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1.
J Thorac Dis ; 16(4): 2379-2393, 2024 Apr 30.
Article in English | MEDLINE | ID: mdl-38738238

ABSTRACT

Background: Data regarding the safety and efficacy of delayed completion lobectomy (CL) following sublobar resections remain scant. We evaluated the technical difficulty and short-term outcomes of CL occurring at least 3 months following the anatomical segmentectomy or wedge resection. Methods: Consecutive non-small cell lung cancer (NSCLC) patients who underwent a second resection within the same lobe at least 3 months after their initial resection from January 2013 to December 2019 at the Shanghai Pulmonary Hospital were retrospectively included. The patients were divided into a segmentectomy group (SG group) and a wedge resection group (WR group) based on their initial resection strategy. Baseline characteristics and short-term outcomes after CL between the two groups were compared. Results: Twenty-five patients undergoing CL were included, nine in the SG group and 16 in the WR group. No deaths occurred within 30 days postoperatively, and the rate of overall postoperative complications was 28.0% (7/25). Statistically significant differences were found in rates of postoperative complications between the two groups (SG: 55.6% vs. WR: 12.5%, P=0.03) and in the use of bronchoplasty or angioplasty during the CL (SG: 33.3% vs. WR: 0.0%, P=0.04). After CL, no significant differences were found in 5-year recurrence-free survival (RFS) (WR: 66.7% vs. SG: 61.0%, P=0.31) or overall survival (OS) (WR: 93.8% vs. SG: 66.7%, P=0.06) between two groups. Conclusions: Delayed CL occurring over 3 months after sublobar resection is a safe and effective procedure, with no deaths occurring within 30 days postoperatively. As compared to a segmentectomy at the time of the index operation, a wedge resection may portend less morbidity, with a decreased risk of needing adjunctive bronchoplasty or angioplasty procedures during CL. After CL, 5-year RFS and OS were comparable between WR and SG groups.

2.
PLoS One ; 19(5): e0300747, 2024.
Article in English | MEDLINE | ID: mdl-38696378

ABSTRACT

We investigate the impact of left-behind experiences on the urban identity of new-generation migrant workers using data from the 2017 China Migrants Dynamic Survey. The results show the following: (1) The left-behind experience is an important factor undermining the urban identity of new-generation migrant workers, and the conclusion remains consistent after robustness checks, such as propensity score matching. (2) Left-behind experiences of both parents away from home had the most significant negative impact on urban identity. (3) The results of the mechanism tests indicate that the left-behind experience exerts an adverse impact on urban identity through the pathways of poorer physical health, more frequent migration, more challenging job search, and stronger dependence on preexisting social networks. The findings of this study also offer policy suggestions for promoting the urban identity of new-generation migrant workers.


Subject(s)
Transients and Migrants , Urban Population , Humans , Transients and Migrants/psychology , Male , China , Adult , Female , Surveys and Questionnaires , Young Adult , Middle Aged
3.
Neuroreport ; 35(4): 258-268, 2024 Mar 06.
Article in English | MEDLINE | ID: mdl-38305135

ABSTRACT

Diabetic neuropathic pain (DNP) is a frequent complication of diabetes. Calcium/calmodulin-dependent protein kinase II α (CaMKIIα), a multi-functional serine/threonine kinase subunit, is mainly located in the surface layer of the spinal cord dorsal horn (SCDH) and the primary sensory neurons in dorsal root ganglion (DRG). Numerous studies have indicated electroacupuncture (EA) takes effect in various kinds of pain. In this research, we explored whether CaMKIIα on rats' SCDH and DRG participated in DNP and further explored the mechanisms underlying the analgesic effects of EA. The DNP model in rats was successfully established by intraperitoneal injection of streptozotocin. Certain DNP rats were treated with intrathecal injections of KN93, a CaMKII antagonist, and some of the DNP rats received EA intervention. The general conditions, behaviors, the expressions of CaMKIIα and phosphorylated CaMKIIα (p-CaMKIIα) were evaluated. DNP rats' paw withdrawal threshold was reduced and the expressions of p-CaMKIIα in SCDH and DRG were upregulated compared with the Normal group, while the level of CaMKIIα showed no significance. KN93 attenuated DNP rats' hyperalgesia and reduced the expressions of p-CaMKIIα. We also found EA attenuated the hyperalgesia of DNP rats and reduced the expressions of p-CaMKIIα. The above findings suggest that p-CaMKIIα in SCDH and DRG is involved in DNP. The analgesic effect of EA in DNP might be related to the downregulation of p-CaMKIIα expression level. Our study further supports that EA can be an effective clinical treatment for DNP.


