Publications by authors named "Xiaohong Liu"

637 Publications

Drug target inference by mining transcriptional data using a novel graph convolutional network framework.

Protein Cell 2021 Oct 22. Epub 2021 Oct 22.

Drug Discovery and Design Center, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, 201203, China.

A fundamental challenge that arises in biomedicine is the need to characterize compounds in a relevant cellular context in order to reveal potential on-target or off-target effects. Recently, the fast accumulation of gene transcriptional profiling data provides us an unprecedented opportunity to explore the protein targets of chemical compounds from the perspective of cell transcriptomics and RNA biology. Here, we propose a novel Siamese spectral-based graph convolutional network (SSGCN) model for inferring the protein targets of chemical compounds from gene transcriptional profiles. Although the gene signature of a compound perturbation only provides indirect clues of the interacting targets, and the biological networks under different experiment conditions further complicate the situation, the SSGCN model was successfully trained to learn from known compound-target pairs by uncovering the hidden correlations between compound perturbation profiles and gene knockdown profiles. On a benchmark set and a large time-split validation dataset, the model achieved higher target inference accuracy as compared to previous methods such as Connectivity Map. Further experimental validations of prediction results highlight the practical usefulness of SSGCN in either inferring the interacting targets of compound, or reversely, in finding novel inhibitors of a given target of interest.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1007/s13238-021-00885-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8532448PMC
October 2021

[Analysis of metabolite differences in skin between Clapp's Favorite and its mutant Red Clapp's Favorite through non-targeted metabolomics].

Se Pu 2021 Nov;39(11):1203-1212

Yantai Academy of Agricultural Sciences Shandong Province, Yantai 26550, China.

Red Clapp's Favorite is the red mutation cultivar of the pear cultivar Clapp's Favorite. Fruit color is an important feature of pear fruits, with red skin generally attracting consumers. Anthocyanin, chlorophyll, and carotenoids are the most important pigments in the color formation of fruits. The red color of pear skin is mainly due to the concentration and composition of anthocyanin. Metabolomics is an emerging discipline that focuses on the qualitative and quantitative analysis of small metabolites with low molecular weight in biological cells and tissues. As an important part of systems biology, it is an effective means to solve many complex biological problems. Studies have analyzed pigment content, composition, and differentially expressed genes in the skin of green and red pears from various aspects. Anthocyanins are responsible for physiological activity on regulating pathways. The aim of this study was to discover differential metabolites in the skin of Clapp's Favorite and its red mutation cultivar Red Clapp's Favorite. The metabolic components were detected using high-performance liquid chromatography coupled with tandem mass spectrometry (UPLC-MS/MS). Chromatographic experiments were performed on an HSS T3 column (100 mm×2.1 mm, 1.8 μm) by using a mobile phase consisting of 0.1% (v/v) formic acid in acetonitrile and water, and mass spectrometry was conducted in the positive and negative modes by electrospray ionization (ESI). Red Clapp's Favorite and Clapp's Favorite were collected from the pear germplasm resource nursery of Yantai Institute of Agricultural Sciences in Shandong. The data were analyzed by principal component analysis (PCA) and orthogonal partial least squares discriminant analysis (OPLS-DA) as well as cluster analysis and heat map. The first two principal components exhibited 62.3% and 8% of the total variance in the positive and negative ion modes, respectively. PCA can generally reflect metabolite differences between the two groups of samples, and there are significant differences in metabolites between the two cultivars. The results showed that PLS-DA clearly distinguishes the two groups of samples, which can be used to analyze the subsequent difference in components. The compounds were identified based on data retrieved from the PMDB databases according to the accurate mass number, secondary fragment, and isotope distribution. The results showed that the metabolite content in the skin of Red Clapp's Favorite and Clapp's Favorite were significant. There were 83 different metabolites (<0.05, variable importance in project (VIP)≥1), including phenols and amino acids, which are involved in flavonoid metabolism, amino acid metabolism, phenyl propanoid biosynthesis, and other metabolic pathways, including 5 polyphenols, 3 flavonoids, 1 amino acid and derivatives, 8 phenylpropanes, 2 anthocyanins, 5 proanthocyanidins, 6 flavanols, 14 flavonols, 2 isoflavones, 13 triterpenoids, 3 organic acids and derivatives, 1 vitamin, 3 organic acids and derivatives, 15 lipids, and 2 other compounds. The chlorogenic acid and crypto-chlorogenic acid in Red Clapp's Favorite are 2.40 and 3.46 times as much as those in Clapp's Favorite. The anthocyanins of cornulin 3-glucoside and cornulin 3-galactoside were 10.235 and 9.394 times, respectively. Phenolic epicatechin and catechin increased by 4.689 and 4.635, respectively. The content of phenylpropane 3, 4-dihydroxycinnamic acid in Red Clapp's Favorite increased by 3.13 times. Among the 83 differential metabolites, 23 metabolites were enriched in the pathway. To display the relationship between the samples and the differences in metabolites among the different samples intuitively, hierarchical clustering and heat map analysis were performed on the metabolite expression levels with significant differences in the enrichment pathways. The Kyoto Encyclopedia of Genes and Genomes database was used to further analyze the pathway enrichment of different metabolites. According to the results, there were 6 metabolic pathways (<0.05): flavonoid biosynthesis, flavone and flavonol biosynthesis, phenylpropanoid biosynthesis, butanoate metabolism, phenylalanine metabolism, and tyrosine metabolism. Plant secondary metabolism shows a complex diversity. This study would screen out other pathways affecting the biosynthesis of flavonoids, which could provide reference for the further study of biosynthesis and biological function of flavonoids in red fruits. This study provides a useful reference for metabolomics of red pears, which could provide a theoretical reference for the quality analysis and biological function research of pears.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.3724/SP.J.1123.2021.05002DOI Listing
November 2021

Flower-like colloidal particles through precipitation polymerization of redox responsive liquid crystals.

Angew Chem Int Ed Engl 2021 Oct 21. Epub 2021 Oct 21.

Eindhoven University of Technology, Laboratory of Functional Organic Materials and Devices, PO Box 513, Helix STO 0.34, 5600 MB, Eindhoven, NETHERLANDS.

