performance of the LLMs were assessed for accuracy in identifying specific diagnoses, listing the correct diagnosis among a differential list, and broad disease categories. In addition, GPT‐4 HPO was tested on 100 general pediatrics case reports previously assessed on other LLMs to further validate its performance. The results indicated that GPT‐4 was able to predict the correct diagnosis with a diagnostic accuracy of 13.1%, whereas both GPT‐4 HPO and Gemini Pro had diagnostic accuracies of 8.2%. Further, GPT‐4 HPO showed an improved performance compared with the other two LLMs in identifying the correct diagnosis among its differential list and the broad disease category. Although these findings underscore the potential of LLMs for diagnostic support, particularly when enhanced with domain‐specific ontologies, they also stress the need for further improvement prior to integration into clinical practice.
由于罕见儿科疾病的临床表现复杂而不寻常,因此准确诊断罕见儿科疾病常常是一项临床挑战。在此,我们通过对 61 例罕见儿科疾病病例报告的诊断性能进行评估,探讨了 GPT-4、Gemini Pro 和定制 LLM(GPT-4 与人类表型本体 [GPT-4 HPO] 集成)这三种大型语言模型(LLM)的能力。对 LLM 的性能进行了评估,包括识别特定诊断的准确性、在鉴别列表中列出正确诊断的准确性以及疾病类别的广泛性。此外,GPT-4 HPO 还在 100 份普通儿科病例报告上进行了测试,这些病例报告之前曾在其他 LLMs 上进行过评估,以进一步验证其性能。结果表明,GPT-4 预测正确诊断的准确率为 13.1%,而 GPT-4 HPO 和 Gemini Pro 的诊断准确率均为 8.2%。此外,与其他两种 LLM 相比,GPT-4 HPO 在确定其鉴别列表和疾病大类中的正确诊断方面表现更佳。尽管这些研究结果强调了 LLMs 在诊断支持方面的潜力,尤其是在使用特定领域本体的情况下,但它们也强调了在整合到临床实践之前进一步改进的必要性。
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引用次数: 0
Study Strengthens Link between Autism Spectrum Disorder and Gut Microbiome 研究加强了自闭症谱系障碍与肠道微生物组之间的联系
IF 1.7 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-12 DOI: 10.1002/ajmg.a.63288
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引用次数: 0
Table of Contents, Volume 194A, Number 10, October 2024 目录,第 194A 卷,第 10 号,2024 年 10 月
IF 1.7 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-12 DOI: 10.1002/ajmg.a.63291
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引用次数: 0
Whole-Genome Sequencing Can Improve Care in Pediatric Cancer 全基因组测序可改善儿童癌症护理
IF 1.7 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-12 DOI: 10.1002/ajmg.a.63289
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引用次数: 0
Cover Image, Volume 194A, Number 10, October 2024 封面图片,第 194A 卷,第 10 号,2024 年 10 月
IF 1.7 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-12 DOI: 10.1002/ajmg.a.63879

The cover image is based on the article Germline PTCH1: c.361_362insAlu alteration identified by comprehensive exome and RNA sequencing in a patient with Gorlin syndrome by Aaron Y. Mochizuki et al., https://doi.org/10.1002/ajmg.a.63788.

封面图片来自 Aaron Y. Mochuki 等人撰写的文章《Germline PTCH1: c.361_362insAlu alteration identified by comprehensive exome and RNA sequencing in a patient with Gorlin Syndrome》。Mochizuki 等人,https://doi.org/10.1002/ajmg.a.63788。
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引用次数: 0
A New Ocular Phenotype Combining Juvenile Glaucoma and Doyne Honeycomb Retinal Dystrophy (Malattia Leventinese) due to a Novel EFEMP1 Pathogenic Variant 一种由新型 EFEMP1 致病变异体引起的结合了青少年青光眼和多因蜂巢视网膜营养不良症(Malattia Leventinese)的新眼表型
IF 2 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-12 DOI: 10.1002/ajmg.a.63869
Oscar F. Chacon‐Camacho, Thania Ordaz‐Robles, Marion A. Cid‐García, Olivia Yepes‐Rodríguez, Rocio Arce‐González, Alan Martínez‐Aguilar, Juan Carlos Zenteno
Doyne honeycomb retinal dystrophy (DHRD), also termed malattia leventinese (MLVT), is a dominantly inherited ocular disease characterized by the progressive accumulation of macular and peripapillary drusenoid material beneath the retinal pigment epithelium in the Bruch membrane. In all affected individuals genetically characterized to date, DHRD/MLVT is caused by a single heterozygous p.Arg345Trp missense variant in the EGF‐containing fibulin‐like extracellular matrix protein 1, EFEMP1. Recently, pathogenic variants in the EFEMP1 gene have also been demonstrated in several families with juvenile or adult‐onset hereditary isolated glaucoma. Here, we describe a family featuring a unique phenotype of juvenile glaucoma and DHRD/MLVT caused by a novel EFEMP1 variant. Our results expand both the ocular phenotype associated with EFEMP1 variants and the molecular spectrum causing DHRD by describing the first non‐p.Arg345Trp EFEMP1 pathogenic allele.