Subject(s)
Benzenesulfonamides , Benzylamines , Diabetes Mellitus , Diabetic Neuropathies , Electroacupuncture , Neuralgia , Rats , Animals , Hyperalgesia/metabolism , Rats, Sprague-Dawley , Streptozocin , Diabetic Neuropathies/therapy , Diabetic Neuropathies/metabolism , Neuralgia/therapy , Neuralgia/metabolism , Analgesics
4.
Adv Mater ; 36(14): e2313156, 2024 Apr.
Article in English | MEDLINE | ID: mdl-38242541

ABSTRACT

The development of efficient and durable high-current-density hydrogen production electrocatalysts is crucial for the large-scale production of green hydrogen and the early realization of hydrogen economic blueprint. Herein, the evolution of grain boundaries through Cu-mediated NiMo bimetallic oxides (MCu-BNiMo), which leading to the high efficiency of electrocatalyst for hydrogen evolution process (HER) in industrial-grade current density, is successfully driven. The optimal MCu0.10-BNiMo demonstrates ultrahigh current density (>2 A cm-2) at a smaller overpotential in 1 m KOH (572 mV), than that of BNiMo, which does not have lattice strain. Experimental and theoretical calculations reveal that MCu0.10-BNiMo with optimal lattice strain generated more electrophilic Mo sites with partial oxidation owing to accelerated charge transfer from Cu to Mo, which lowers the energy barriers for H* adsorption. These synergistic effects lead to the enhanced HER performance of MCu0.10-BNiMo. More importantly, industrial application of MCu0.10-BNiMo operated in alkaline electrolytic cell is also determined, with its current density reached 0.5 A cm-2 at 2.12 V and 0.1 A cm-2 at 1.79 V, which is nearly five-fold that of the state-of-the-art HER electrocatalyst Pt/C. The strategy provides valuable insights for achieving industrial-scale hydrogen production through a highly efficient HER electrocatalyst.

5.
Article in English | MEDLINE | ID: mdl-37930040

ABSTRACT

OBJECTIVES: To provide the experience of surgical treatment for bronchiectasis-destroyed lung (BDL) and evaluate the feasibility of video-assisted thoracoscopic surgery (VATS). METHODS: BDL patients underwent surgical treatment between January 2013 and June 2018 were included. Logistic regression was performed to assess factors for major complications, and Cox's regression was performed to assess factors affected symptomatic outcome. RESULTS: Totally, 143 patients were treated by VATS (n = 64) and thoracotomy (n = 79). Nine (14.1%) cases scheduled for VATS were converted to thoracotomy for dense adhesions (n = 6) and frozen hilum (n = 3). The VATS group had a median chest tube duration, hospitalization and a time of returning to full activity of 4 days, 5 days and 1.5 months, respectively. Major complications occurred in 28 (19.6%) of all patients, 50.0% after pneumonectomy and 13.4% after lobectomy/extensive lobectomy. Multivariable analysis identified pneumonectomy [odds ratio, 3.64; 95% confidence interval (CI), 1.18-11.21] as a significant predictor for major complications. Overall, 141 (98.6%) patients benefitted from surgery (completely asymptomatic, n = 109; acceptable alleviation, n = 32). Thirty-four patients experienced relapse of the disease, including 13 with productive cough, 11 with haemoptysis and 10 with recurrent infections. Pseudomonas aeruginosa infection [hazard ratio (HR), 3.07; 95% CI, 1.38-6.83] and extent of remanent bronchiectatic areas (HR, 1.03; 95% CI, 1.00-1.05) were independent risk factors for shorter relapse free interval. CONCLUSIONS: VATS for BDL is feasible in well-selected patients. Pneumonectomy increased the risk of postoperative major complications. Removing all BDL lesions contributed to satisfactory prognosis.