Despite the plethora of available anisotropic inorganic particles, it remains challenging to fabricate non-spherical polymer particles, especially with angular features. Here we report on the synthesis of monodisperse, flower-like, liquid crystalline (LC) polymer particles by precipitation polymerization of an LC monomer mixture consisting of benzoic acid-functionalized acrylates and disulfide-functionalized diacrylates. Introduction of a minor amount of disulfide-functionalized diacrylates (≤ 10 wt%) induced the formation of flower-like shapes. The shape of the particles can be tuned from flower- to disk-like to spherical by elevating the polymerization temperature. The solvent environment also has a pronounced effect on the particle size. Time-resolved TEM reveals that the final particle morphology was formed in the early stages of the polymerization and that subsequent polymerization resulted in continued particle growth without affecting the morphology. Finally, the degradation of the particles under reducing conditions was much faster for flower-like particles than for spherical particles, a result of their higher surface-to-volume ratio. This work introduces a facile and scalable preparation of non-spherical anisotropic organic particles which may lead to potential applications ranging from smart coatings to redox responsive carrier systems..
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1002/anie.202111521DOI Listing
October 2021

An ultra-high-sensitivity electrochemiluminescence aptasensor for Pb detection based on the synergistic signal-amplification strategy of quencher abscission and G-quadruplex generation.

J Hazard Mater 2021 Oct 12;424(Pt B):127480. Epub 2021 Oct 12.

Key Laboratory of Modern Agricultural Equipment and Technology, Ministry of Education, School of Agricultural Engineering, Jiangsu University, Zhenjiang, Jiangsu 212013, China. Electronic address:

Signal amplification provides an effective way to improve detection performance. Herein, an ultrasensitive electrochemiluminescence (ECL) aptasensor for Pb detection was developed based on a dual signal-amplification strategy of the abscission of a quencher and the generation of a G-quadruplex by one-step and simultaneous way. Nitrogen-doped carbon quantum dots linked with complementary DNA (cDNA-NCQDs) at the sensing interface was applied as the quencher of a tris(4,4'-dicarboxylic acid-2,2'-bipyridyl)ruthenium(II) (Ru(dcbpy))/tripropylamine system to minimize the ECL signal due to the intermolecular hydrogen bond-induced energy-transfer process. Upon the addition of Pb, its specific binding with the aptamer triggered the abscission of cDNA-NCQDs, accompanied by the formation of G-quadruplex on the surface of the electrode, both of which amplified the intensity of the light emission. The ECL amplification efficiency induced by the above two mechanisms (78.6%) was valuably greater than that of their sum value (69.3%). This synergistic effect resulted in high detection sensitivity of the ECL aptasensor, which allowed to thereby obtain Pb measurements in the range of 1 fM - 10 nM with an ultra-low detection limit of 0.19 fM. The Pb-mediated synergistic signal-amplification ECL strategy can provide a new approach for integrating various amplification strategies.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.jhazmat.2021.127480DOI Listing
October 2021

Regulating Vacuum Tribological Behavior of a-C:H Film by Interfacial Activity.

J Phys Chem Lett 2021 Oct 19:10333-10338. Epub 2021 Oct 19.

Key Laboratory of Science and Technology on Wear and Protection of Materials, Lanzhou Institute of Chemical Physics, Chinese Academy of Sciences, Lanzhou 730000, China.

A hydrogenated amorphous carbon (a-C:H) film shows an ultralow friction coefficient (COF, lower than 0.01); however, its wear life is short in vacuum, and the mechanisms are still not well-understood. This study demonstrates the vacuum tribological behaviors of the a-C:H film can be regulated by interfacial activity. The strong interfacial activity induced continuous transfer of carbon from the film to counterface, causing the formation of a porous transfer film and severe wear of the a-C:H film. Interestingly, weak interfacial activity is beneficial to form spherical-like carbon at the sliding interface, which shields the interaction of dangling bonds and contributes to lower COF and wear of film. Notably, the catalytic nature of Au induced perfect graphene nanoscrolls around Au nanoparticles at the sliding interface, achieving ultralong vacuum wear life. This Letter unifies the understanding of vacuum tribological properties of a-C:H film and provides new insight for prolonging the life of carbon films in vacuum.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1021/acs.jpclett.1c02841DOI Listing
October 2021

Structure-Based Virtual Screening and Identification of Potential Inhibitors of SARS-CoV-2 S-RBD and ACE2 Interaction.

Front Chem 2021 27;9:740702. Epub 2021 Sep 27.

Institute of Interdisciplinary Integrative Medicine Research, Shanghai University of Traditional Chinese Medicine, Shanghai, China.

The emergence and rapid spread of SARS-CoV-2 have caused a worldwide public health crisis. Designing small molecule inhibitors targeting SARS-CoV-2 S-RBD/ACE2 interaction is considered as a potential strategy for the prevention and treatment of SARS-CoV-2. But to date, only a few compounds have been reported as SARS-CoV-2 S-RBD/ACE2 interaction inhibitors. In this study, we described the virtual screening and experimental validation of two novel inhibitors (DC-RA016 and DC-RA052) against SARS-CoV-2 S-RBD/ACE2 interaction. The NanoBiT assays and surface plasmon resonance (SPR) assays demonstrated their capabilities of blocking SARS-CoV-2 S-RBD/ACE2 interaction and directly binding to both S-RBD and ACE2. Moreover, the pseudovirus assay revealed that these two compounds possessed significant antiviral activity (about 50% inhibition rate at maximum non-cytotoxic concentration). These results indicate that the compounds DC-RA016 and DC-RA052 are promising inhibitors against SARS-CoV-2 S-RBD/ACE2 interaction and deserve to be further developed.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.3389/fchem.2021.740702DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8504695PMC
September 2021

Multi-instance learning of graph neural networks for aqueous pKa prediction.

Bioinformatics 2021 Oct 13. Epub 2021 Oct 13.

Drug Discovery and Design Center, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 555 Zuchongzhi Road, Shanghai 201203, China.

Motivation: The acid dissociation constant (pKa) is a critical parameter to reflect the ionization ability of chemical compounds and is widely applied in a variety of industries. However, the experimental determination of pKa is intricate and time-consuming, especially for the exact determination of micro pKa information at the atomic level. Hence, a fast and accurate prediction of pKa values of chemical compounds is of broad interest.

