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result(s) for
"Chu, Guoming"
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ALGD-ORB: An improved image feature extraction algorithm with adaptive threshold and local gray difference
by
Peng, Yan
,
Luo, Xuhong
,
Chu, Guoming
in
Algorithms
,
Biology and Life Sciences
,
Computer and Information Sciences
2023
Simultaneous Localization and Mapping (SLAM) technology is crucial for achieving spatial localization and autonomous navigation. Finding image features that are representative presents a key challenge in visual SLAM systems. The widely used ORB (Oriented FAST and Rotating BRIEF) algorithm achieves rapid image feature extraction. However, traditional ORB algorithms face issues such as dense, overlapping feature points, and imbalanced distribution, resulting in mismatches and redundancies. This paper introduces an image feature extraction algorithm called Adaptive Threshold and Local Gray Difference-ORB(ALGD-ORB) to address these limitations. Specifically, an adaptive threshold is employed to enhance feature point detection, and an improved quadtree method is used to homogenize feature point distribution. This method combines feature descriptors generated from both gray size and gray difference to enhance feature descriptor distinctiveness. By fusing these descriptors, their effectiveness is improved. Experimental results demonstrate that the ALGD-ORB algorithm significantly enhances the uniformity of feature point distribution compared to other algorithms, while maintaining accuracy and real-time performance.
Journal Article
Mutation spectrum of Kallmann syndrome: identification of five novel mutations across ANOS1 and FGFR1
2023
Background
Kallmann syndrome (KS) is a common type of idiopathic hypogonadotropic hypogonadism. To date, more than 30 genes including
ANOS1
and
FGFR1
have been identified in different genetic models of KS without affirmatory genotype–phenotype correlation, and novel mutations have been found.
Methods
A total of 35 unrelated patients with clinical features of disorder of sex development were recruited. Custom-panel sequencing or whole-exome sequencing was performed to detect the pathogenic mutations. Sanger sequencing was performed to verify single-nucleotide variants. Copy number variation-sequencing (CNV-seq) was performed to determine CNVs. The pathogenicity of the identified variant was predicted in silico. mRNA transcript analysis and minigene reporter assay were performed to test the effect of the mutation on splicing.
Results
ANOS1
gene c.709 T > A and c.711 G > T were evaluated as pathogenic by several commonly used software, and c.1063-2 A > T was verified by transcriptional splicing assay. The c.1063-2 A > T mutation activated a cryptic splice acceptor site downstream of the original splice acceptor site and resulted in an aberrant splicing of the 24-basepair at the 5′ end of exon 8, yielding a new transcript with c.1063–1086 deletion.
FRFR1
gene c.1835delA was assessed as pathogenic according to the ACMG guideline. The CNV of del(8)(p12p11.22)chr8:g.36140000_38460000del was judged as pathogenic according to the ACMG & ClinGen technical standards.
Conclusions
Herein, we identified three novel
ANOS1
mutations and two novel
FGFR1
variations in Chinese KS families. In silico prediction and functional experiment evaluated the pathogenesis of
ANOS1
mutations.
FRFR1
c.1835delA mutation and del(8)(p12p11.22)chr8:g.36140000_38460000del were assessed as pathogenic variations. Therefore, our study expands the spectrum of mutations associated with KS and provides diagnostic evidence for patients who carry the same mutation in the future.
Journal Article
Prenatal diagnosis of auriculocondylar syndrome with a novel missense variant of GNAI3: a case report
2021
Background
Auriculocondylar syndrome (ACS) is a rare disorder characterized by micrognathia, mandibular condyle hypoplasia, and auricular abnormalities. Only 6 pathogenic variants of
GNAI3
have been identified associated with ACS so far. Here, we report a case of prenatal genetic diagnosis of ACS carrying a novel
GNAI3
variant.