6.
J Pain Res ; 16: 2433-2446, 2023.
Article in English | MEDLINE | ID: mdl-37483408

ABSTRACT

Objective: Currently, acupuncture for shoulder pain has been widely used in clinical and scientific research worldwide, but the bibliometric literature on acupuncture for shoulder pain is still scarce. This study reviews the application of acupuncture in the treatment of shoulder pain over the past 15 years, to analyze the current state of research, research hotspots, and trends. The article can also provide a reference for future research. Methods: This paper searches the core collection of the Web of Science database for publications related to acupuncture therapy for shoulder pain between 2008 and 2022. And the data were visualized and analyzed using VOSviewer and CiteSpace for annual publications, countries, institutions, journals and co-cited journals, authors and co-cited authors, keywords, and emergent keywords. Results: A total of 135 papers were included, with an overall increasing trend in the number of annual publications. The country with the highest centrality in publishing articles is the United States (0.28). In terms of research institutions, Kyung Hee University has the highest number of publications (18). In terms of authors, Lewith George, Lind Klaus, MacPherson Hugh, Sherman Karen J, and Vickers Andrew J are the five most published authors. Vickers, Andrew J. is the most co-cited author (50 times). In terms of journals, PAIN has the highest number of publications (82) and co-cited frequency (232), while the highest impact factor was BMJ-BRIT MED J (96.216). "Acupuncture" was the most frequently mentioned keyword (65 times), with the keyword "protocol" appearing the most recently. Emerging keywords that are still in vogue are "stroke", "systematic review" and "stimulation". Conclusion: This study provides statistics on current research on the treatment of shoulder pain with acupuncture, which may be able to inform future research directions for all researchers and physicians, as well as facilitate closer communication and collaboration.

7.
Small Methods ; 7(9): e2300055, 2023 09.
Article in English | MEDLINE | ID: mdl-37330646

ABSTRACT

In lung cancer diagnosis, folate receptor (FR)-based circulating tumor cell (CTC) has shown its ability to distinguish malignancy from benign disease to some extent. However, there are still some patients that cannot be identified by FR-based CTC detection. And studies comparing the characteristics between true positive (TP) and false negative (FN) patients are few. Thus, the study comprehensively analyzes the clinicopathological characteristics of FN and TP patients in the current study. According to inclusion and exclusion criteria, 3420 patients are enrolled. Combining the pathological diagnosis with CTC results, patients are divided into FN and TP groups, and clinicopathological characteristics are compared between two groups. Compared with TP patients, FN patients have smaller tumor, early T stage, early pathological stage, and without lymph node metastasis. Epidermal growth factor receptor (EGFR) mutation status is different between FN and TP group. And this result is also demonstrated in lung adenocarcinoma subgroup but not in lung squamous cell carcinoma subgroup. Tumor size, T stage, pathological stage, lymph node metastasis, and EGFR mutation status may influence the accuracy of FR-based CTC detection in lung cancer. However, further prospective studies are needed to confirm the findings.


Subject(s)
Adenocarcinoma of Lung , Lung Neoplasms , Neoplastic Cells, Circulating , Humans , Lymphatic Metastasis/diagnosis , Neoplastic Cells, Circulating/metabolism , Lung Neoplasms/diagnosis , Lung Neoplasms/pathology , Adenocarcinoma of Lung/diagnosis , Adenocarcinoma of Lung/genetics , Lung/metabolism , Lung/pathology , ErbB Receptors/genetics , Folic Acid
8.
Adv Mater ; 35(9): e2208512, 2023 Mar.
Article in English | MEDLINE | ID: mdl-36373624

ABSTRACT

Nanozyme catalytic therapy triggered by tumor-specific endogenous stimuli is an emerging tumor therapy that attracts wide attention. However, the current therapeutic efficacy of nanozyme catalytic therapy is severely limited by the catalytic efficiency of nanozymes and the concentration of endogenous reaction substrates. Herein, a novel and efficient IrN5 single-atom (IrN5 SA) nanozyme is developed with multiple enzyme-like catalytic activities. Due to the synergistic effect of central Ir single-atom and axial N coordination, IrN5 SA exhibits better enzymatic catalytic performance than IrN4 SA. At tumor sites, IrN5 SA can generate a large amount of reactive oxygen species (ROS) through oxidase (OXD)-like and peroxidase (POD)-like catalytic activities. Moreover, IrN5 SA can also generate O2 and hydrogen peroxide (H2 O2 ) through catalase (CAT)-like and nicotinamide adenine dinucleotide (NADH) oxidase (NOX)-like catalytic activities, realizing the efficient nanozyme catalytic therapy in a substrate-cycle manner. Additionally, IrN5 SA can effectively break the intracellular NADH/NAD+ cycle balance by mimicking NOX, and then cooperate with fatty acid synthase cerulenin (Cer) to interfere with the energy metabolism homeostasis of tumor cells. Consequently, the designed IrN5 SA/Cer nanoagent can disrupt redox and metabolic homeostasis in the tumor region through an enzyme-mimicking cascade reaction, effectively overcoming the shortcomings of current nanozyme catalytic therapy.