Results: Here, we compiled a large scale pKa dataset containing 16595 compounds with 17489 pKa values. Based on this dataset, a novel pK a prediction model, named Graph-pKa, was established using graph neural networks. Graph-pKa performed well on the prediction of macro pK a values, with a mean absolute error around 0.55 and a coefficient of determination around 0.92 on the test dataset. Furthermore, combining multi-instance learning, Graph-pKa was also able to automatically deconvolute the predicted macro pKa into discrete micro pK a values.

Availability: The Graph-pK a model is now freely accessible via a web-based interface (https://pka.simm.ac.cn/).

Supplementary Information: Supplementary data are available at Bioinformatics online.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btab714DOI Listing
October 2021

Retraction Note to: MiR-34a inhibitor protects mesenchymal stem cells from hyperglycaemic injury through the activation of the SIRT1/FoxO3a autophagy pathway.

Stem Cell Res Ther 2021 Oct 7;12(1):529. Epub 2021 Oct 7.

Department of Cardiology, the Affiliated Hospital of Xuzhou Medical University, 99 West Huaihai Road, Xuzhou, 221000, People's Republic of China.

View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1186/s13287-021-02606-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8499566PMC
October 2021

Attenuation of Myocardial Fibrosis Using Molecular Hydrogen by Inhibiting the TGF-β Signaling Pathway in Spontaneous Hypertensive Rats.

Am J Hypertens 2021 Oct 7. Epub 2021 Oct 7.

Department of Cardiology, The Second Affiliated Hospital of Shandong First Medical University, Taian, Shandong, P.R. China.

Background: Previous studies have shown that hydrogen (H2) can antagonize the fibrosis of various organs. We investigated whether hydrogen-rich saline (HRS) can attenuate myocardial fibrosis in spontaneously hypertensive rats (SHR) and clarified the mechanisms involved.

Methods: We examined the effect of HRS and pirfenidone (PFD) on myocardial fibrosis in SHR. Systolic blood pressure, left ventricular mass index (LVMI) and heart weight index (HWI) were measured, Masson trichrome staining was performed. We assessed the role of superoxide dismutase (SOD), malondialdehyde (MDA), Alpha-smooth muscle actin (α-SMA), collagen I, collagen III, and tissue inhibitors of metalloproteinases (TIMPs) in myocardium. We detected the concentrations of procollagen type-I C-terminal propeptide (PICP), procollagen type-III N-terminal propeptide (PIIINP), and angiotensin II (AngII) in rat serum. Furthermore, the relative protein levels of the TGFβ/Smad pathway were tested.

Results: We discovered that HRS decreases LVMI (P<0.05) and HWI(P<0.05) in vivo. Compared to model group, HRS decreases the level of collagen volume fraction(P<0.0001), collagen I(P<0.001), and collagen III(P<0.001) in myocardium, and Ang II(P<0.05), PICP(P<0.001), and PIIINP(P<0.05) in serum. In addition, HRS down-regulates the expression of MDA(P<0.01), α-SMA(P<0.05), and TIMPs(P<0.05), and increased SOD(P<0.05). Furthermore, HRS down-regulated the expression levels of TGF-β1(P<0.0001), Smad3(P<0.0001), and Smad2/3(P<0.001), but had no effect on Smad7 expression(P>0.05). PFD had similar effect compared with HRS and control group.

Conclusions: HRS reduced oxidative stress and improved myocardial collagen content, which may be related to inhibition of the TGF-β signaling pathway.This suggests that HRS is an effective therapeutic strategy for myocardial fibrosis.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1093/ajh/hpab159DOI Listing
October 2021

Isolation of microglia from retinas of chronic ocular hypertensive rats.

Open Life Sci 2021 15;16(1):992-1001. Epub 2021 Sep 15.

Department of Ophthalmology, Ruijin Hospital Affiliated Medical School, Shanghai Jiaotong University, 197 Ruijin Er Road, 200025, Shanghai, China.

Microglia are the principal glial cells involved in the processes of immune inflammation within both retina and optic nerve, especially under the context of glaucomatous neuropathy. Considering the distinguishing role of retinal microglia in glaucoma and the lack of established protocol for microglia isolation from animal glaucoma model, the present study aimed to develop and validate a method with characteristics of both simplicity and efficiency for retinal microglia isolation from chronic ocular hypertensive (COH) rats. A Percoll gradient of various concentrations was used to separate microglia from whole retinal cells of the COH rats and control group. The finally isolated microglia were identified by CD11b and Iba-1 immunofluorescence staining, and the cell viability was determined by trypan blue staining. Additionally, the proportion of microglia in the whole retina cells was identified by flow cytometry. Results showed that the survival rates of isolated retinal microglia with the Percoll gradient method were 67.2 ± 4% and 67.6 ± 3% in control and COH groups, respectively. The proportion of the microglia population in the whole retinal cells was about 0.4-0.93%. To conclude, the present study confirmed that the application of Percoll gradient could effectively separate microglia from retinas of COH rats, which will probably enrich the tool kit for basic researchers of glaucoma specialty and help with scientific investigations.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1515/biol-2021-0100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8445004PMC
September 2021

Gender Differences in Self-Regulated Online Learning During the COVID-19 Lockdown.

Front Psychol 2021 16;12:752131. Epub 2021 Sep 16.

Department of Industrial Education, Institute for Research Excellence in Learning Sciences, National Taiwan Normal University, Taipei City, Taiwan.

Due to the spread of the epidemic around the world, online learning has received greater attention. Self-regulated learning (SRL) is an important factor for students to achieve academic success. This study investigated the gender differences in SRL and three sub-constructs of SRL in the context of online learning, that is the preparatory, performance, and appraisal phases. A total of 400 high school students (males = 125, females = 275) from China participated in this study. In order to identify whether there were gender differences in their self-regulated online learning (SROL), independent sample -test was performed. The results showed that there were significant gender differences in the SROL ( = -3.334, = 0.001 < 0.01, = -0.410) and the three sub-constructs of SROL (preparatory: = -0.702, = 0.008 < 0.01, = 0.018; performance: = -3.801, = 0.000 < 0.01, = 0.456; appraisal: = -3.120, = 0.002 < 0.01, = 0.361). The findings indicated that females performed better than males in all three dimensions of learners' online self-regulated learning.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.3389/fpsyg.2021.752131DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8481384PMC
September 2021

A Genetically Encoded F-19 NMR Probe Reveals the Allosteric Modulation Mechanism of Cannabinoid Receptor 1.

