1.Robust Benchmark Structural Variant Calls of An Asian Using State-of-the-art Long-read Sequencing Technologies
Du XIAO ; Li LILI ; Liang FAN ; Liu SANYANG ; Zhang WENXIN ; Sun SHUAI ; Sun YUHUI ; Fan FEI ; Wang LINYING ; Liang XINMING ; Qiu WEIJIN ; Fan GUANGYI ; Wang OU ; Yang WEIFEI ; Zhang JIEZHONG ; Xiao YUHUI ; Wang YANG ; Wang DEPENG ; Qu SHOUFANG ; Chen FANG ; Huang JIE
Genomics, Proteomics & Bioinformatics 2022;20(1):192-204
The importance of structural variants(SVs)for human phenotypes and diseases is now recognized.Although a variety of SV detection platforms and strategies that vary in sensitivity and specificity have been developed,few benchmarking procedures are available to confidently assess their performances in biological and clinical research.To facilitate the validation and application of these SV detection approaches,we established an Asian reference material by characterizing the genome of an Epstein-Barr virus(EBV)-immortalized B lymphocyte line along with identified benchmark regions and high-confidence SV calls.We established a high-confidence SV callset with 8938 SVs by integrating four alignment-based SV callers,including 109x Pacific Biosciences(PacBio)continuous long reads(CLRs),22 x PacBio circular consensus sequencing(CCS)reads,104x Oxford Nanopore Technologies(ONT)long reads,and 114×Bionano optical mapping plat-form,and one de novo assembly-based SV caller using CCS reads.A total of 544 randomly selected SVs were validated by PCR amplification and Sanger sequencing,demonstrating the robustness of our SV calls.Combining trio-binning-based haplotype assemblies,we established an SV benchmark for identifying false negatives and false positives by constructing the continuous high-confidence regions(CHCRs),which covered 1.46 gigabase pairs(Gb)and 6882 SVs supported by at least one diploid haplotype assembly.Establishing high-confidence SV calls for a benchmark sample that has been characterized by multiple technologies provides a valuable resource for investigating SVs in human biology,disease,and clinical research.
2.Intra- and extrauterine treatment for giant fetal axilla-thoracic cystic lymphangioma: a case report
Xiafang WU ; Linxian YANG ; Weifei HUANG ; Xianfang LIN ; Chunfen LUO ; Xiaoxiao JIN
Chinese Journal of Perinatal Medicine 2021;24(4):270-272
Fetal cystic lymphangioma is a developmental anomaly of the lymphatic system, which can occur in any part of the body, but most commonly in the neck and armpit. A case of fetal cystic lymphangioma located at the chest wall under the right armpit with a size of 21 mm×18 mm×16 mm is reported here. The mass was initially diagnosed by routine ultrasound examination at 21 gestational weeks. After the diagnosis, ultrasound was repeated every 4 weeks till 37 +4 gestational weeks. Over this period, the mass increased progressively to 101 mm×110 mm×95 mm. Ultrasound-guided intrauterine fetal cystic mass puncture and aspiration was performed 38 +4 weekss, and Bleomycin was injected into the cyst after operation and on day 42 after birth. During a follow-up to 10 months after birth, no obvious cystic mass was found at the right axillary chest wall of the child.