Subject(s)
Electrons , Neoplasms , Humans , NAD , Homeostasis , Oxidation-Reduction , Energy Metabolism , Catalysis , Cerulenin , Hydrogen Peroxide , Tumor Microenvironment
9.
Front Med ; 16(5): 760-765, 2022 Oct.
Article in English | MEDLINE | ID: mdl-35776403

ABSTRACT

Voluntary contribution has become the only source of donor lungs in China since 2015. To elaborate the outcomes of patients awaiting lung transplantation (LTx) after the implementation of donation after brain death, we performed a retrospective study that encompassed 205 patients with end-stage lung disease who registered for LTx at Shanghai Pulmonary Hospital from January 1, 2015 to January 1, 2021. A total of 180 patients were enrolled in the study. The median waiting time was 1.25 months. Interstitial lung disease (ILD) (103/180, 57.2%) and chronic obstructive pulmonary disease (COPD) (56/180, 31.1%) were the most common diseases in our study population. The mean pulmonary artery pressure (mPAP) of patients in the died-waiting group was higher than that of the survivors (53.29±21.71 mmHg vs. 42.11±18.58 mmHg, P=0.002). The mortality of patients with ILD (34/103, 33.00%) was nearly twice that of patients with COPD (10/56, 17.86%) while awaiting LTx (P=0.041). In the died-waiting group, patients with ILD had a shorter median waiting time than patients with COPD after being listed (0.865 months vs. 4.720 months, P=0.030). ILD as primary disease and mPAP > 35 mmHg were two significant independent risk factors for waitlist mortality, with hazard ratios (HR) of 3.483 (95% CI 1.311-9.111; P=0.011) and 3.500 (95% CI 1.435-8.536; P=0.006). Hence, LTx is more urgently needed in patients with ILD and pulmonary hypertension.


Subject(s)
Lung Transplantation , Pulmonary Disease, Chronic Obstructive , Humans , Brain Death , Retrospective Studies , China , Pulmonary Disease, Chronic Obstructive/surgery
10.
Surgery ; 172(1): 371-378, 2022 07.
Article in English | MEDLINE | ID: mdl-35164951

ABSTRACT

OBJECTIVE: This study aimed to evaluate the therapeutic efficacy of thymectomy through a subxiphoid video-thoracoscopic approach with double elevation of the sternum compared with traditional intercostal uniportal video-assisted thoracic surgery for stage I-II thymic epithelial tumors (using the Masaoka-Koga staging system). METHOD: Patients with thymic tumors underwent resection through intercostal video-assisted thoracic surgery or subxiphoid video-thoracoscopic approach. Only those with pathologically confirmed thymic epithelial tumors were enrolled. Perioperative short-term/long-term outcomes were compared between 2 groups after propensity-score matching. RESULTS: A total of 141 patients diagnosed with thymic epithelial tumors and scheduled for minimally invasive surgery were included. In the intercostal video-assisted thoracic surgery group, the prevalence for conversion to open surgery was higher than in the subxiphoid video-thoracoscopic approach group for stage III thymic tumors (P = .019). After propensity-score matching for 122 patients undergoing video-assisted thoracic surgery, significantly larger resected specimens were found in the subxiphoid video-thoracoscopic approach group compared to the intercostal video-assisted thoracic surgery group (11.7 ± 3.8 vs 7.1 ± 2.7 cm, P < .001). The pain score on the first postoperative day (1.6 ± 0.6 vs 2.0 ± 0.7, P = .011) and the day of hospital discharge (1.2 ± 0.7 vs 1.6 ± 0.6, P = .017) in the subxiphoid video-thoracoscopic approach group were significantly lower. The operation time (168.4 ± 59.3 vs 92.5 ± 46.0 min, P < .001), chest tube drainage time (3.6 ± 1.2 vs 2.9 ± 0.9 days, P = .001), and hospital stay (3.7 ± 1.3 vs 2.9 ± 0.9 days, P = .004) were longer in the subxiphoid video-thoracoscopic approach group, with higher intraoperative blood loss (69.3 ± 61.0 vs 45.6 ± 42.5 mL, P = .045). No significant differences were found in the hospitalization cost, incidence of complications, or 3-year disease-free survival (96% vs 92%, P = .473) between the 2 groups. Four patients with stage III disease in the subxiphoid video-thoracoscopic approach group reached a 3-year disease-free survival of 75%. CONCLUSION: The subxiphoid video-thoracoscopic approach with double elevation of the sternum shows the potential for more extensive clearance of thymic tissue for thymic epithelial tumors compared to intercostal video-assisted thoracic surgery. Its inferior operation time and blood loss could be a trade-off for improved pain control and equivalent hospitalization cost, complications, and 3-year disease-free survival. The subxiphoid video-thoracoscopic approach may offer an advantage treatment for early-stage thymic epithelial tumors and may also be suitable for unexpected advanced thymic tumors identified intraoperatively.