多因蜂窝状视网膜营养不良症(DHRD),又称视网膜萎缩症(MLVT),是一种显性遗传性眼病,其特征是黄斑和视网膜周边色素上皮细胞下方的布鲁什膜(Bruch membrane)内类色素物质进行性堆积。迄今为止,在所有受影响个体的遗传特征中,DHRD/MLVT 都是由含 EGF 的纤维素样细胞外基质蛋白 1(EFEMP1)中的一个单杂合子 p.Arg345Trp 错义变体引起的。最近,EFEMP1 基因的致病变异也在几个患有幼年或成年遗传性孤立性青光眼的家族中得到证实。在这里,我们描述了一个由新型 EFEMP1 基因变异引起的幼年青光眼和 DHRD/MLVT 家族的独特表型。通过描述第一个非.Arg345Trp EFEMP1 致病等位基因,我们的研究结果扩展了与 EFEMP1 变异相关的眼表型和导致 DHRD 的分子谱。
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引用次数: 0
Loss‐of‐Function Variant in PPP1R12A‐Related Urogenital and/or Brain Malformation Syndrome: Expanded Phenotype of Sex Reversal PPP1R12A 相关泌尿生殖器和/或脑畸形综合征的功能缺失变异:性别逆转的扩展表型
IF 2 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-11 DOI: 10.1002/ajmg.a.63876
Silvina Noemí Contreras‐Capetillo, Melania Abreu‐González, Yahir Centeno‐Navarrete, Stephany Renatta Ferro‐Muñoz, Julio Ceballos‐Zapata, Cesiah García‐Martínez
Differences of sex development (DSDs) are a heterogeneous group of congenital conditions in which chromosomal, gonadal, or anatomical sex does not match. The broad spectrum of phenotypes associated with DSDs requires accurate diagnosis, which influences the care and quality of life of affected patients. The decreasing costs of next‐generation sequencing (NGS) and international research collaborations in rare diseases have allowed the identification of new genes associated with DSDs. Recently, Hughes et al. in 2020 reported the association of loss‐of‐function (LoF) variants in PPP1R12A with morphological anomalies of the midline, including holoprosencephaly and urogenital malformations, also known as genitourinary and/or brain malformation syndrome (OMIM #618820). In this report, we describe a Mexican individual with hypertelorism, multiple skin hemangiomas, testicular atrophy, and sex reversal, in whom a c.1880delC frameshift variant in PPP1R12A was detected by exome sequencing. Segregation analysis confirmed it as a de novo variant through Sanger sequencing. The main objective of this report is to expand PPP1R12A‐related urogenital and/or brain malformation syndrome.