J Am Chem Soc 2021 Oct 1;143(40):16320-16325. Epub 2021 Oct 1.

Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Science, Beijing 100101, China.

Due to the lack of genetically encoded probes for fluorine-19 nuclear magnetic resonance spectroscopy (F NMR), its utility for probing eukaryotic membrane protein dynamics is limited. Here we report an efficient method for the genetic incorporation of an unnatural amino acid (UAA), 3'-trifluoromenthyl-phenylalanine (mtfF), into cannabinoid receptor 1 (CB1) in the Baculovirus Expression System. The probe can be inserted at any environmentally sensitive site, while causing minimal structural perturbation to the target protein. Using F NMR and X-ray crystallography methods, we discovered that the allosteric modulator Org27569 and agonists synergistically stabilize a previously unrecognized pre-active state. An allosteric modulation model is proposed to explain Org27569's distinct behavior. We demonstrate that our site-specific F NMR labeling method is a powerful tool in decoding the mechanism of GPCR allosteric modulation. This new method should be broadly applicable for uncovering conformational states for many important eukaryotic membrane proteins.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1021/jacs.1c06847DOI Listing
October 2021

Rate of Correct Use of Folic Acid Supplementation Among Pregnant Women - Beijing Municipality, China, 2017-2019.

China CDC Wkly 2021 Sep;3(37):783-787

Institute of Reproductive and Child Health, Peking University/Key Laboratory of Reproductive Health, National Health Commission of the People's Republic of China, Beijing, China.

What Is Already Known On This Topic?: Neural tube defects can be effectively prevented by folic acid supplementation. However, compliance with the recommendations for supplementation is still low in China.

What Is Added By This Report?: This study investigated the rate of correct use of folic acid supplementation and its risk factors among pregnant women in Beijing. Women who took folic acid correctly only comprised less than 50% of the total, possibly due to unexpected pregnancy.

What Are The Implications For Public Health Practice?: Given the low rate in Beijing, an area with high health literacy, the rate may also be low in other areas in China. Regulations for mandatory fortification of food with folic acid are recommended in China.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.46234/ccdcw2021.194DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8441181PMC
September 2021

Clinical Effects of the COVID-19 Pandemic Among the Uninfected Pregnant Women - 6 PLADs, China, 2019-2020.

China CDC Wkly 2021 Mar;3(10):199-206

Institute of Reproductive and Child Health, Peking University/Key Laboratory of Reproductive Health, National Health Commission of the People's Republic of China, Beijing, China.

Summary: The coronavirus disease 2019 (COVID-19) pandemic potentially affected prenatal care quality and maternal and fetal outcomes globally.

During COVID-19 pandemic period, the rates of caesarean sections (CS) and preterm birth for uninfected pregnant women increased slightly in areas that were relatively severely impacted by the pandemic in China. The overall number of prenatal examinations did not dramatically decrease, while the eligible examinations significantly decreased in Hubei Province.

Routine prenatal examinations had been well maintained during the pandemic period in China. In the future, in-time prenatal examinations should be provided to improve the quality of screening and management of high-risk pregnancy under pandemic-affected circumstances. Psychological counseling and transfer treatment channels should be strengthened for pregnant women during lockdown period.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.46234/ccdcw2021.060DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8392974PMC
March 2021

Changes and Prognostic Value of lncRNA CASC9 in Patients with Advanced Colon Cancer after Chemotherapy.

Evid Based Complement Alternat Med 2021 18;2021:1858974. Epub 2021 Sep 18.

Department of Traditional Chinese Medicine, Baoji Maternal and Child Health Care Hospital, Baoji, Shaanxi 721000, China.

Objective: Colon cancer (CC) shows a gradual increasing incidence in recent years, and chemotherapy is a frequently adopted treatment for patients with middle or advanced colon cancer (ACC), but it lacks prognostic markers after CC.

Methods: The changes of lncRNA CASC9 in 58 patients with CC were determined using a real-time quantitative PCR (qRT-PCR) assay before and after chemotherapy, and the correlation of serum lncRNA CASC9 with efficacy of FOLFOX4 regimen (oxaliplatin + calcium folinate + fluorouracil) was analyzed. The patients were followed up to understand the association of lncRNA CASC9 with overall survival (OS) and progression-free survival (PFS).

Results: Patients with CC showed notably higher lncRNA CASC9 expression than controls, and lncRNA CASC9 presented an association with the clinical stage of the patients. In addition, lncRNA CASC9 demonstrated a clinical value in predicting efficacy on patients and acted as one independent prognostic factor for PFS in patients with ACC.

Conclusions: With increased expression of serum lncRNA CASC9, patients with ACC suffered an unfavorable chemotherapy effect. In addition, serum lncRNA CASC9 is a promising sensitive indicator for prediction of ACC and is related to the clinical efficacy and prognosis of patients.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1155/2021/1858974DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8476242PMC
September 2021

PoRal2 Is Involved in Appressorium Formation and Virulence Pmk1 MAPK Pathways in the Rice Blast Fungus .

Front Plant Sci 2021 13;12:702368. Epub 2021 Sep 13.

State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Biotechnology, Zhejiang University, Hangzhou, China.

is an important plant pathogenic fungus that can severely damage rice and wheat crops, leading to significant reductions in crop productivity. To penetrate into and invade tissues of its plant host, this fungus relies on an invasive structure known as an appressorium. Appressorium formation is rigorously regulated by the cAMP-PKA and Pmk1 MAPK pathways. Here, we identified PoRal2, a homologous protein of Ral2, and characterized its roles in fungal development and virulence in . PoRal2 contains N-terminal kelch repeats and C-terminal BTB domains. PoRal2 is involved in sporulation, aerial hypha and conidiophore differentiation, appressorium formation, plant penetration, and virulence. During appressorium formation, ∆ mutants generate appressoria with long germ tubes on hydrophobic surfaces. ∆ mutants exhibited a defective response to exogenous cAMP and the activated on a hydrophilic surface, indicating impairment in the cAMP-PKA or Pmk1 MAPK signaling pathways. Deletion of leads to lowered Pmk1 phosphorylation level in the mutant. Moreover, PoRal2 is found to interact with Scd1, Smo1, and Mst50, which are involved in activation of Pmk1. In addition, the expression levels of , , and in the cAMP-PKA pathway, in both the cAMP-PKA and Pmk1 MAPK pathways, and melanin biosynthesis genes (, , and ) were significantly down-regulated in the ∆. Therefore, PoRal2 is involved in fungal development and virulence by its crosstalk in the cAMP-PKA and Pmk1 MAPK signaling pathways.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.3389/fpls.2021.702368DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8473790PMC
September 2021

The safety and efficacy of high-speed train transport for critical children: a retrospective propensity score matching cohort study.

