Publications by authors named "He Huang"

2,134 Publications

  • Page 1 of 1

Fast Ion Transport Mechanism and Electrochemical Stability of Trivalent Metal Iodide-based Na Superionic Conductors NaXI (X = Sc, Y, La, and In).

ACS Appl Mater Interfaces 2022 Aug 8. Epub 2022 Aug 8.

Beijing Advanced Innovation Center for Materials Genome Engineering, School of Materials Science and Engineering, University of Science and Technology Beijing, Beijing 100083, China.

The exploration of solid-state sodium superionic conductors with high sodium-ion conductivity, structural and electrochemical stability, and grand interface compatibility has become the key to the next-generation energy storage applications with high energy density and long cycling life. Among them, halide-based compounds exhibit great potential with the higher electronegativity of halogens than that of the sulfur element. In this work, combined with first-principles calculation and ab initio molecular dynamic simulation, the investigation of trivalent metal iodide-based Na superionic conductors 2/-NaXI (X = Sc, Y, La, and In) was conducted, including the fast ion transport mechanism, structural stability, and interface electrochemical compatibility with electrode materials. Along with the tetrahedral-center saddle site-predominant three-dimensional octahedral-tetrahedral-octahedral diffusion network, 2/-NaXI possesses the merits of high Na ionic conductivities of 0.36, 0.35, and 0.20 mS cm for NaScI, NaYI, and NaLaI, respectively. Benefiting from its structural stabilities, 2/-NaXI exhibits lower interface reaction energy and better electrochemical compatibility in contact with both Na metal and high-voltage poly-anion (fluoro)phosphate cathode materials than those of sulfide-based ones. Our theoretical work provides rational design principles for screening and guiding iodide-based 2/-NaXI (X = Sc, Y, La, and In) as promising Na superionic conductor candidates used in all-solid-state energy storage applications.
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http://dx.doi.org/10.1021/acsami.2c09814DOI Listing
August 2022

Early Diagnosis and Prediction of Death Risk in Patients with Sepsis by Combined Detection of Serum PCT, BNP, Lactic Acid, and Apache II Score.

Contrast Media Mol Imaging 2022 19;2022:8522842. Epub 2022 Jul 19.

Department of Critical Medicine, The Fourth Affiliated Hospital of Guangzhou Medical University, Guangzhou 511300, China.

In order to investigate the expression levels of procalcitonin (PCT), B-type brain natriuretic peptide (BNP), and lactic acid (Lac) in serum of patients with sepsis, a retrospective analysis is conducted. 80 sepsis patients admitted to the ICU of our hospital from January 2019 to June 2020 are selected, and the application value of these factors combined with Apache II score in early diagnosis and prediction of death risk is analyzed. All patients are classified into survival group ( = 57) and death group ( = 23), and examined by blood routine. Lac, PCT, and BNP, and the serum PCT, BNP, and Lac levels were compared between the nonsepsis group and the control group. Furthermore, Acute Physiology and Chronic Health Status scoring System II (Apache II) is applied to evaluate the score difference between the sepsis group and the control group. The ROC curve demonstrates that PCT, BNP, and Lac combined with Apache II score can obtain high value for early diagnosis of sepsis. Compared with nonsepsis patients, the scores of serum Lac, PCT, and BNP and Apache II are significantly higher in sepsis patients. It is clearly evident that the combined detection of those indicators is valuable for early diagnosis and prediction of death, and will be suitable for widespread clinical application.
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http://dx.doi.org/10.1155/2022/8522842DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9325350PMC
August 2022

Ultrasensitive SARS-CoV-2 diagnosis by CRISPR-based screen-printed carbon electrode.

Anal Chim Acta 2022 Aug 2;1221:340120. Epub 2022 Jul 2.

Zhejiang Laboratory, Hangzhou, 311100, PR China. Electronic address:

Early and accurate diagnosis of SARS-CoV-2 was crucial for COVID-19 control and urgently required ultra-sensitive and rapid detection methods. CRISPR-based detection systems have great potential for rapid SARS-CoV-2 detection, but detecting ultra-low viral loads remains technically challenging. Here, we report an ultrasensitive CRISPR/Cas12a-based electrochemical detection system with an electrochemical biosensor, dubbed CRISPR-SPCE, in which the CRISPR ssDNA reporter was immobilized onto a screen-printed carbon electrode. Electrochemical signals are detected due to CRISPR cleavage, giving enhanced detection sensitivity. CRISPR-SPCE enables ultrasensitive SARS-CoV-2 detection, reaching as few as 0.27 copies μL. Moreover, CRISPR-SPCE is also highly specific and inexpensive, providing a fast and simple SARS-CoV-2 assay.
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http://dx.doi.org/10.1016/j.aca.2022.340120DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9249825PMC
August 2022

Using Bacillus thuringiensis [email protected]@biochar beads to remediate Pb and Cd contaminated farmland soil.

Chemosphere 2022 Aug 2;307(Pt 2):135797. Epub 2022 Aug 2.

College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, 211800, People's Republic of China; State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing, 211800, People's Republic of China. Electronic address:

Cadmium (Cd) and lead (Pb) have become serious soil contaminants in China. In this work, we immobilized B. thuringiensis HM-311 (a heavy metal resistant strain) using vinegar residue biochar and hydroxyapatite (HAP) to form [email protected]@biochar calcium alginate beads. In aqueous solution, the beads respectively reduced 1000 mg/L Pb to 14.59 mg/L and 200 mg/L Cd to 5.40 mg/L within 20 h. Furthermore, the results of pot experiment showed that the [email protected]@biochar beads reduced the bioavailability of Pb and Cd in soil. The accumulation of Pb in rice decreased by 39.97% in shoots and 46.40% in roots, while that of Cd decreased by 34.59 and 44.9%, respectively. Similarly, the accumulation of Pb in corn decreased by 40.86% in shoots and 51.34% in roots, while that of Cd decreased by 41.28 and 42.91%, respectively. The beads also increased the microbial community diversity in the rhizosphere soil. These findings indicate that [email protected]@biochar beads may be applicable for the bioremediation of Cd- and Pb-contaminated farmland soil.
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http://dx.doi.org/10.1016/j.chemosphere.2022.135797DOI Listing
August 2022

Multifunctional fluorescent gold nanoclusters with enhanced aggregation-induced emissions (AIEs) and excellent antibacterial effect for bacterial imaging and wound healing.