Subject(s)
Neoplasms, Glandular and Epithelial , Thymus Neoplasms , Humans , Neoplasms, Glandular and Epithelial/surgery , Pain , Retrospective Studies , Sternum/pathology , Sternum/surgery , Thoracic Surgery, Video-Assisted , Thymectomy , Thymus Neoplasms/surgery
11.
Comput Math Methods Med ; 2020: 5325304, 2020.
Article in English | MEDLINE | ID: mdl-32655680

ABSTRACT

A human papillomavirus type plays an important role in the early diagnosis of cervical cancer. Most of the prediction methods use protein sequence and structure information, but the reduced amino acid modes have not been used until now. In this paper, we introduced the modes of reduced amino acids to predict high-risk HPV. We first reduced 20 amino acids into several nonoverlapping groups and calculated their structure and physicochemical modes for high-risk HPV prediction, which was tested and compared with the existing methods on 68 samples of known HPV types. The experiment result indicates that the proposed method achieved better performance with an accuracy of 96.49%, indicating that the reduced amino acid modes might be used to improve the prediction of high-risk HPV types.


Subject(s)
Alphapapillomavirus/classification , Alphapapillomavirus/pathogenicity , Papillomavirus Infections/diagnosis , Papillomavirus Infections/virology , Uterine Cervical Neoplasms/diagnosis , Uterine Cervical Neoplasms/virology , Algorithms , Alphapapillomavirus/genetics , Amino Acid Sequence , Amino Acids/chemistry , Amino Acids/classification , Chemical Phenomena , Computational Biology , Female , Genes, Viral , Humans , Oncogene Proteins, Viral/chemistry , Oncogene Proteins, Viral/genetics , Risk Factors , Support Vector Machine
12.
BMC Bioinformatics ; 21(1): 159, 2020 Apr 29.
Article in English | MEDLINE | ID: mdl-32349677

ABSTRACT

BACKGROUND: Genomic islands are associated with microbial adaptations, carrying genomic signatures different from the host. Some methods perform an overall test to identify genomic islands based on their local features. However, regions of different scales will display different genomic features. RESULTS: We proposed here a novel method "2SigFinder ", the first combined use of small-scale and large-scale statistical testing for genomic island detection. The proposed method was tested by genomic island boundary detection and identification of genomic islands or functional features of real biological data. We also compared the proposed method with the comparative genomics and composition-based approaches. The results indicate that the proposed 2SigFinder is more efficient in identifying genomic islands. CONCLUSIONS: From real biological data, 2SigFinder identified genomic islands from a single genome and reported robust results across different experiments, without annotated information of genomes or prior knowledge from other datasets. 2SigHunter identified 25 Pathogenicity, 1 tRNA, 2 Virulence and 2 Repeats from 27 Pathogenicity, 1 tRNA, 2 Virulence and 2 Repeats, and detected 101 Phage and 28 HEG out of 130 Phage and 36 HEGs in S. enterica Typhi CT18, which shows that it is more efficient in detecting functional features associated with GIs.