Sci Rep 2021 Sep 29;11(1):19293. Epub 2021 Sep 29.

The Second School of Clinical Medicine, Southern Medical University, Guangzhou, China.

It is widely acknowledged that efficiency of pediatric critical care transport plays a vital role in treatment of critically-ill children. In developing countries, most critically-ill children were transported by ambulance, and a few by air, such as a helicopter or fixed airplane. High-speed train (HST) transport may be a potential choice for critically-ill children to a tertiary medical center for further therapy. This is a single-center, retrospective cohort study from June 01, 2016 to June 30, 2019. All the patients transported to the Pediatric Intensive Care Unit (PICU) of PLA general hospital were divided into two groups, HST group and ambulance group. The propensity score matching method was performed for the comparison between the two groups. Finally, a 2:1 patient matching was performed using the nearest-neighbor matching method without replacement. The primary outcome was hospital mortality. Secondary outcomes included duration of transport, transport cost, hospital stay, and hospitalization cost. A total of 509 critically-ill children were transported and admitted. Of them, 40 patients were transported by HST, and 469 by ambulance. The hospital mortality showed no difference between the two groups (p > 0.05). The transport distance in the HST group was longer than that in the ambulance group (1894.5 ± 907.09 vs. 902.66 ± 735.74, p < 0.001). However, compared to the HST group, the duration of transport time by ambulance was significantly longer (p < 0.001). No difference in vital signs, blood gas analysis, and critical illness score between groups at admission was noted (p > 0.05). There was no death during the transport. There was no difference between groups regarding the transport cost, hospital stays, and hospitalization cost (p > 0.05). High-quality tertiary medical centers are usually located in megacities. HST transport network for critically-ill children could be established to cover most regions of the country. Without increasing financial burden, HST medical transport can be a potentially promising option to improve the outcomes of critically-ill children in developing countries with developed HST network.Clinical Trial Registration: This study was registered at http://www.chictr.org.cn/index.aspx (chiCTR.gov; Identifier: ChiCTR2000032306).
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41598-021-98944-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8481249PMC
September 2021

Surface Enhanced Raman Scattering Revealed by Interfacial Charge-Transfer Transitions.

Innovation (N Y) 2020 Nov 13;1(3):100051. Epub 2020 Oct 13.

Key Lab of Nanodevices and Applications, Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences (CAS), Suzhou 215123, China.

Surface enhanced Raman scattering (SERS) is a fingerprint spectral technique whose performance is highly dependent on the physicochemical properties of the substrate materials. In addition to the traditional plasmonic metal substrates that feature prominent electromagnetic enhancements, boosted SERS activities have been reported recently for various categories of non-metal materials, including graphene, MXenes, transition-metal chalcogens/oxides, and conjugated organic molecules. Although the structural compositions of these semiconducting substrates vary, chemical enhancements induced by interfacial charge transfer are often the major contributors to the overall SERS behavior, which is distinct from that of the traditional SERS based on plasmonic metals. Regarding charge-transfer-induced SERS enhancements, this short review introduces the basic concepts underlying the SERS enhancements, the most recent semiconducting substrates that use novel manipulation strategies, and the extended applications of these versatile substrates.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.xinn.2020.100051DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8454671PMC
November 2020

Generative Models for De Novo Drug Design.

J Med Chem 2021 Oct 17;64(19):14011-14027. Epub 2021 Sep 17.

Drug Discovery and Design Center, State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 555 Zuchongzhi Road, Shanghai 201203, China.

Artificial intelligence (AI) is booming. Among various AI approaches, generative models have received much attention in recent years. Inspired by these successes, researchers are now applying generative model techniques to de novo drug design, which has been considered as the "holy grail" of drug discovery. In this Perspective, we first focus on describing models such as recurrent neural network, autoencoder, generative adversarial network, transformer, and hybrid models with reinforcement learning. Next, we summarize the applications of generative models to drug design, including generating various compounds to expand the compound library and designing compounds with specific properties, and we also list a few publicly available molecular design tools based on generative models which can be used directly to generate molecules. In addition, we also introduce current benchmarks and metrics frequently used for generative models. Finally, we discuss the challenges and prospects of using generative models to aid drug design.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1021/acs.jmedchem.1c00927DOI Listing
October 2021

Fabrication of a honeycomb-like bimetallic SERS substrate for the detection of triphenyltin chloride.

Analyst 2021 Oct 11;146(20):6170-6177. Epub 2021 Oct 11.

Chongqing Institute of Green and Intelligent Technology, Chinese Academy of Sciences, Chongqing 400714, P. R. China.

Triphenyltin chloride (TPhT) is an organotin compound that causes intensive toxicological risk to the environment and humans. A detection method with high sensitivity and stability is therefore desired to better detect TPhT. In this study, a novel SERS substrate was prepared by sputtering an ultra-thin Au layer on a honeycomb-like silver nanoarray fabricated the nanosphere lithography method. The ultra-thin Au layer was formed by sputtering the intermittent Au nanoparticles on the silver nanoarray, resulting in bimetallic coupling with dramatically increased hotspots and extremely high SERS enhancement with an analytical enhancement factor (AEF) of 6.08 × 10 using Rhodamine 6G (R6G) as the probe molecule. Based on density functional theory (DFT) simulations, the Raman characteristic peaks of TPhT at 999 cm and 655 cm were selected for TPhT detection. The AEF of the SERS substrate HC5-AgAu was calculated to be 3.38 × 10 with the detection concentration of TPhT down to 10 M. The as-prepared honeycomb-like silver-gold bimetallic SERS substrate demonstrated great stability and sensitivity for TPhT detection, which might also be applied in monitoring many other environmental pollutants.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1039/d1an01359aDOI Listing
October 2021

Assessment of event-related evoked potentials and China-Wechsler intelligence scale for cognitive dysfunction in children with obstructive sleep apnea.