3.Prevalence and correlates of depression among residents (more than 15 years old) in Hainan Province
Linlin YUE ; Xin YU ; Daqiang CHEN ; Dafei ZHAN ; Yanling HE ; Wentao CHEN ; Xianyun LI ; Qingxiong YANG ; Yongqiang LIN ; Kaining XU ; Weimin DANG ; Jindi HUANG ; Ling WU ; Zhiwu LIAO ; Rize JING ; Dan WANG ; Lei YANG ; Daqiu CHEN ; Zhiqing WANG ; Rui XU ; Fujun JIA ; Sheng HUANG ; Jialong YI ; Xianglai LIU ; Qiwen ZHANG ; Qiankun YAO ; Yongping HE ; Weifei YU ; Yunzhi ZHANG ; Hua YANG ; Haiya LIU ; Yemin CAI
Chinese Journal of Psychiatry 2019;52(3):212-218
Objective To investigate the prevalence and correlates of depression in residents aged 15 and older in Hainan province.Methods Stratified multistage random sampling methods were utilized to identify 12 117 individuals (≥15 years old) from 59 villages (neighborhoods) in 24 towns (streets) within 6 counties (cities) in Hainan Province from September 2010 to November 2011.The subjects were screened with an expanded version of the General Health Questionnaire (GHQ-12) and the respondents were divided into three groups by high risk,moderate risk and low risk of mental disorder,followed by formal diagnosis according to the Structured Clinical Interview for DSM-IV-TR (SCID-I/P) by psychiatrists among 100% subjects in group with high risk,40% subjects in group with moderate risk and 10% subjects in group with low risk.The adjusted rate,standardized rate,and 95% confidence interval (95%CI) of the one-month and lifetime prevalence were also calculated among the 3 groups of individuals who were diagnosed with depressive disorder.The difference in whether they suffered depression was determined by the chi-squared test.Correlations to depressive disorder and the odds ratio (OR) were explored with multiple regression analysis.Results There were 97 cases of depressive disorders (1-month) and 166 cases of lifetime depressive disorders finally confirmed.The adjusted rate of 1-month prevalence was 1.38% (95%CI:1.12-1.59) and the life-time adjusted prevalence rate was 2.80% (95%CI:2.51-3.09).Female (OR=1.55,95%CI:1.12-2.14),mid-age(50-64 y,OR=1.84,95%CI:1.13-2.99),being divorced or living separated (OR=4.87,95%CI:1.86-12.73),suffering chronic diseases (OR=2.19,95%CI:1.56-3.07),and low family income were significantly associated with suffering depressive disorder.Conclusions The prevalence of the depressive disorder among residents aged 15 and older in Hainan province is lower than the nationwide prevalence.People who are female,mid-age,being divorced or not living with the partner,earning a low income,and suffering chronic diseases have more predisposition to develop the depressive disorder in Hainan province.
4.Prevalence and correlates of depression among residents (more than 15 years old) in Hainan Province
Linlin YUE ; Xin YU ; Daqiang CHEN ; Dafei ZHAN ; Yanling HE ; Wentao CHEN ; Xianyun LI ; Qingxiong YANG ; Yongqiang LIN ; Kaining XU ; Weimin DANG ; Jindi HUANG ; Ling WU ; Zhiwu LIAO ; Rize JING ; Dan WANG ; Lei YANG ; Daqiu CHEN ; Zhiqing WANG ; Rui XU ; Fujun JIA ; Sheng HUANG ; Jialong YI ; Xianglai LIU ; Qiwen ZHANG ; Qiankun YAO ; Yongping HE ; Weifei YU ; Yunzhi ZHANG ; Hua YANG ; Haiya LIU ; Yemin CAI
Chinese Journal of Psychiatry 2019;52(3):212-218
Objective To investigate the prevalence and correlates of depression in residents aged 15 and older in Hainan province.Methods Stratified multistage random sampling methods were utilized to identify 12 117 individuals (≥15 years old) from 59 villages (neighborhoods) in 24 towns (streets) within 6 counties (cities) in Hainan Province from September 2010 to November 2011.The subjects were screened with an expanded version of the General Health Questionnaire (GHQ-12) and the respondents were divided into three groups by high risk,moderate risk and low risk of mental disorder,followed by formal diagnosis according to the Structured Clinical Interview for DSM-IV-TR (SCID-I/P) by psychiatrists among 100% subjects in group with high risk,40% subjects in group with moderate risk and 10% subjects in group with low risk.The adjusted rate,standardized rate,and 95% confidence interval (95%CI) of the one-month and lifetime prevalence were also calculated among the 3 groups of individuals who were diagnosed with depressive disorder.The difference in whether they suffered depression was determined by the chi-squared test.Correlations to depressive disorder and the odds ratio (OR) were explored with multiple regression analysis.Results There were 97 cases of depressive disorders (1-month) and 166 cases of lifetime depressive disorders finally confirmed.The adjusted rate of 1-month prevalence was 1.38% (95%CI:1.12-1.59) and the life-time adjusted prevalence rate was 2.80% (95%CI:2.51-3.09).Female (OR=1.55,95%CI:1.12-2.14),mid-age(50-64 y,OR=1.84,95%CI:1.13-2.99),being divorced or living separated (OR=4.87,95%CI:1.86-12.73),suffering chronic diseases (OR=2.19,95%CI:1.56-3.07),and low family income were significantly associated with suffering depressive disorder.Conclusions The prevalence of the depressive disorder among residents aged 15 and older in Hainan province is lower than the nationwide prevalence.People who are female,mid-age,being divorced or not living with the partner,earning a low income,and suffering chronic diseases have more predisposition to develop the depressive disorder in Hainan province.