Biomater Adv 2022 Jun 13;137:212841. Epub 2022 May 13.

College of Food Science and Light Industry, State Key Laboratory of Materials-Oriented Chemical Engineering, Nanjing Tech University, Nanjing 211816, China. Electronic address:

To explore new alternatives to combat increasing risk of bacterial infection, in this work, a cationic antimicrobial peptide (HHC10) and glutathione (GSH) co-ligand protected ultra-small gold nanoclusters (Au NCs) was constructed by a simple one-pot method. The intrinsic luminescent property of GSH-protected Au NCs (AuGSH) endowed enhanced aggregation-induced emissions (AIEs) of co-ligand-protected Au NCs (AuGSH-HHC10), which exhibited a very strong orange luminescence. Based on the AIE effect, for one thing, AuGSH could be applied to rapidly and selectively detect Gram-positive bacteria. For another, AuGSH-HHC10 exhibited potential for multicolor imaging of both Gram-negative and Gram-positive bacteria. Besides, as-synthesized AuGSH-HHC10 could act as potent nanoantibiotics against both Gram-negative and Gram-positive bacteria, which could not only avoid drug tolerance but also be effective toward drug-resistance bacteria. The antibacterial mechanism indicated that the synergetic effect of the generation of reactive oxygen species (ROS), binding with DNA, and broad-spectrum antibacterial activity of HHC10 led to the membrane damage, depolarization, and interference of biological function, thus enhancing the antibacterial effect. More importantly, such an Au NCs could realize excellent therapeutic outcomes for wound healing in vivo, and showed good biocompatibility and biosafety toward health tissues. The results will provide a great potential for the application of Au NCs for imaging-guided antibacterial platform.
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http://dx.doi.org/10.1016/j.bioadv.2022.212841DOI Listing
June 2022

Construction of a cross-species cell landscape at single-cell level.

Nucleic Acids Res 2022 Aug 5. Epub 2022 Aug 5.

Women's Hospital, and Institute of Genetics, Zhejiang University School of Medicine, Hangzhou 310058, China.

Individual cells are basic units of life. Despite extensive efforts to characterize the cellular heterogeneity of different organisms, cross-species comparisons of landscape dynamics have not been achieved. Here, we applied single-cell RNA sequencing (scRNA-seq) to map organism-level cell landscapes at multiple life stages for mice, zebrafish and Drosophila. By integrating the comprehensive dataset of > 2.6 million single cells, we constructed a cross-species cell landscape and identified signatures and common pathways that changed throughout the life span. We identified structural inflammation and mitochondrial dysfunction as the most common hallmarks of organism aging, and found that pharmacological activation of mitochondrial metabolism alleviated aging phenotypes in mice. The cross-species cell landscape with other published datasets were stored in an integrated online portal-Cell Landscape. Our work provides a valuable resource for studying lineage development, maturation and aging.
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http://dx.doi.org/10.1093/nar/gkac633DOI Listing
August 2022

Comprehensive Analysis of Prognostic Value and Immune Infiltration of Ficolin Family Members in Hepatocellular Carcinoma.

Front Genet 2022 19;13:913398. Epub 2022 Jul 19.

Department of Hepatobiliary Surgery, The Second Affiliated Hospital of Nanchang University, Nanchang, China.

Ficolin (FCN) family proteins are part of the innate immune system, play a role as recognition molecules in the complement system, and are associated with tumor development. The mechanism of its role in immunotherapy of hepatocellular carcinoma (HCC) is unclear. In this study, we used the TCGA database, HPA database, Gene Expression Profile Interaction Analysis (GEPIA), Kaplan-Meier plotter, TCGAportal, cBioPortal, GeneMANIA, TIMER, and TISIDB to analyze Ficolin family proteins (FCN1, FCN2 and FCN3, FCNs) in patients with hepatocellular carcinoma for differential expression, prognostic value, genetic alterations, functional enrichment, and immune factor correlation analysis. The expression levels of FCN1/2/3 were significantly reduced in patients with HCC. Among them, FCN3 showed significant correlation with Overall Survival (OS), Progressive Free Survival (PFS) and Relapse Free Survival (RFS) in HCC. FCN1 and FCN3 may be potential prognostic markers for survival in patients with HCC. In addition, the functions of differentially expressed FCNs were mainly related to complement activation, immune response, apoptotic cell clearance and phagocytosis. FCNs were found to be significantly correlated with multiple immune cells and immune factors. Expression of FCN1 and FCN3 differed significantly in the immune and stromal cell component scores of HCC. analysis of the tumor mutation burden (TMB) and microsatellite instability (MSI) of FCNs with pan-cancer showed that FCN3 was significantly correlated with both. Our study provides new insights into the link between the FCN family and immunotherapy for HCC, and FCN3 may serve as a prognostic biomarker for HCC.
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http://dx.doi.org/10.3389/fgene.2022.913398DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9343789PMC
July 2022

Deficiency of WTAP in hepatocytes induces lipoatrophy and non-alcoholic steatohepatitis (NASH).

Nat Commun 2022 Aug 4;13(1):4549. Epub 2022 Aug 4.

HIT Center for Life Sciences, School of Life Science and Technology, Harbin Institute of Technology, Harbin, 150001, China.

Ectopic lipid accumulation and inflammation are the essential signs of NASH. However, the molecular mechanisms of ectopic lipid accumulation and inflammation during NASH progression are not fully understood. Here we reported that hepatic Wilms' tumor 1-associating protein (WTAP) is a key integrative regulator of ectopic lipid accumulation and inflammation during NASH progression. Hepatic deletion of Wtap leads to NASH due to the increased lipolysis in white adipose tissue, enhanced hepatic free fatty acids uptake and induced inflammation, all of which are mediated by IGFBP1, CD36 and cytochemokines such as CCL2, respectively. WTAP binds to specific DNA motifs which are enriched in the promoters and suppresses gene expression (e.g., Igfbp1, Cd36 and Ccl2) with the involvement of HDAC1. In NASH, WTAP is tranlocated from nucleus to cytosol, which is related to CDK9-mediated phosphorylation. These data uncover a mechanism by which hepatic WTAP regulates ectopic lipid accumulation and inflammation during NASH progression.
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http://dx.doi.org/10.1038/s41467-022-32163-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9352699PMC
August 2022

Modeling spatial interaction networks of the gut microbiota.