Int J Pediatr Otorhinolaryngol 2021 Aug 24;150:110901. Epub 2021 Aug 24.

Department of Otorhinolaryngology Head and Neck Surgery, The Second Affiliated Hospital of Xi'an Jiaotong University, Xi'an, Shaanxi, China. Electronic address:

Objective: To explore the relationship between obstructive sleep apnea (OSA) and cognitive impairment by combining event-related evoked potentials (ERPs) and China-Wechsler Younger Children Scale (C-WISC) in children with sleep-disordered breathing (SDB) with vs. without OSA.

Methods: This was a retrospective case-control study of all consecutive children (n = 148) with adenoid tonsil hypertrophy between July 2017 and March 2019 at the Hospital.

Results: The children were divided into the OSA (n = 102) and non-OSA (n = 46) groups. The apnea-hypopnea index (AHI), obstructive apnea index (OAI), and obstructive apnea-hypopnea index (OAHI) in the OSA group were elevated compared with those of the non-OSA group (all P < 0.001). The mean oxygen saturation (SaO) and SaO nadir were lower in the OSA group compared with the non-OSA group (both P < 0.001). The respiratory arousal index (RAI) values in the OSA group were larger than those of the non-OSA group (P < 0.001). The P300 and N100 latencies in the OSA group were longer than those of the non-OSA group (both P < 0.001). Pearson's correlation analysis revealed correlations of the P300 peak latency with full-scale intelligence quotient (FIQ) (P < 0.001 and r = -0.527), verbal intelligence quotient (VIQ) (P < 0.001 and r = -0.448), and performance intelligence quotient (PIQ) (P < 0.001 and r = -0.515). There was a correlation between the N100 peak latency and PIQ (P = 0.026 and r = -0.183).

Conclusion: ERPs, as an objective measurement, might help assess cognitive impairment in children with OSA.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ijporl.2021.110901DOI Listing
August 2021

The cognitive dysfunction related to Alzheimer disease or cerebral small vessel disease: What's the differences.

Medicine (Baltimore) 2021 Aug;100(34):e26967

School of Nursing, The second Military Medical Universtiy, Shanghaihai 2000433, China.

Abstract: Alzheimer disease (AD) and sporadic cerebral small vessel disease (CSVD) are common cognitive disorders. Both AD and CSVD have mental symptoms including chronic progressive cognitive impairment, dysfunction, and behavioral abnormalities. However, the differences on the cognitive dysfunction of AD and CSVD remain unclear. It is necessary to elucidate the cognitive dysfunction differences of AD and CSVD, and to identify the potential risk factors.AD or sporadic CSVD patients treated in our hospital from December 1, 2018 to May 31, 2019 were included. And we selected healthy participants as controls. The mini-mental state examination and Montreal Cognitive Assessment Scale were used for neuropsychological assessment, and related medical information were collected and compared.A total of 190 patients were included. The total mini-mental state examination scores in AD, CSVD group were significantly less than that of control group, there were significant differences in the domains of directional ability, attention and computing ability, delayed recall, and visual perception (all P < .05); the total Montreal Cognitive Assessment Scale scores in AD, CSVD group were significantly less than that of control group. There were significant differences in the domains of visual space and execution, immediate remember, attention and computing ability, language, delayed recall, and directional ability (all P < .05); diabetes was a risk factor both for AD (hazard ratio = 1.63, 95% confidence interval: 1.35-1.97) and CSVD (hazard ratio = 1.15, 95% confidence interval: 1.08-1.27).The cognitive dysfunctions of AD are difference to that of CSVD patients, and diabetes is the risk factor both for AD and CSVD, future studies are needed to further identify the prevention and treatment of AD and CSVD.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1097/MD.0000000000026967DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8389965PMC
August 2021

The Endophytic Fungus Piriformospora Indica-Assisted Alleviation of Cadmium in Tobacco.

J Fungi (Basel) 2021 Aug 20;7(8). Epub 2021 Aug 20.

Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.

Increasing evidence suggests that the endophytic fungus helps plants overcome various abiotic stresses, especially heavy metals. However, the mechanism of heavy metal tolerance has not yet been elucidated. Here, the role of in alleviating cadmium (Cd) toxicities in tobacco was investigated. It was found that improved Cd tolerance to tobacco, increasing Cd accumulation in roots but decreasing Cd accumulation in leaves. The colonization of altered the subcellular repartition of Cd, increasing the Cd proportion in cell walls while reducing the Cd proportion in membrane/organelle and soluble fractions. During Cd stress, significantly enhanced the peroxidase (POD) activity and glutathione (GSH) content in tobacco. The spatial distribution of GSH was further visualized by Raman spectroscopy, showing that GSH was distributed in the cortex of -inoculated roots while in the epidermis of the control roots. A LC-MS/MS-based label-free quantitative technique evaluated the differential proteomics of treatment vs. control plants under Cd stress. The expressions of peroxidase, glutathione synthase, and photosynthesis-related proteins were significantly upregulated. This study provided extensive evidence for how enhances Cd tolerance in tobacco at physiological, cytological, and protein levels.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.3390/jof7080675DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8398633PMC
August 2021

Previous mode of delivery affects subsequent pregnancy outcomes: a Chinese birth register study.

Ann Transl Med 2021 Jul;9(14):1135

Department of Obstetrics and Gynecology, The First Clinical Hospital Affiliated to Harbin Medical University, Harbin, China.

Background: With the comprehensive implementation of the second child policy in China, the proportion of multiparous women has increased dramatically in the past few years. As nearly half of them have a history of previous cesarean delivery, there is widespread concern regarding complications of their pregnancy.

Methods: The aim of this study was to evaluate the effect of the previous delivery mode on subsequent pregnancy outcomes in the real world based on data from a Chinese birth registry. Birth registry data from July 1, 2016 to June 30, 2017 among a Chinese population were collected and analyzed retrospectively. This study included 14 representative hospitals from 10 provinces of China. All delivery data were collected by an internet-based system using a birth registration platform. The study enrolled 36,355 multiparas. Information extracted for analysis included basic demographic characteristics, previous delivery mode, current delivery mode, major maternal complications, and neonatal outcomes. Pregnancy outcomes of women with previous cesarean delivery (PCS group, n=14,774) were compared with the outcomes of women with previous vaginal delivery (PVD group, n=21,581).