Case presentation
A woman with 30 weeks of gestation was referred to genetic counseling for polyhydramnios and fetal craniofacial anomaly. Severe micrognathia and mandibular hypoplasia were identified on ultrasonography. The mandibular length was 2.4 cm, which was markedly smaller than the 95th percentile. The ears were low-set with no cleft or notching between the lobe and helix. The face was round with prominent cheeks. Whole-exome sequencing identified a novel de novo missense variant of c.140G > A in the
GNAI3
gene. This mutation caused an amino acid substitution of p.Ser47Asn in the highly conserved G1 motif, which was predicted to impair the guanine nucleotide-binding function. All ACS cases with
GNAI3
mutations were literature reviewed, revealing female-dominated severe cases and right-side-prone deformities.
Conclusion
Severe micrognathia and mandibular hypoplasia accompanied by polyhydramnios are prenatal indicators of ACS. We expanded the mutation spectrum of
GNAI3
and summarized clinical features to promote awareness of ACS.
Journal Article
Copy number variations of chromosome 17p11.2 region in children with development delay and in fetuses with abnormal imaging findings
by
Zhao, Yanyan
,
Gao, Haiming
,
Chu, Guoming
in
17p11.2 imbalance
,
Abnormalities, Multiple
,
Adolescent
2021
Background
Deletion and duplication of the 3.7 Mb region in 17p11.2 result in two syndromes, Smith-Magenis syndrome and Potocki-Lupski syndrome, which are well-known development disorders. The purpose of this study was to determine the prevalence, genetic characteristics and clinical phenotypes of 17p11.2 deletion/duplication in Chinese children with development delay and in fetuses with potential congenital defects.
Methods
7077 children with development delay and/or intellectual disability were screened by multiplex ligation-dependent probe amplification P245 assay. 7319 fetuses with potential congenital defects were tested using next generation sequencing technique.
Results
417 of 7077 pediatric patients were determined to carry chromosome imbalance. 28 (28/7077, 0.4%) cases had imbalance at chromosome 17p11.2. Among them, 12 cases (42.9%) had heterozygous deletions and 16 cases (57.1%) had heterozygous duplications. The clinical phenotypes were variable, including neurobehavioral disorders, craniofacial/skeletal anomalies, immunologic defects, ocular problems and organ malformations. 263 of 7319 fetuses were recognized to have genomic copy number variations. Only 2 of them were found to harbor 17p11.2 imbalance. The fetus with deletion presented with ventricular septal defect and the fetus with duplication had cerebral ventricle dilation.
Conclusion
Our study highlights the phenotypic variability associated with 17p11.2 variations in China. The results further expand the phenotypic spectrum of SMS/PTLS and increase awareness of these disruptive mutations among clinicians.
Journal Article
Genotype-phenotype correlation in 75 patients with small supernumerary marker chromosomes
by
Qi, Manlong
,
Zhao, Yanyan
,
Li, Tingting
in
Amniotic fluid
,
Analysis
,
Biomedical and Life Sciences
2020
Background
Small supernumerary marker chromosomes (sSMCs) are rare structural abnormalities in the population; however, they are frequently found in children or fetuses with hypoevolutism and infertile adults. sSMCs are usually observed first by karyotyping, and further analysis of their molecular origin is important in clinical practice. Next-generation sequencing (NGS) combined with Sanger sequencing helps to identify the chromosomal origins of sSMCs and correlate certain sSMCs with a specific clinical picture.
Results
Karyotyping identified 75 sSMCs in 74,266 samples (0.1% incidence). The chromosomal origins of 27 of these sSMCs were detected by sequencing-related techniques (NGS, MLPA and STR). Eight of these sSMCs are being reported for the first time. sSMCs mainly derived from chromosomal X, Y, 15, and 18, and some sSMC chromosomal origins could be correlated with clinical phenotypes. However, the chromosomal origins of the remaining 48 sSMC cases are unknown. Thus, we will develop a set of economical and efficient methods for clinical sSMC diagnosis.
Conclusions
This study details the comprehensive characterization of 27 sSMCs. Eight of these sSMCs are being reported here for the first time, providing additional information to sSMC research. Identifying sSMCs may reveal genotype-phenotype correlations and integrate genomic data into clinical care.