Gut Microbes 2022 Jan-Dec;14(1):2106103

Center for Statistical Genetics, Departments of Public Health Sciences and Statistics, The Pennsylvania State University, Hershey, PA, USA.

How the gut microbiota is organized across space is postulated to influence microbial succession and its mutualistic relationships with the host. The lack of dynamic or perturbed abundance data poses considerable challenges for characterizing the spatial pattern of microbial interactions. We integrate allometric scaling theory, evolutionary game theory, and prey-predator theory into a unified framework under which quasi-dynamic microbial networks can be inferred from static abundance data. We illustrate that such networks can capture the full properties of microbial interactions, including causality, the sign of the causality, strength, and feedback loop, and are dynamically adaptive along spatial gradients, and context-specific, characterizing variability between individuals and within the same individual across time and space. We design and conduct a gut microbiota study to validate the model, characterizing key spatial determinants of the microbial differences between ulcerative colitis and healthy controls. Our model provides a sophisticated means of unraveling a complete atlas of how microbial interactions vary across space and quantifying causal relationships between such spatial variability and change in health state.
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http://dx.doi.org/10.1080/19490976.2022.2106103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9351588PMC
August 2022

SYK Is Associated With Malignant Phenotype and Immune Checkpoints in Diffuse Glioma.

Front Genet 2022 15;13:899883. Epub 2022 Jul 15.

Department of Neurosurgery, Xiangya Hospital, Central South University, Changsha, China.

Diffuse glioma, the most common intracranial malignant tumor, is characterized by immunosuppression. The prognostic significance and potential therapeutic value of SYK remain obscure. Here, we explored the performance of SYK in predicting patient outcomes and as a therapeutic target. The mRNA expression and clinical data for pancancer and normal tissues and more than 2,000 glioma samples were collected from public databases. The expression level of SYK was evaluated by qPCR and IHC. The prognostic value of SYK was assessed using the Kaplan-Meier curves and univariate and multivariate Cox regression analyses. A sequence of immune and stromal infiltration analyses was calculated based on the ESTIMATE algorithm, ssGSEA algorithm, TIMER, and single-cell analysis. The SYK-related subtypes were identified a Consensus Cluster Plus analysis. SYK was significantly differentially expressed in multiple tumors and normal tissues. Importantly, high-expression SYK was enriched in malignant phenotypes of diffuse gliomas, which was further validated by qPCR and IHC. Survival analysis uncovered that SYK was an independently unfavorable prognostic marker in diffuse glioma. Functional enrichment analysis and immune and stromal infiltration analyses showed that SYK was involved in shaping the immunosuppressive microenvironment of diffuse glioma. Additionally, SYK expression was closely associated with some immune checkpoint molecules and M2 macrophage infiltration, which was validated by IHC and single-cell analysis. Diffuse glioma with Sub1 exhibited a worse prognosis, immunosuppressive microenvironment, and higher expression of immune checkpoint genes. SYK is involved in shaping the immunosuppressive microenvironment and served as a promising prognosis biomarker and immunotherapeutic target for diffuse glioma.
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http://dx.doi.org/10.3389/fgene.2022.899883DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9334658PMC
July 2022

Analysis of Competitive Endogenous Mechanism and Survival Prognosis of Serum Exosomes in Ovarian Cancer Patients Based on Sequencing Technology and Bioinformatics.

Front Genet 2022 30;13:850089. Epub 2022 Jun 30.

Department of Histology and Embryology, School of Basic Medical Sciences, Xinjiang Medical University, Urumqi, China.

We determined the competitive endogenous in serum exosomes of ovarian cancer patients sequencing technology and raw signal analysis. We performed an in-depth study of the potential mechanisms of ovarian cancer, predicted potential therapeutic targets and performed survival analysis of the potential targets. Serum exosomes from three ovarian cancer patients were used as the experimental group, serum exosomes from three patients with uterine fibroids were used as the control group, and whole transcriptome analysis of serum exosomes was performed to identify differentially expressed long noncoding RNAs (lncRNAs) and mRNAs in ovarian cancer. The miRcode database and miRNA target gene prediction website were used to predict the target genes. Cytoscape software was used to generate a competing endogenous RNA (ceRNA) network of competitive endogenous mechanism of serum exosomes in ovarian cancer, and the R language was used for Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses of the target genes. Finally, the TCGA website was used to download clinical and expression data related to ovarian cancer, and the common potential target genes obtained previously were analyzed for survival. A total of 117 differentially expressed lncRNAs as well as 513 differentially expressed mRNAs ( < 0.05, |log2 fold change (FC)|≥ 1.0) were obtained by combining sequencing data and raw signal analysis, and 841 predicted target genes were reciprocally mapped by combining the data from the miRcode database and miRNA target gene prediction website, resulting in 11 potential target genes related to ovarian cancer (FGFR3, BMPR1B, TRIM29, FBN2, PAPPA, CCDC58, IGSF3, FBXO10, GPAM, HOXA10, and LHFPL4). Survival analysis of the above 11 target genes revealed that the survival curve was statistically significant ( < 0.05) for HOXA10 but not for the other genes. Through enrichment analysis, we found that the above target genes were mainly involved in biological processes such as regulation of transmembrane receptor protein kinase activity, structural molecule activity with elasticity, transforming growth factor-activated receptor activity, and GABA receptor binding and were mainly enriched in signaling pathways regulating stem cell pluripotency, bladder cancer, glycerolipid metabolism, central carbon metabolism of cancer, and tyrosine stimulation to EGFR in signaling pathways such as resistance to enzyme inhibitors. The serum exosomal DIO3OS-hsa-miR-27a-3p-HOXA10 competitive endogenous signaling axis affects ovarian cancer development and disease survival by targeting dysregulated transcriptional pathways in cancer.
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http://dx.doi.org/10.3389/fgene.2022.850089DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9337233PMC
June 2022

Construction of a lncRNA-mRNA Co-Expression Network for Nasopharyngeal Carcinoma.

Front Oncol 2022 7;12:809760. Epub 2022 Jul 7.