Results: There were statistically significant differences in the major pregnancy outcomes between the PCS group and the PVD group. The PCS group had a higher incidence of cesarean section (CS), placenta previa, postpartum hemorrhage, uterus rupture, hysterectomy, gestational diabetes, gestational hypertension, delivery before 37 weeks of gestation, low birth weight, and Apgar Score at 5 min ≤3.

Conclusions: Women with previous cesarean delivery had poorer pregnancy outcomes than women with previous vaginal delivery. Avoiding unnecessary CS, especially in primiparas is essential to improving maternal and neonatal outcomes in later pregnancies.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.21037/atm-20-8127DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8350719PMC
July 2021

Influenza A virus infects pulmonary microvascular endothelial cells leading to microvascular leakage and release of pro-inflammatory cytokines.

PeerJ 2021 3;9:e11892. Epub 2021 Aug 3.

Clinical Lab, The First Affiliated Hospital of Guangzhou University of Chinese Medicine, Guangzhou, Guangdong, China.

Objective: To investigate the replication of influenza A virus A/Puerto Rico/8/34 (H1N1) in pulmonary microvascular endothelial cells and its effect on endothelial barrier function.

Methods: Human pulmonary microvascular endothelial cells were infected with influenza A/Puerto Rico/8/34 (H1N1) virus. Plaque reduction assay, real-time quantitative PCR, immunofluorescence staining, and western blot were used to elucidate the replication process of virus-infected endothelial cells. In addition, real-time quantitative PCR was used to detect the relative expression levels of mRNA of some inflammatory factors. The endothelial resistance assay was used to determine the permeability of the endothelial monolayer. Excavation and analysis of data from open databases, such as the GeneCards database, DAVID Bioinformatics Resources, STRING search tool, and DGIdb database determined the genes, proteins, and signal pathways related to microvascular leakage caused by the H1N1 virus, and predicted the drugs that could be effective for treatment.

Results: experiments showed that the influenza virus can infect endothelial cells, leading to a significant increase in the permeability of pulmonary microvascular endothelial cells and the release of pro-inflammatory cytokines, but does not efficiently replicate in endothelial cells. A total of 107 disease-related target genes were obtained from the Gene-cards database. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis showed that these genes mainly affected the pathways related to "Inflammatory bowel disease" (IBD), "Chagas disease" (American trypanosomiasis), "Influenza A", and also played a key role in anti-inflammation and regulation of immunity. After enrichment analysis, 46 hub genes were screened. A total of 42 FDA-approved drugs corresponding to the hub genes were screened from the DGIdb database, and these could be formulated for topical application. In addition, these drugs can be used to treat other diseases, including cancer, inflammatory diseases, immune system disorders, and cardiovascular diseases.

Conclusion: H1N1 influenza virus affects the barrier function of endothelial cells indirectly. Combined with bioinformatics tools, we can better understand the possible mechanism of action of influenza A (H1N1) virus causing pulmonary microvascular leakage and provide new clues for the treatment of pulmonary microvascular leakage.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.7717/peerj.11892DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8344683PMC
August 2021

Isolation of a Virulent subsp. Bacteriophage and Its Application in Phage Therapy in Turbot ().

Appl Environ Microbiol 2021 Oct 18;87(21):e0146821. Epub 2021 Aug 18.

State Key Laboratory of Bioreactor Engineering, East China University of Science and Technologygrid.28056.39, Shanghai, China.

Aeromonas salmonicida is an aquatic pathogen that can infect a variety of fish. Phage therapy has been applied to treat bacterial infections. In this study, we obtained three subsp. phage isolates from sewage, and one phage (vB_AsM_ZHF) exhibited the best antibacterial effect, based on kinetics experiments. Sequencing indicated that the vB_AsM_ZHF genome is 161,887 bp (41.24% C+G content) with 237 predicted open reading frames. No antibiotic resistance or virulence genes were detected in the complete genome, which is a requirement for phage therapy safety. Intraperitoneal injection of phage vB_AsM_ZHF into turbot at 8 × 10 PFU/fish rescued turbot from subsp. injection and reduced the bacterial burden by 1 order of magnitude. Injection of vB_AsM_ZHF also decreased levels of inflammatory cell infiltration in muscle tissue, cytokines interleukin-1β (IL-1β), tumor necrosis factor alpha (TNF-α), and gamma interferon (IFN-γ) in serum and the expression of the inflammatory factors IL-1β, IL-6, IFN-γ, transforming growth factor β, TNF-α, and hepcidin in the liver, spleen, and head kidney of turbot. Phage vB_AsM_ZHF demonstrated antibacterial ability and and significantly reduced mortality in turbot challenged by subsp. . This study revealed that phage vB_AsM_ZHF can effectively treat the infection caused by subsp. in turbot. is an aquatic pathogen that can infect different fish and causes economic loss to the global aquaculture industry. Clinical strains of have developed multidrug resistance, and phage therapy is being evaluated for controlling bacterial infections. Phages are biological antibacterial agents and have the potential to be therapeutic agents against multidrug-resistant bacteria. In this study, three subsp. phages were isolated from sewage, and their biological behaviors were characterized. The newly isolated phage vB_AsM_ZHF could inhibit subsp. infection and , suggesting that it may be an alternative strategy to antibiotics for protecting fish against multidrug-resistant subsp. in the aquaculture industry.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1128/AEM.01468-21DOI Listing
October 2021

A novel RNA binding protein-associated prognostic model to predict overall survival in hepatocellular carcinoma patients.

Medicine (Baltimore) 2021 Jul;100(29):e26491

Department of Hepatobiliary and Pancreatic, The First Affiliated Hospital of Yangtze University, Jingzhou, Hubei, China.