Journal Article
Copy Number Variation Analysis of 5p Deletion Provides Accurate Prenatal Diagnosis and Reveals Candidate Pathogenic Genes
by
Zhao, Yanyan
,
Chu, Guoming
,
Li, Pingping
in
5p deletion syndrome
,
6p duplication
,
Amniocentesis
2022
Objective5p deletion syndrome, that characterized by cat-like cry and peculiar timbre of voice, is believed to be one of the most common pathogenic copy number variations (CNVs). Variable critical regions on 5p involving a variety of genes contribute to the phenotypic heterogeneity without specific correlation. The objective of this study was to examine the genotype–phenotype correlation of 5p deletion syndrome, and to redefine 5p deletion syndrome relevant regions. In addition, we demonstrate the potential use of whole genome sequencing (WGS) to identify chromosomal breakpoints in prenatal diagnosis.MethodsThree families with women undergoing prenatal diagnosis and two children were recruited. Karyotyping, CNV-seq, fluorescence in situ hybridization, WGS, and Sanger sequencing were performed to identify the chromosomal disorder.ResultsWe reported three families and two children with CNVs of 5p deletion or combined 6p duplication. Five different sizes of 5p deletion were detected and their pathogenicity was determined, including 5p15.33-p15.31 [1–7,700,000, family1-variant of uncertain significance (VUS)], 5p15.33 (1–3,220,000, family 2-VUS), 5p15.33-p15.31 (1–7,040,000, family 3-VUS), 5p15.33-p15.31 (1–8,740,000, child 1-pathogenic) and 5p15.31-p15.1 (8,520,001–18,080,000, child 2-pathogenic). One duplication at 6p25.3-p24.3 (1–10,420,000) was detected and determined as likely pathogenic. The chromosomal breakpoints in family 3 were successfully identified by WGS.ConclusionSome critical genes that were supposed to be causative of the symptoms were identified. Relevant region in 5p deletion syndrome was redefined, and the chr5:7,700,000–8,740,000 region was supposed to be responsible for the cat-like cry. The great potential of WGS in detecting chromosomal translocations was demonstrated. Our findings may pave the way for further research on the prevention, diagnosis, and treatment of related diseases.
Journal Article
Evaluation of non‐invasive prenatal testing to detect chromosomal aberrations in a Chinese cohort
by
Zhao, Yanyan
,
Wang, Yueping
,
Cui, Wanting
in
Accuracy
,
Aneuploidy
,
Asian Continental Ancestry Group - genetics
2019
The aim of this study was to evaluate the clinical feasibility of non‐invasive prenatal testing (NIPT) to detect foetal copy number variations (CNVs). Next‐generation sequencing for detecting foetal copy number variations (CNVs) was performed on the collected samples from 161 pregnancies with ultrasound anomalies and negative NIPT results for aneuploidy. The performance of NIPT for detecting chromosome aberrations was calculated. The sensitivity and specificity of NIPT for detecting CNVs > 1 Mb were 83.33% and 99.34%; the PPV and negative predictive rate (NPV) were 90.91% and 98.68%. Non‐invasive prenatal testing can be performed to detect chromosomal aberrations in first trimester with high performance for CNVs, and occasional discordant cases are unavoidable.