Subject(s)
Algorithms , Genome, Bacterial , Genomic Islands/genetics , Genomics/methods , Pseudomonas aeruginosa/genetics , Pseudomonas aeruginosa/pathogenicity , Salmonella enterica/genetics , Salmonella enterica/pathogenicity , Virulence
13.
Ann Thorac Surg ; 110(3): e233-e236, 2020 09.
Article in English | MEDLINE | ID: mdl-32353442

ABSTRACT

Repairing a large tracheoesophageal fistula with extensive involvement of the membranous wall of the trachea is sometimes troublesome because of the lack of an ideal replacement for the large defect. We report the successful use of a pedicled sternocleidomastoid musculocutaneous flap to repair a large tracheoesophageal fistula in which the cutaneous component was applied to the defect of the membranous trachea after tracheal resection and the muscular component was interposed between the tracheal and esophageal walls.


Subject(s)
Myocutaneous Flap , Plastic Surgery Procedures/methods , Tracheoesophageal Fistula/surgery , Adult , Humans , Male , Suture Techniques , Tracheoesophageal Fistula/diagnostic imaging
14.
Lung Cancer ; 135: 110-115, 2019 09.
Article in English | MEDLINE | ID: mdl-31446982

ABSTRACT

OBJECTIVE: Lung cancer associated with cystic airspaces (LCCA) is a rare entity. The diagnosis and treatment is often delayed due to lack of comprehension of this disease. We aimed to elucidate LCCA's clinicopathological characteristics and investigate imaging features correlated with pathological invasiveness. METHOD: The preoperative computed tomographic (CT) scans of 10,835 patients diagnosed with NSCLC between January 2015 and December 2016 were reviewed by two thoracic radiologists for association with a cystic airspace. A clinicopathological and radiological feature analysis was done. RESULT: A total number of 123 LCCA patients were identified and four morphologic patterns were recognized: I, thin-walled type (n = 23, 18.7%); II, thick-walled type (n = 34, 27.6%); III, a cystic airspace with a mural nodule (CWN) type (n = 43, 35.0%); and IV, mixed type (n = 23, 18.7%). A solid component in the cyst wall predicted histological invasiveness in all four types of LCCA. The proportion of moderately/poorly (M/P)-differentiated subtype in type III (85.0%) was higher than in other three patterns (which were 50.0%, 50.0%, and 69.6%, respectively). Multivariate analysis revealed that type III pattern (odds ratio [OR], 6.5; 95% confidence interval [CI], 1.1-36.4; P = 0.035), part-solid/solid component in wall (part-solid: OR, 27.2; 95% CI, 5.6-3131.6; P < 0.001; solid: OR 614.6; 95% CI, 36.4-10,368.6; P < 0.001), and irregular inner surface of cyst (OR 7.0; 95% CI 1.9-26.2; P = 0.004) were independent risk factors for the M/P-differentiated subtype. EGFR mutations were the predominant genetic alterations in each type of LCCAs, but no significant difference was found among them. CONCLUSIONS: In LCCA, morphological patterns and wall components were two important predictors for determining pathological invasiveness.


Subject(s)
Cysts/diagnostic imaging , Cysts/pathology , Lung Neoplasms/diagnostic imaging , Lung Neoplasms/pathology , Aged , Biomarkers , Biopsy , Female , Humans , Male , Middle Aged , Neoplasm Staging , Odds Ratio , Tomography, X-Ray Computed
15.
Biosystems ; 180: 38-45, 2019 Jun.
Article in English | MEDLINE | ID: mdl-30904554

ABSTRACT

Amino acid (AA) classification and its different biophysical and chemical characteristics have been widely applied to analyze and predict the structural, functional, expression and interaction profiles of proteins and peptides. We present RaaMLab, a free and open-source MATLAB toolbox, to facilitate studies on proteins and peptides, to generate AA groups and to extract the structural and physicochemical features of reduced AAs (RedAA). This toolbox offers 4 kinds of databases, including the physicochemical properties of AAs and their groupings, 49 AA classification methods and 5 types of biophysicochemical features of RedAAs. These factors can be easily computed based on user-defined alphabet size and AA properties of AA groupings. RaaMLab is an open source freely available at https://github.com/bioinfo0706/RaaMLab. This website also contains a tutorial, extensive documentation and examples.