性别发育差异(DSDs)是一组染色体、性腺或解剖学性别不匹配的先天性疾病。与 DSD 相关的表型范围很广,需要准确的诊断,这影响着受影响患者的护理和生活质量。下一代测序(NGS)成本的降低和罕见病领域的国际研究合作使得与 DSDs 相关的新基因得以鉴定。最近,Hughes 等人在 2020 年报告了 PPP1R12A 的功能缺失(LoF)变异与中线形态异常(包括全颅脑畸形和泌尿生殖系统畸形,也称为泌尿生殖系统和/或脑畸形综合征)的关联(OMIM #618820)。在本报告中,我们描述了一名患有肥大性脊柱炎、多发性皮肤血管瘤、睾丸萎缩和性别反转的墨西哥人,通过外显子组测序检测到了 PPP1R12A 中的 c.1880delC 框移变异。通过 Sanger 测序,分离分析证实这是一个从头变异。本报告的主要目的是扩展 PPP1R12A 相关泌尿生殖系统和/或脑畸形综合征。
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引用次数: 0
Aortic Root Dilation and Genotype Associations in Phelan-McDermid Syndrome 主动脉根扩张与菲兰-麦克德米综合征基因型的关系
IF 2 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-11 DOI: 10.1002/ajmg.a.63872
Jake Gluckman, Tess Levy, Kate Friedman, Francesca Garces, Rajna Filip-Dhima, Aisling Quinlan, Isabelle Iannotti, Margaret Pekar, Alexandra Lopez Hernandez, Madison T. Nava, Elijah Kravets, Abigail Siegel, Jonathan A. Bernstein, Elizabeth Berry-Kravis, Craig M. Powell, Latha Valluripalli Soorya, Audrey Thurm, Siddharth Srivastava, Joseph D. Buxbaum, Mustafa Sahin, Alexander Kolevzon, Bruce D. Gelb
Phelan-McDermid syndrome (PMS) is a rare genetic neurodevelopmental disorder that results from the loss of one functional copy of the SHANK3 gene. While many clinical features of PMS are well-understood, there is currently limited literature on cardiovascular abnormalities in PMS. This report aims to evaluate the prevalence of aortic root dilation (ARD) among individuals with PMS and to understand if underlying genetic variation relates to risk for ARD. We present findings from 59 participants collected from a multisite observational study evaluating the phenotype and natural history of PMS. Individual echocardiographic and genetic reports were analyzed for aortic root measurements and genetic variant data, respectively. Our a priori hypothesis was that participants with chromosome 22 deletions with hg19 start coordinates on or before 49,900,000 (larger deletions) would have more instances of ARD than participants with deletion start coordinates after 49,900,000 (smaller deletions). Eight participants (14%) had ARD, and its presence was statistically significantly associated with large deletions (p = 0.047). Relatedly, participants with ARD had significantly more genes deleted on chromosome 22 than participants without ARD (p = 0.013). These results could aid in the identification of individuals with PMS who are at higher risk for ARD.
Phelan-McDermid 综合征(PMS)是一种罕见的遗传性神经发育障碍,是由于 SHANK3 基因的一个功能拷贝缺失所致。虽然人们对 PMS 的许多临床特征都有很好的了解,但目前有关 PMS 心血管异常的文献却很有限。本报告旨在评估主动脉根扩张(ARD)在 PMS 患者中的发病率,并了解潜在的基因变异是否与 ARD 风险有关。我们从一项评估 PMS 表型和自然史的多地点观察研究中收集了 59 名参与者的研究结果。我们分别对主动脉根部测量数据和基因变异数据分析了个人超声心动图和基因报告。我们的先验假设是,与缺失起始坐标在49,900,000之后(较小的缺失)的参与者相比,hg19起始坐标在49,900,000之前(较大的缺失)的22号染色体缺失参与者会有更多的ARD病例。八名参与者(14%)出现了 ARD,从统计学角度看,ARD 的出现与大缺失有显著相关性(p = 0.047)。与此相关的是,与无 ARD 的参与者相比,有 ARD 的参与者在 22 号染色体上删除的基因明显较多(p = 0.013)。这些结果有助于确定哪些经前期综合征患者患 ARD 的风险较高。
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引用次数: 0
Novel Clinical Manifestation and Favorable Treatment Outcome of Cochlear Implant in a Chinese Family With Likely Pathogenic Variant of the P2RX2 Gene 一个 P2RX2 基因可能致病变异的中国家庭植入人工耳蜗的新临床表现和良好治疗效果
IF 2 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-11 DOI: 10.1002/ajmg.a.63877
Qiang Li, Shuping Sun, Bin Zuo, Chengyu Lian, Wenxue Tang, Hongen Xu, Wei Lu
The rapid development and clinical application of sequencing technologies enable the genetic diagnosis of inherited deafness. P2RX2, as the gene responsible for autosomal dominant non‐syndromic deafness‐41 (DFNA41), has been proven to be essential for life‐long normal hearing and for the protection of noise‐induced hearing loss (NIHL). Our present study reports a missense variant in the P2RX2 gene (c.178G > T (p.V60L)), for the second time worldwide, in a five‐generation kindred living in Henan, China. Despite carrying the same variant, the affected members in this family appear to present with earlier‐onset hearing loss and poorer hearing compared to the original DFNA41 families. In addition, this study supplements some content that was not covered in previous reports. We quantitatively evaluated the pain perception ability of some members using the Pain Vision PS‐2100 system, and further found an interesting clinical manifestation, that is, hyperalgesia, in heterozygotes for P2RX2 p.V60L. The cochlear implant (CI) was also provided for the proband of profound deafness, resulting in satisfactory clinical outcomes. Finally, we carried out a systematic review of recently published articles on the P2RX2 gene, which is beneficial for better understanding the role of the P2RX2 gene in the auditory system and the pathogenic mechanisms in sensorineural hearing loss (SNHL).