Journal Article
Mutations in VWA8 cause autosomal-dominant retinitis pigmentosa via aberrant mitophagy activation
by
Zhou, Xiaomeng
,
Yuan, Zhengwei
,
Chu, Guoming
in
Adenosine Triphosphatases - genetics
,
Animals
,
Apoptosis
2023
BackgroundAlthough retinitis pigmentosa (RP) is the most common type of hereditary retinal dystrophy, approximately 25%–45% of cases remain without a molecular diagnosis. von Willebrand factor A domain containing 8 (VWA8) encodes a mitochondrial matrix-targeted protein; its molecular function and pathogenic mechanism in RP remain unexplained.MethodsFamily members of patients with RP underwent ophthalmic examinations, and peripheral blood samples were collected for exome sequencing, ophthalmic targeted sequencing panel and Sanger sequencing. The importance of VWA8 in retinal development was demonstrated by a zebrafish knockdown model and cellular and molecular analysis.ResultsThis study recruited a Chinese family of 24 individuals with autosomal-dominant RP and conducted detailed ophthalmic examinations. Exome sequencing analysis of six patients revealed heterozygous variants in VWA8, namely, the missense variant c.3070G>A (p.Gly1024Arg) and nonsense c.4558C>T (p.Arg1520Ter). Furthermore, VWA8 expression was significantly decreased both at the mRNA and protein levels. The phenotypes of zebrafish with VWA8 knockdown are similar to those of clinical individuals harbouring VWA8 variants. Moreover, VWA8 defects led to severe mitochondrial damage, resulting in excessive mitophagy and the activation of apoptosis.ConclusionsVWA8 plays a significant role in retinal development and visual function. This finding may provide new insights into RP pathogenesis and potential genes for molecular diagnosis and targeted therapy.
Journal Article
Role of Nkx2.5 in H₂O₂-induced Nsd1 suppression
by
Zhao, Yanyan
,
Chu, Guoming
,
Lai, Guangrui
in
Binding
,
Biochemistry
,
Biomedical and Life Sciences
2019
Nuclear receptor–binding SET domain–containing protein 1 (Nsd1) acts as a histone lysine methyltransferase, and its role in oxidative stress–related abnormal embryonic heart development remains poorly understood. In the present study, H₂O₂ decreased the expression of Nsd1 and NK2 transcription factor related locus 5 (Nkx2.5). We further focused on Nkx2.5 modulating the transcription of Nsd1 in response to H₂O₂. Luciferase activity analysis indicated that a regulatory region from – 646 to – 282 is essential for the basal transcriptional activity, in which, an a Nkx2.5-binding element (NKE) was identified at – 412/– 406 of the Nsd1 promoter by electrophoresis mobility shift assay and a chromatin immunoprecipitation assay. H₂O₂ obviously reduced the p646-luc promoter activity, and the depletion of Nkx2.5 expression weakened H₂O₂ inhibition on the p646-luc promoter. The overexpression of Nkx2.5 increase Nsd1 p646-luc promoter activity, but did not affected p646-luc-mut. Furthermore, overexpression and depletion of Nkx2.5 led to the increase and decrease of Nsd1 protein and mRNA levels. These data indicated that H₂O₂-induced Nsd1 suppression resulted from the decrease of Nkx2.5 expression through the NKE element.
Journal Article
Role of Nkx2.5 in H 2 O 2 -induced Nsd1 suppression
2019
Nuclear receptor-binding SET domain-containing protein 1 (Nsd1) acts as a histone lysine methyltransferase, and its role in oxidative stress-related abnormal embryonic heart development remains poorly understood. In the present study, H
O
decreased the expression of Nsd1 and NK2 transcription factor related locus 5 (Nkx2.5). We further focused on Nkx2.5 modulating the transcription of Nsd1 in response to H
O
. Luciferase activity analysis indicated that a regulatory region from - 646 to - 282 is essential for the basal transcriptional activity, in which, an a Nkx2.5-binding element (NKE) was identified at - 412/- 406 of the Nsd1 promoter by electrophoresis mobility shift assay and a chromatin immunoprecipitation assay. H
O
obviously reduced the p646-luc promoter activity, and the depletion of Nkx2.5 expression weakened H
O
inhibition on the p646-luc promoter. The overexpression of Nkx2.5 increase Nsd1 p646-luc promoter activity, but did not affected p646-luc-mut. Furthermore, overexpression and depletion of Nkx2.5 led to the increase and decrease of Nsd1 protein and mRNA levels. These data indicated that H
O
-induced Nsd1 suppression resulted from the decrease of Nkx2.5 expression through the NKE element.
Journal Article