Department of Histology and Embryology, Xiangya School of Medicine, Central South University, Changsha, China.

Long non-coding RNAs (lncRNAs) widely regulate gene expression and play important roles in the pathogenesis of human diseases, including malignant tumors. However, the functions of most lncRNAs remain to be elucidated. In order to study and screen novel lncRNAs with important functions in the carcinogenesis of nasopharyngeal carcinoma (NPC), we constructed a lncRNA expression profile of 10 NPC tissues and 6 controls through a gene microarray. We identified 1,276 lncRNAs, of which most are unknown, with different expression levels in the healthy and NPC tissues. In order to shed light on the functions of these unknown lncRNAs, we first constructed a co-expression network of lncRNAs and mRNAs using bioinformatics and systematic biological approach. Moreover, mRNAs were clustered and enriched by their biological functions, and those lncRNAs have similar expression trends with mRNAs were defined as functional molecules with potential biological significance. The module may help identify key lncRNAs in the carcinogenesis of NPC and provide clues for in-depth study of their functions and associated signaling pathways. We suggest the newly identified lncRNAs may have clinic value as biomarkers and therapeutic targets for NPC diagnosis and treatment.
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http://dx.doi.org/10.3389/fonc.2022.809760DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9302896PMC
July 2022

Analysis of the Genomic Sequence of Allele Using Next-Generation Sequencing Method.

Front Immunol 2022 6;13:814263. Epub 2022 Jul 6.

Bone Marrow Transplantation Center, The First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, China.

Background: Although many molecular diagnostic methods have been used for genotyping, there are few reports on the full-length genomic sequence analysis of the gene. Recently, next-generation sequencing (NGS) has been shown to provide fast and high-throughput results and is widely used in the clinical laboratory. Here, we established an NGS method for analyzing the sequence of the start codon to the stop codon in the gene.

Study Design And Methods: Two pairs of primers covering the partial 5'-untranslated region (UTR) to 3'-UTR of the gene were designed. The sequences covering from the start codon to the stop codon of the gene were amplified using these primers, and an NGS method based on the overlap amplicon was developed. A total of 110 individuals, including 88 blood donors with normal phenotypes and 22 ABO subtypes, were recruited and analyzed. All these specimens were first detected by serological tests and then determined by polymerase chain reaction sequence-based typing (PCR-SBT) and NGS. The sequences, including all the intron regions for the specimens, were analyzed by bioinformatics software.

Results: Among the 88 blood donors with a normal phenotype, 48 homozygous individuals, 39 heterozygous individuals, and one individual with a novel allele were found according to the results of the PCR-SBT method. Some single-nucleotide variants (SNV) in intronic regions were found to be specific for different alleles from 48 homozygous individuals using the NGS method. Sequences in the coding region of all specimens using the NGS method were the same as those of the PCR-SBT method. Three intronic SNVs were found to be associated with the ABO subtypes, including one novel intronic SNV (c.28+5956T>A). Moreover, six specimens were found to exhibit DNA recombination.

Conclusion: An NGS method was established to analyze the sequence from the start codon to the stop codon of the gene. Two novel alleles were identified, and DNA recombination was found to exist in the alleles.
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http://dx.doi.org/10.3389/fimmu.2022.814263DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9298404PMC
July 2022

Mechanisms of immune effector cell-associated neurotoxicity syndrome after CAR-T treatment.

WIREs Mech Dis 2022 Jul 24:e1576. Epub 2022 Jul 24.

Bone Marrow Transplantation Center, the First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, 310003, China.

Chimeric antigen receptor T-cell (CAR-T) treatment has revolutionized the landscape of cancer therapy with significant efficacy on hematologic malignancy, especially in relapsed and refractory B cell malignancies. However, unexpected serious toxicities such as cytokine release syndrome (CRS) and immune effector cell-associated neurotoxicity syndrome (ICANS) still hamper its broad application. Clinical trials using CAR-T cells targeting specific antigens on tumor cell surface have provided valuable information about the characteristics of ICANS. With unclear mechanism of ICANS after CAR-T treatment, unremitting efforts have been devoted to further exploration. Clinical findings from patients with ICANS strongly indicated existence of overactivated peripheral immune response followed by endothelial activation-induced blood-brain barrier (BBB) dysfunction, which triggers subsequent central nervous system (CNS) inflammation and neurotoxicity. Several animal models have been built but failed to fully replicate the whole spectrum of ICANS in human. Hopefully, novel and powerful technologies like single-cell analysis may help decipher the precise cellular response within CNS from a different perspective when ICANS happens. Moreover, multidisciplinary cooperation among the subjects of immunology, hematology, and neurology will facilitate better understanding about the complex immune interaction between the peripheral, protective barriers, and CNS in ICANS. This review elaborates recent findings about ICANS after CAR-T treatment from bed to bench, and discusses the potential cellular and molecular mechanisms that may promote effective management in the future. This article is categorized under: Cancer > Biomedical Engineering Immune System Diseases > Molecular and Cellular Physiology Neurological Diseases > Molecular and Cellular Physiology.
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http://dx.doi.org/10.1002/wsbm.1576DOI Listing
July 2022

Poyang and Dongting Lakes, Yangtze River: tributary lakes blocked by main-stem aggradation.

Proc Natl Acad Sci U S A 2022 Jul 11;119(30):e2101384119. Epub 2022 Jul 11.

State Key Laboratory of Hydroscience and Engineering, Department of Hydraulic Engineering, Tsinghua University, Beijing 100084, China.

During its 6,300-km course from the Tibetan Plateau to the ocean, the Yangtze River is joined by two large lakes: Dongting Lake and Poyang Lake. We explain why these lakes exist. Deglaciation forced the ocean adjacent to the Yangtze mouth to rise ∼120 m. This forced a wave of rising water surface elevation and concomitant bed aggradation upstream. While aggradation attenuated upstream, the low bed slope of the Middle-Lower Yangtze River (∼2 × 10 near Wuhan) made it susceptible to sea level rise. The main stem, sourced at 5,054 m above sea level, had a substantial sediment load to "fight" against water surface level rise by means of bed aggradation. The tributaries of the Middle-Lower Yangtze have reliefs of approximately hundreds of meters, and did not have enough sediment supply to fill the tributary accommodation space created by main-stem aggradation. We show that the resulting tributary blockage likely gave rise to the lakes. We justify this using field data and numerical modeling, and derive a dimensionless number capturing the critical rate of water surface rise for blockage versus nonblockage.
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http://dx.doi.org/10.1073/pnas.2101384119DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9335185PMC
July 2022

Re-burying Artificially Exposed Surface of Viral Subunit Vaccines Through Oligomerization Enhances Vaccine Efficacy.