测序技术的快速发展和临床应用使得遗传性耳聋的基因诊断成为可能。P2RX2 作为常染色体显性非综合征性耳聋-41(DFNA41)的致病基因,已被证实对终生正常听力和保护噪声性听力损失(NIHL)至关重要。本研究报告了一个生活在中国河南的五代同堂中的 P2RX2 基因(c.178G > T (p.V60L))的错义变异,这在全球范围内尚属第二次。尽管携带相同的变异基因,但与最初的 DFNA41 家族相比,该家族的受影响成员似乎更早出现听力损失,听力也更差。此外,本研究还补充了一些以往报告中未涉及的内容。我们使用Pain Vision PS-2100系统定量评估了部分成员的痛觉能力,并进一步发现了P2RX2 p.V60L杂合子的一种有趣的临床表现,即痛觉减退。此外,我们还为一名重度耳聋患者植入了人工耳蜗,并取得了令人满意的临床效果。最后,我们对最近发表的有关 P2RX2 基因的文章进行了系统综述,这有利于更好地理解 P2RX2 基因在听觉系统中的作用以及感音神经性听力损失(SNHL)的致病机制。
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引用次数: 0
Further Delineation of the Proximal 16p11.2 Microdeletion Syndrome: Novel Findings Among 22 New Individuals 近端 16p11.2 微缺失综合征的进一步界定:22 例新增个体的新发现
IF 2 4区 生物学 Q3 GENETICS & HEREDITY Pub Date : 2024-09-11 DOI: 10.1002/ajmg.a.63873
Anne M. McRae, Jaime Duncan, Andy Drackley, Alexander Ing, Valerie Allegretti, Carolyn R. Raski, Angelique Mercier, Carlos E. Prada, Sarah Jurgensmeyer
The recurrent chromosome 16p11.2 BP4‐BP5 microdeletion (MIM #611913) predisposes to a neurodevelopmental disorder with variable associated congenital anomalies and susceptibility to early‐onset obesity. We identified 22 new individuals with proximal 16p11.2 deletions through retrospective data analysis at our institution and performed phenotyping through in‐depth chart review. Our cohort exhibited a spectrum of neurodevelopmental abnormalities largely consistent with other publications, however they also were found to have a higher rate than expected of congenital anomalies, some of which have not yet been reported in association with 16p11.2 microdeletions to our knowledge. This series contributes to the body of data on this population, which we anticipate will continue to evolve along with increased uptake of genetic testing.
染色体16p11.2 BP4-BP5微缺失(MIM #611913)易导致神经发育障碍,并伴有不同的先天性异常和早发性肥胖症。我们通过对本机构的回顾性数据分析,发现了22名新的近端16p11.2缺失患者,并通过深入的病历审查进行了表型分析。我们的队列表现出一系列神经发育异常,这与其他出版物的报道基本一致,但他们的先天性异常率也高于预期,据我们所知,其中一些先天性异常与 16p11.2 微缺失有关的报道尚未见诸报端。我们预计,随着基因检测普及率的提高,有关这一人群的数据将不断增加。
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引用次数: 0
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American Journal of Medical Genetics Part A
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