5.Analysis on Facial Characteristics of 510 Patients with Five Zang-organs Diseases of TCM Complexion
Jin XU ; Weifei XU ; Zhaoxia XU ; Xueping LI ; Qianqian SHANG ; Taihao HUANG ; Yiming HAO ; Yiqin WANG
Chinese Journal of Information on Traditional Chinese Medicine 2017;24(5):17-21
Objective To explore facial characteristics of patients with different organ diseases; To provide some references for objective study on TCM inspection information. Methods Smart TCM-I type Life Information Analysis Systems was used to detect facial characteristics of 510 patients with five zang-organs diseases. 36 specific quantitative parameters including red ?, green (G), blue (B) and hue (H), saturation (S), value (V) of the face, forehead, eyes, cheeks, nose and chin were collected, and the Kruskal M-Wallis H and Nemenyi test were used for statistical analysis. Results Among the 510 patients with five zang-organs diseases, 96 patients belonged to lung system diseases, 105 heart system diseases, 101 liver system diseases, 107 spleen and stomach system diseases and 101 kidney system diseases. There was statistical significance in R, G, B, H, S, and V in forehead, eyes, cheeks and nose. Conclusion Facial characteristics can provide objective references for the facial division of five zang-organs diseases.
6.The role of central nervous system on hypoglycemia and the feasibility of the brain theory in traditional Chinese medicine on treatment of diabetes mellitus.
Haili JIANG ; Jingjing NIU ; Weifei ZHANG ; Wenjin HUANG ; Mingyue ZHOU ; Wenjun SHA ; Junyan LI ; Fufeng LI ; Ting ZHU ; Xin XIA ; Jun ZHANG ; Yuandong SHEN ; Ligang ZHOU
Journal of Integrative Medicine 2014;12(1):1-6
The central nervous system (CNS) plays a key regulatory role in glucose homeostasis. In particular, the brain is important in initiating and coordinating protective counterregulatory responses when blood glucose levels fall. This may due to the metabolic dependency of the CNS on glucose, and protection of food supply to the brain. In healthy subjects, blood glucose is normally maintained within a relatively narrow range. Hypoglycemia in diabetic patients can increase the risk of complications, such as heart disease and diabetic peripheral neuropathy. The clinical research finds that the use of traditional Chinese medicine (TCM) has a positive effect on the treatment of hypoglycemia. Here the authors reviewed the current understanding of sensing and counterregulatory responses to hypoglycemia, and discuss combining traditional Chinese and Western medicine and the theory of iatrogenic hypoglycemia in diabetes treatment. Furthermore, the authors clarify the feasibility of treating hypoglycemia on the basis of TCM theory and CNS and have an insight on its clinical practice.
7.Clinical analysis of severe craniocerebral injury with hypernatremia
Weifei HUANG ; Zuoguo GUO ; Qirui HUANG ; Qiaojing PENG ; Yueqiang LI
Chinese Journal of Primary Medicine and Pharmacy 2008;15(6):897-898
Objective To investigate the effect of severe eraniocerebral injury patients with hypernatremia.Methods Review and analysis of 356 cases of severe craniocerebral injury and 185 cases of hypernatremia. Analysis on the relationship between hypernatremia and prognosis. Results The 185 eases of severe craniocerebral injury with hypernatremia, the incidence is 52 %. Including 136 death cases, the mortality rate was 73.5 %. Hypernatremia appeared after admission since 1~18 days,the average days for this were 4.1 days. 69 cases appeare hypernatremia in 24 hours,60 cases in 48 hours,16 cases in 72 hours,145 cases of hypematremia appeared after admission within 3 days,about 78%. Blood sodium level was 148~196mmol/L, average was 172mmol/L, duration time was 1~25 days, average was 5.4 days. Conclusion It seems that almost hypernatremia appeared, when severe crartiocerebral was injuried in 3 days. The mortality is very high.

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