Front Cell Infect Microbiol 2022 29;12:927674. Epub 2022 Jun 29.

State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing, China.

Viral subunit vaccines often suffer low efficacy. We recently showed that when taken out of the context of whole virus particles, recombinant subunit vaccines contain artificially exposed surface regions that are non-neutralizing and reduce their efficacy, and thus these regions need to be re-buried in vaccine design. Here we used the envelope protein domain III (EDIII) of Japanese encephalitis virus (JEV), a subunit vaccine candidate, to further validate this important concept for subunit vaccine designs. We constructed monomeric EDIII, dimeric EDIII a linear space, dimeric EDIII an Fc tag, and trimeric EDIII a foldon tag. Compared to monomeric EDIII or linearly linked dimeric EDIII, tightly packed EDIII oligomers the Fc or foldon tag induce higher neutralizing antibody titers in mice and also protect mice more effectively from lethal JEV challenge. Structural analyses demonstrate that part of the artificially exposed surface areas on recombinant EDIII becomes re-buried in Fc or foldon-mediated oligomers. This study further establishes the artificially exposed surfaces as an intrinsic limitation of subunit vaccines, and suggests that re-burying these surfaces through tightly packed oligomerization is a convenient and effective approach to overcome this limitation.
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http://dx.doi.org/10.3389/fcimb.2022.927674DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9278648PMC
July 2022

SARS-CoV-2 Achieves Immune Escape by Destroying Mitochondrial Quality: Comprehensive Analysis of the Cellular Landscapes of Lung and Blood Specimens From Patients With COVID-19.

Front Immunol 2022 1;13:946731. Epub 2022 Jul 1.

Department of Anesthesiology, The Second Affiliated Hospital of Chongqing Medical University, Chongqing, China.

Mitochondria get caught in the crossfire of coronavirus disease 2019 (COVID-19) and antiviral immunity. The mitochondria-mediated antiviral immunity represents the host's first line of defense against viral infection, and the mitochondria are important targets of COVID-19. However, the specific manifestations of mitochondrial damage in patients with COVID-19 have not been systematically clarified. This study comprehensively analyzed one single-cell RNA-sequencing dataset of lung tissue and two bulk RNA-sequencing datasets of blood from COVID-19 patients. We found significant changes in mitochondrion-related gene expression, mitochondrial functions, and related metabolic pathways in patients with COVID-19. SARS-CoV-2 first infected the host alveolar epithelial cells, which may have induced excessive mitochondrial fission, inhibited mitochondrial degradation, and destroyed the mitochondrial calcium uniporter (MCU). The type II alveolar epithelial cell count decreased and the transformation from type II to type I alveolar epithelial cells was blocked, which exacerbated viral immune escape and replication in COVID-19 patients. Subsequently, alveolar macrophages phagocytized the infected alveolar epithelial cells, which decreased mitochondrial respiratory capacity and activated the ROS-HIF1A pathway in macrophages, thereby aggravating the pro-inflammatory reaction in the lungs. Infected macrophages released large amounts of interferon into the blood, activating mitochondrial IFI27 expression and destroying energy metabolism in immune cells. The plasma differentiation of B cells and lung-blood interaction of regulatory T cells (Tregs) was exacerbated, resulting in a cytokine storm and excessive inflammation. Thus, our findings systematically explain immune escape and excessive inflammation seen during COVID-19 from the perspective of mitochondrial quality imbalance.
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http://dx.doi.org/10.3389/fimmu.2022.946731DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9283956PMC
July 2022

A chemical biology toolbox to overcome the hypoxic tumor microenvironment for photodynamic therapy: a review.

Biomater Sci 2022 Jul 13. Epub 2022 Jul 13.

School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, No. 1 Wenyuan Road, Nanjing, Jiangsu 210023, China.

Cancer is a disease that seriously threatens human health. Over the past few decades, researchers have continued to find ways to cure cancer. Currently, the most commonly used clinical techniques are surgery, chemotherapy, radiotherapy and so on. Among them, photodynamic therapy (PDT) has received extensive attention due to its better therapeutic effect and lower side effects. However, the inherent microenvironmental hypoxia of tumor tissue leads to unsatisfactory therapeutic effects. Therefore, researchers have conducted in-depth research on the hypoxia problem in PDT therapy. This review classified photodynamic therapy according to the response mechanism and summarized the strategies developed to overcome tumor hypoxia in recent years. Among them, research strategies can be divided into five types: type I PDT photosensitizers, introducing exogenous oxygen, O carriers using nanomaterials, generating endogenous oxygen by catalytic reactions, and combination with prodrugs that inhibit the consumption of endogenous oxygen. Finally, we also list some studies using combination therapy, such as microbes, photothermal therapy, . It can be guaranteed that the review can provide theoretical guidance for the development of anti-hypoxic PDT tools.
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http://dx.doi.org/10.1039/d2bm00776bDOI Listing
July 2022

Generation and Detection of Strain-Localized Excitons in WS Monolayer by Plasmonic Metal Nanocrystals.

ACS Nano 2022 Jul 11. Epub 2022 Jul 11.

Department of Physics, The Chinese University of Hong Kong, Shatin, Hong Kong SAR.

Excitons in a transition-metal dichalcogenide (TMDC) monolayer can be modulated through strain with spatial and spectral control, which offers opportunities for constructing quantum emitters for applications in on-chip quantum communication and information processing. Strain-localized excitons in TMDC monolayers have so far mainly been observed under cryogenic conditions because of their subwavelength emission area, low quantum yield, and thermal-fluctuation-induced delocalization. Herein, we demonstrate both generation and detection of strain-localized excitons in WS monolayer through a simple plasmonic structure design, where WS monolayer covers individual Au nanodisks or nanorods. Enhanced emission from the strain-localized excitons of the deformed WS monolayer near the plasmonic hotspots is observed at room temperature with a photoluminescence energy redshift up to 200 meV. The emission intensity and peak energy of the strain-localized excitons can be adjusted by the nanodisk size. Furthermore, the excitation and emission polarization of the strain-localized excitons are modulated by anisotropic Au nanorods. Our results provide a promising strategy for constructing nonclassical integrated light sources, high-sensitivity strain sensors, or tunable nanolasers for future dense nanophotonic integrated circuits.
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http://dx.doi.org/10.1021/acsnano.2c02300DOI Listing
July 2022

Electrophotocatalysis: Combining Light and Electricity to Catalyze Reactions.