Subject(s)
Algorithms , Amino Acids/chemistry , Computational Biology/methods , Peptides/chemistry , Proteins/chemistry , Biophysical Phenomena , Chemical Phenomena , Internet , Software
16.
Small ; 15(9): e1805285, 2019 03.
Article in English | MEDLINE | ID: mdl-30677225

ABSTRACT

An accurate genotyping analysis is one of the critical prerequisites for lung cancer targeted therapy. Here, a quantitative polymerase chain reaction (qPCR)-based mutation detection system, mutation-selected amplification-specific system PCR (MASS-PCR), is developed. The specific primers and probes used in MASS-PCR exactly match with the mutant sequence that only allows mutant gene to emit the fluorescence peak. To determine the sensitivity of MASS-PCR, 717 lung cancer specimens, 61 formalin-fixed paraffin-embedded (FFPE) tissues, and 656 fresh reaction tissues are collected and undergo mutation detection of lung cancer driver genes (EGFR, KRAS, BRAF, HER2, MET, ALK, and ROS1). These samples are divided into two groups. Mutations in Group I, which has 631 fresh reaction tissues, are analyzed by MASS-PCR and the amplification refractory mutation system PCR (ARMS-PCR). While group II samples, 25 fresh reaction tissues and 61 FFPE tissues, are screened through MASS-PCR and next-generation sequencing (NGS). All results are verified by direct sequencing. MASS-PCR shows high consistency with ARMS-PCR (kappa value > 0.733) and NGS (kappa value = 0.79) (P < 0.001). For the samples with inconsistent MASS-PCR and ARMS-PCR results, DS results more likely support the MASS-PCR results. These data suggest that MASS-PCR is a convenient, accurate, and economical method for the detection of lung cancer driver gene mutations in clinical practice.


Subject(s)
Lung Neoplasms/genetics , Mutation/genetics , Polymerase Chain Reaction/methods , Anaplastic Lymphoma Kinase/genetics , ErbB Receptors/genetics , High-Throughput Nucleotide Sequencing/methods , Humans , Protein-Tyrosine Kinases/genetics , Proto-Oncogene Proteins/genetics , Proto-Oncogene Proteins B-raf/genetics , Proto-Oncogene Proteins c-met/genetics , Proto-Oncogene Proteins p21(ras)/genetics , Receptor, ErbB-2/genetics , Retrospective Studies
17.
Scand J Clin Lab Invest ; 76(5): 386-92, 2016 Sep.
Article in English | MEDLINE | ID: mdl-27215271

ABSTRACT

BACKGROUND: Next-generation sequencing (NGS) has been widely applied in clinical research, while its application in routine clinical molecular testing requires careful validation. The aim of our study was to assess the clinical usefulness of the NextDaySeq Lung panel on Ion Torrent™ PGM in mutation detection of actionable genes in lung cancer. METHODS: The NextDaySeq assay was evaluated by blinded comparisons to Quantitative Real-Time PCR (qPCR) assays with 188 consecutive samples from Chinese patients with non-small cell lung cancer (NSCLC) to detect mutations in EGFR, KRAS, PIK3CA and BRAF. Discordant variants were further validated by Sanger sequencing and independent qPCR and NGS assays. RESULTS: Our results showed 93.3% concordance of reportable variants mutually covered in both NGS and qPCR assays, with a clinical sensitivity of 89.9%, specificity of 97.5%. Through the comparison, the NGS assays demonstrated its advantages in offering more clinical relevant information, such as detecting non-hotspot mutations and providing mutation allele frequencies (MAF) and accurate mutation sequences. The analytical sensitivity of NGS to detect mutations with low MAF needs further improvement. CONCLUSIONS: The NextDaySeq Lung panel exhibited good clinical performance, strongly supporting the implementation of the NGS assay in routine clinical use to facilitate therapeutic decision-making for lung cancer patients.


Subject(s)
Carcinoma, Non-Small-Cell Lung/genetics , ErbB Receptors/genetics , Lung Neoplasms/genetics , Mutation , Phosphatidylinositol 3-Kinases/genetics , Proto-Oncogene Proteins B-raf/genetics , Proto-Oncogene Proteins p21(ras)/genetics , Class I Phosphatidylinositol 3-Kinases , DNA Mutational Analysis , Female , High-Throughput Nucleotide Sequencing , Humans , Male
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