Abstract: Hepatocellular carcinoma (HCC) is 1 of the deadliest malignancies worldwide. Despite significant advances in diagnosis and treatment, the mortality rate from HCC persists at a substantial level. Construction of a prognostic model that can reliably predict HCC patients' overall survival is urgently needed.Two RNA-seq dataset (the Cancer Genome Atlas and International Cancer Genome Consortium) and 1 microarray dataset (GSE14520) were included in our study. RNA-binding proteins (RBPs) in HCC patients was examined by differentially expressed genes analysis, functional enrichment analysis and protein-protein interaction network analysis. Subsequently, the Cancer Genome Atlas dataset was randomly divided into training and testing cohort with a prognostic model developed in the training cohort. In order to evaluate the prognostic value of the model, a comprehensive survival assessment was conducted.Five RBPs (ribosomal protein L10-like, enhancer of zeste homolog 2 (EZH2), peroxisome proliferator-activated receptor gamma coactivator 1 alpha (PPARGC1A), zinc finger protein 239, interferon-induced protein with tetratricopeptide repeats 1) were used to construct the model. The model accurately predicted the prognosis of liver cancer patients in both the training cohort and validation cohort. HCC patients could be assigned into a high-risk group and a low-risk group by this model, and the overall survival of these 2 groups was significantly different (P  < .05). Furthermore, the risk scores obtained by this model were highly correlated with immune cell infiltration.The prognostic model helps to identify HCC patients at high risk of mortality, which optimizes decision-making for individualized treatment.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1097/MD.0000000000026491DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8294901PMC
July 2021

Identification of COVID-19 and Dengue Host Factor Interaction Networks Based on Integrative Bioinformatics Analyses.

Front Immunol 2021 28;12:707287. Epub 2021 Jul 28.

The First Affiliated Hospital of Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, China.

Background: The outbreak of Coronavirus disease 2019 (COVID-19) has become an international public health crisis, and the number of cases with dengue co-infection has raised concerns. Unfortunately, treatment options are currently limited or even unavailable. Thus, the aim of our study was to explore the underlying mechanisms and identify potential therapeutic targets for co-infection.

Methods: To further understand the mechanisms underlying co-infection, we used a series of bioinformatics analyses to build host factor interaction networks and elucidate biological process and molecular function categories, pathway activity, tissue-specific enrichment, and potential therapeutic agents.

Results: We explored the pathologic mechanisms of COVID-19 and dengue co-infection, including predisposing genes, significant pathways, biological functions, and possible drugs for intervention. In total, 460 shared host factors were collected; among them, CCL4 and AhR targets were important. To further analyze biological functions, we created a protein-protein interaction (PPI) network and performed Molecular Complex Detection (MCODE) analysis. In addition, common signaling pathways were acquired, and the toll-like receptor and NOD-like receptor signaling pathways exerted a significant effect on the interaction. Upregulated genes were identified based on the activity score of dysregulated genes, such as IL-1, Hippo, and TNF-α. We also conducted tissue-specific enrichment analysis and found ICAM-1 and CCL2 to be highly expressed in the lung. Finally, candidate drugs were screened, including resveratrol, genistein, and dexamethasone.

Conclusions: This study probes host factor interaction networks for COVID-19 and dengue and provides potential drugs for clinical practice. Although the findings need to be verified, they contribute to the treatment of co-infection and the management of respiratory disease.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.3389/fimmu.2021.707287DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8356054PMC
August 2021

Explainable Dynamic Multimodal Variational Autoencoder for the Prediction of Patients with Suspected Central Precocious Puberty.

IEEE J Biomed Health Inform 2021 Aug 13;PP. Epub 2021 Aug 13.

Central precocious puberty (CPP) is the most common type of precocious puberty and has a significant effect on children. A gonadotropin-releasing hormone (GnRH)-stimulation test is the gold standard for confirming CPP. This test, however, is costly and unpleasant for patients. Therefore, it is critical to developing alternative methods for CPP diagnosis in order to alleviate patient suffering. This study aims to develop an artificial intelligence (AI) diagnostic system for predicting response to the GnRH-stimulation test using data from laboratory tests, electronic health records (EHRs), and pelvic ultrasonography and left-hand radiography reports. The challenges are in integrating these mul-timodal features into a comprehensive deep learning model in order to achieve an accurate diagnosis while also accounting for the missing or incomplete modalities. To begin, we developed a dynamic multimodal variational autoencoder (DMVAE) that can exploit intrinsic correlations between different modalities to im-pute features for missing modalities. Next, we combined features from all modalities to predict the outcome of a CPP diagnosis. The experimental results (AUROC 0.9086) demonstrate that our DMVAE model is superior to standard methods. Additionally, we showed that by setting appropriate operating thresholds, clinicians could diagnose about two-thirds of patients with confidence (1.0 specificity). Only about one-third of patients require confirmation of their diagnoses using GnRH (or GnRH analog)-stimulation tests. To interpret the results, we implemented an explainer Shapley additive explanation (SHAP) to analyze the local and global feature attributions.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1109/JBHI.2021.3103271DOI Listing
August 2021

A non-printed integrated-circuit textile for wireless theranostics.

Nat Commun 2021 08 12;12(1):4876. Epub 2021 Aug 12.

College of Chemistry and Chemical Engineering, Chongqing University, Chongqing, China.

While the printed circuit board (PCB) has been widely considered as the building block of integrated electronics, the world is switching to pursue new ways of merging integrated electronic circuits with textiles to create flexible and wearable devices. Herein, as an alternative for PCB, we described a non-printed integrated-circuit textile (NIT) for biomedical and theranostic application via a weaving method. All the devices are built as fibers or interlaced nodes and woven into a deformable textile integrated circuit. Built on an electrochemical gating principle, the fiber-woven-type transistors exhibit superior bending or stretching robustness, and were woven as a textile logical computing module to distinguish different emergencies. A fiber-type sweat sensor was woven with strain and light sensors fibers for simultaneously monitoring body health and the environment. With a photo-rechargeable energy textile based on a detailed power consumption analysis, the woven circuit textile is completely self-powered and capable of both wireless biomedical monitoring and early warning. The NIT could be used as a 24/7 private AI "nurse" for routine healthcare, diabetes monitoring, or emergencies such as hypoglycemia, metabolic alkalosis, and even COVID-19 patient care, a potential future on-body AI hardware and possibly a forerunner to fabric-like computers.
View Article and Find Full Text PDF

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41467-021-25075-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8361012PMC
August 2021
-->