J Am Chem Soc 2022 Jul 11;144(28):12567-12583. Epub 2022 Jul 11.

Department of Chemistry and Chemical Biology, Cornell University, Ithaca, New York 14853, United States.

Visible-light photocatalysis and electrocatalysis are two powerful strategies for the promotion of chemical reactions that have received tremendous attention in recent years. In contrast, processes that combine these two modalities, an area termed electrophotocatalysis, have until recently remained quite rare. However, over the past several years a number of reports in this area have shown the potential of combining the power of light and electrical energy to realize new catalytic transformations. Electrophotocatalysis offers the ability to perform photoredox reactions without the need for large quantities of stoichiometric or superstoichiometric chemical oxidants or reductants by making use of an electrochemical potential as the electron source or sink. In addition, electrophotocatalysis is readily amenable to the generation of open-shell photocatalysts, which tend to have exceptionally strong redox potentials. In this way, potent yet selective redox reactions have been realized under relatively mild conditions. This Perspective highlights recent advances in the area of electrophotocatalysis and provides some possible avenues for future work in this growing area.
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http://dx.doi.org/10.1021/jacs.2c01914DOI Listing
July 2022

Gene Mutational Clusters in the Tumors of Colorectal Cancer Patients With a Family History of Cancer.

Front Oncol 2022 24;12:814397. Epub 2022 Jun 24.

Tianjin Medical University Cancer Institute and Hospital, National Clinical Research Center for Cancer, Key Laboratory of Cancer Prevention and Therapy, Tianjin's Clinical Research Center for Cancer, Tianjin, China.

Introduction: Family history is a high-risk factor for colorectal cancer (CRC). The risk comes not only from known germline mutations but also from the other family-related mechanisms. Uncovering them would be an important step to improve the diagnosis and treatment of these patients.

Method: Samples from 168 patients with advanced CRC were collected and applied to next-generation sequencing of 624 pan-cancer genes. Genomic mutations and significantly mutated genes were identified. Significantly mutated genes and co-mutated genes were used to cluster patients. For each cluster of patients, mutational signatures were extracted. The identified mutational signatures were further validated in the other independent cohort.

Result: Significantly mutated genes including , , , and were found associated with tumor mutational burden and microsatellite instability. , , and were found co-mutated. Patients with mutations in , , and tend to have a family history of cancer. Those patients tended to have right-sided tumors with high tumor mutational burden and microsatellite instability. Among them, signature analysis identified two possible etiologies, SBS10a (defective polymerase epsilon exonuclease domain) and SBS6 (defective DNA mismatch repair and microsatellite unstable tumors). These signatures were also found in another independent cohort.

Conclusion: The gene cluster (, , and ) could be a good biomarker of these patients with a family risk, which was characterized by right-sidedness, high tumor mutational burden, and high microsatellite instability.
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http://dx.doi.org/10.3389/fonc.2022.814397DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9266985PMC
June 2022

Trends in the risk of second primary malignances after non-Hodgkin's lymphoma.

Am J Cancer Res 2022 15;12(6):2863-2875. Epub 2022 Jun 15.

Bone Marrow Transplantation Center, Department of Hematology, The First Affiliated Hospital, College of Medicine, Zhejiang University Hangzhou, Zhejiang, China.

Patients with non-Hodgkin's lymphoma (NHL) have an increased risk of developing second primary malignances (SPMs). In the current study, we aimed to evaluate the trends and relative clinical variables of SPM risk among NHL survivors over the past four decades. Standardized incidence ratio (SIR) and cumulative incidence frequency (CIF) were assessed in patients diagnosed with first primary NHL between 1975-2016 from the Surveillance, Epidemiology, and End Results (SEER) database. As a result, the overall SIR was 1.13 for SPMs of all sites among NHL survivors. Risk factors included male patients, "other" races, chemotherapy and radiation, and younger age at the time of NHL diagnosis. The relative and cumulative risk for both hematological and solid second cancers after NHL increased over time, whereas the increasing trend was more remarkable for hematological malignances compared with solid tumors. For individual cancer sites, the trends of SIRs varied. A significantly increasing trend of SPM risk was observed in the group receiving chemotherapy and those younger than 40 years at the time of NHL diagnosis. Recent calendar years was not an independent risk factor after adjusting age, race, gender, and therapies in the multivariate Cox proportional hazard regression. To conclude, the current study showed that the relative and cumulative risk of developing SPMs significantly increased in patients diagnosed with NHL in recent years. The trend of SPM risk was associated with certain clinical and demographic variables, and might vary according to different cancer types.
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9251676PMC
June 2022

Epicardial adipose tissue (EAT): A prognostic factor in patients with non-ischemic cardiomyopathy.

Authors:
Peng Zhong He Huang

Int J Cardiol 2022 Jul 8. Epub 2022 Jul 8.

Department of Cardiology, Renmin Hospital of Wuhan University, Wuhan 430060, China; Cardiovascular Research Institute of Wuhan University, Wuhan 430060, China; Hubei Key Laboratory of Cardiology, Wuhan 430060, China. Electronic address:

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http://dx.doi.org/10.1016/j.ijcard.2022.07.009DOI Listing
July 2022

polysaccharide enable suppression of osteoclastic differentiation by exosomes derived from rat mesenchymal stem cells.

Pharm Biol 2022 Dec;60(1):1303-1316

Department of Orthopedic Surgery, Guangzhou Hospital of Integrated Traditional and Western Medicine, Guangzhou, PR China.

Context: F.C. How. (MO) (Rubiaceae) can strengthen bone function.

Objective: To examine the functional mechanism and effect of MO polysaccharides (MOPs) in rats with glucocorticoid-induced osteoporosis (GIOP).

Materials And Methods: Rats with GIOP were treated with 5, 15 or 45 mL/kg of MOP [ = 15 for each dose, intraperitoneal (i.p.) injection every other day for 8 weeks]. The body weight of rats and histomorphology of bone tissues were examined. Bone marrow mesenchymal stem cells (BMSCs)-derived exosomes (Exo) were collected and identified. Bone marrow-derived macrophages (BMMs) were induced to differentiate into osteoclasts and treated with BMSC-Exo for studies.

Results: MOP reduced the body weight (5, 15, or 45 mg/kg MOP vs. phosphate-buffered saline: 8%, 15% and 25%,  < 0.01), elevated the bone volume to tissue volume (BV/TV), mean trabecular thickness (Tb.Th), mean trabecular number (Tb.N) and mean connectivity density (Conn.D) (40-86%,  < 0.01), decreased the mean trabecular separation/spacing (Tb.Sp) (22-37%,  < 0.01), increased the cortical bone continuity (35-90%,  < 0.01) and elevated RUNX family transcription factor 2 and RANK levels (5-12%,  < 0.01), but suppressed matrix metallopeptidase 9 and cathepsin K levels (9-20%,  < 0.01) in femur tissues. BMSC-Exo from MOP-treated rats (MOP-Exo) suppressed osteoclastic differentiation and proliferation of BMMs. The downregulation of microRNA-101-3p (miR-101-3p) or the upregulation of prostaglandin-endoperoxide synthase 2 (PTGS2) blocked the functions of MOP-Exo.

Discussion And Conclusions: MOP inhibits osteoclastic differentiation and could potentially be used for osteoporosis management. This suppression may be enhanced by the upregulation of miR-101-3p or the inhibition of PTGS2.
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http://dx.doi.org/10.1080/13880209.2022.2093385DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9272931PMC
December 2022

Prevalence and risk of atrial fibrillation in China: A national cross-sectional epidemiological study.

Lancet Reg Health West Pac 2022 Jun 11;23:100439. Epub 2022 Apr 11.

The Second Hospital of Hebei Medical University, Shijiazhuang 050004, China.

Background: Atrial fibrillation (AF) is the most common persistent cardiac arrhythmia. This study aimed to estimate its prevalence and explore associated factors in adults aged 18 years or older in China.

Methods: Study data were derived from a national sample from July 2020 to September 2021. Participants were recruited using a multistage stratified sampling method from twenty-two provinces, autonomous regions, and municipalities in China. AF was determined based on a history of diagnosed AF or electrocardiogram results.

Findings: A total of 114,039 respondents were included in the final analysis with a mean age of 55 years (standard deviation 17), 52·1% of whom were women. The crude prevalence of AF was 2·3% (95% confidence interval [CI] 1·7-2·8) and increased with age. The age-standardized AF prevalence was 1·6% (95% CI 1·6-1·7%) overall, and 1·7% (1·6-1·8%), 1·4% (1·3-1·5%), 1·6% (95% CI 1·5-1·7%), and 1·7% (1·6-1·9%) in men, women, urban areas, and rural areas, respectively. The prevalence was higher in the central regions (2·5%, 2·3-2·7%) than in the western regions (1·5%, 1·0-2·0%) and eastern regions (1·1%, 1·0-1·2%) in the overall population, either in the gender or residency subgroups. The associated factors for AF included age (per 10 years; odds ratio 1·41 [95% CI 1·38-1·46];  < 0·001), men (1·34 [1·24-1·45];  < 0·001), hypertension (1·22 [1·12-1·33];  < 0·001), coronary heart disease (1·44 [1·28-1·62];  < 0·001), chronic heart failure (3·70 [3·22-4·26];  < 0·001), valvular heart disease (2·13 [1·72-2·63];  < 0·001), and transient ischaemic attack/stroke (1·22 [1·04-1·43];  = 0·013).

Interpretation: The prevalence of AF was 1.6% in the Chinese adult population and increased with age, with significant geographic variation. Older age, male sex, and cardiovascular disease were potent factors associated with AF. It is crucial to increase the awareness of AF and disseminate standardized treatment in clinical settings to reduce the disease burden.

Funding: This research was supported the Nature Science Foundation of Hubei province (No: 2017CFB204).
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http://dx.doi.org/10.1016/j.lanwpc.2022.100439DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9252928PMC
June 2022

Proteomic Analyses Reveal Higher Levels of Neutrophil Activation in Men Than in Women With Systemic Lupus Erythematosus.

Front Immunol 2022 21;13:911997. Epub 2022 Jun 21.

Institute of Dermatology and Department of Dermatology of the First Affiliated Hospital, Anhui Medical University, Hefei, China.

Objective: Systemic Lupus Erythematosus (SLE) is a systemic autoimmune disease that displays a significant gender difference in terms of incidence and severity. However, the underlying mechanisms accounting for sexual dimorphism remain unclear. The aim of this work was to reveal the heterogeneity in the pathogenesis of SLE between male and female patients.

Methods: PBMC were collected from 15 patients with SLE (7 males, 8 females) and 15 age-matched healthy controls (7 males, 8 females) for proteomic analysis. The proteins of interest were validated in independent samples (6 male SLE, 6 female SLE). Biomarkers for neutrophil activation (calprotectin), neutrophil extracellular traps (cell-free DNA and elastase), and reactive oxygen species (glutathione) were measured, using enzyme-linked immunosorbent assay, in plasma obtained from 52 individuals.

Results: Enrichment analysis of proteomic data revealed that type I interferon signaling and neutrophil activation networks mapped to both male and female SLE, while male SLE has a higher level of neutrophil activation compared with female SLE. Western blot validated that PGAM1, BST2, and SERPINB10 involved in neutrophil activation are more abundant in male SLE than in female SLE. Moreover, biomarkers of neutrophil activation and reactive oxygen species were increased in male SLE compared with female SLE.

Conclusion: Type I interferon activation is a common signature in both male and female SLE, while neutrophil activation is more prominent in male SLE compared with female SLE. Our findings define gender heterogeneity in the pathogenesis of SLE and may facilitate the development of gender-specific treatments.
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http://dx.doi.org/10.3389/fimmu.2022.911997DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9254905PMC
June 2022

Dual cytoplasmic-peroxisomal engineering for high-yield production of sesquiterpene α-humulene in Yarrowia lipolytica.

Biotechnol Bioeng 2022 Jul 7. Epub 2022 Jul 7.

School of Food Science and Pharmaceutical Engineering, Nanjing Normal University, Qixia District, Nanjing, People's Republic of China.

The sesquiterpene α-humulene is an important plant natural product, which has been used in the pharmaceutical industry due to its anti-inflammatory and anticancer activities. Although phytoextraction and chemical synthesis have previously been applied in α-humulene production, the low efficiency and high costs limit the development. In this study, Yarrowia lipolytica was engineered as the robust cell factory for sustainable α-humulene production. First, a chassis with high α-humulene output in the cytoplasm was constructed by integrating α-humulene synthases with high catalytic activity, optimizing the flux of mevalonate and acetyl-CoA pathways. Subsequently, the strategy of dual cytoplasmic-peroxisomal engineering was adopted in Y. lipolytica; the best strain GQ3006 generated by introducing 31 copies of 12 different genes could produce 2280.3± 38.2 mg/l (98.7 ± 4.2 mg/g dry cell weight) α-humulene, a 100-fold improvement relative to the baseline strain. To further improve the titer, a novel strategy for downregulation of squalene biosynthesis based on Cu -repressible promoters was firstly established, which significantly improved the α-humulene titer by 54.2% to 3516.6 ± 34.3 mg/l. Finally, the engineered strain could produce 21.7 g/l α-humulene in a 5-L bioreactor, 6.8-fold higher than the highest α-humulene titer reported before this study. Overall, system metabolic engineering strategies used in this study provide a valuable reference for the highly sustainable production of terpenoids in Y. lipolytica.
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http://dx.doi.org/10.1002/bit.28176DOI Listing
July 2022

Development and Validation of an Individualized Metabolism-Related Prognostic Model for Adult Acute Myeloid Leukemia Patients.

Front Oncol 2022 17;12:829007. Epub 2022 Jun 17.

Bone Marrow Transplantation Center, The First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, China.

Objectives: Acute myeloid leukemia (AML) is a highly heterogeneous hematologic malignancy with widely variable prognosis. For this reason, a more tailored-stratified approach for prognosis is urgently needed to improve the treatment success rates of AML patients.

Methods: In the investigation of metabolic pattern in AML patients, we developed a metabolism-related prognostic model, which was consisted of metabolism-related gene pairs (MRGPs) identified by pairwise comparison. Furthermore, we analyzed the predictive ability and clinical significance of the prognostic model.

Results: Given the significant differences in metabolic pathways between AML patients and healthy donors, we proposed a metabolism-related prognostic signature index (MRPSI) consisting of three MRGPs, which were remarkedly related with the overall survival of AML patients in the training set. The association of MRPSI with prognosis was also validated in two other independent cohorts, suggesting that high MRPSI score can identify patients with poor prognosis. The MRPSI and age were confirmed to be independent prognostic factors multivariate Cox regression analysis. Furthermore, we combined MRPSI with age and constructed a composite metabolism-clinical prognostic model index (MCPMI), which demonstrated better prognostic accuracy in all cohorts. Stratification analysis and multivariate Cox regression analysis revealed that the MCPMI was an independent prognostic factor. By estimating the sensitivity of anti-cancer drugs in different AML patients, we selected five drugs that were more sensitive to patients in MCPMI-high group than those in MCPMI-low group.

Conclusion: Our study provided an individualized metabolism-related prognostic model that identified high-risk patients and revealed new potential therapeutic drugs for AML patients with poor prognosis.
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http://dx.doi.org/10.3389/fonc.2022.829007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9247176PMC
June 2022

Object Recognition via Evoked Sensory Feedback during Control of a Prosthetic Hand.

IEEE Robot Autom Lett 2022 Jan 27;7(1):207-214. Epub 2021 Oct 27.

Joint Department of Biomedical Engineering at University of North Carolina-Chapel Hill and NC State University.

Haptic and proprioceptive feedback is critical for sensorimotor integration when we use our hand to perform daily tasks. Here, we evaluated how externally evoked haptic and proprioceptive feedback and myoelectric control strategies affected the recognition of object properties when participants controlled a prosthetic hand. Fingertip haptic sensation was elicited using a transcutaneous nerve stimulation grid to encode the prosthetic's fingertip forces. An array of tactors elicited patterned vibratory stimuli to encode tactile-proprioceptive kinematic information of the prosthetic finger joint. Myoelectric signals of the finger flexor and extensor were used to control the position or velocity of joint angles of the prosthesis. Participants were asked to perform object property (stiffness and size) recognition, by controlling the prosthetic hand with concurrent haptic and tactile-proprioceptive feedback. With the evoked feedback, intact and amputee participants recognized the object stiffness and size at success rates ranging from 50% to 100% in both position and velocity control with no significant difference across control schemes. Our findings show that evoked somatosensory feedback in a non-invasive manner can facilitate closed-loop control of the prosthetic hand and allowed for simultaneous recognition of different object properties. The outcomes can facilitate our understanding on the role of sensory feedback during bidirectional human-machine interactions, which can potentially promote user experience in object interactions using prosthetic hands.
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http://dx.doi.org/10.1109/lra.2021.3122897DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9248871PMC
January 2022

Protocol for correlation analysis of the murine gut microbiome and meta-metabolome using 16S rDNA sequencing and UPLC-MS.

STAR Protoc 2022 Jun 24;3(3):101494. Epub 2022 Jun 24.

Liangzhu Laboratory, Zhejiang University Medical Center, Hangzhou, China; Institute of Hematology, Zhejiang University, Hangzhou, China; Zhejiang Engineering Laboratory for Stem Cell and Immunotherapy, Hangzhou, Zhejiang, China; Center of Stem Cell and Regenerative Medicine, and Bone Marrow Transplantation Center of the First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China. Electronic address:

The gut microbiota and metabolites play pivotal roles in the pathobiology of various diseases. Here, we describe a protocol to profile the gut microbiome and meta-metabolome of a mouse disease model for acute graft-versus-host disease. We describe steps for fecal sample collection and processing for 16S sequencing and UPLC-MS. Finally, we detail the steps for data analysis and exhibit multi-omic associations to correlate with pathology. For complete details on the use and execution of this protocol, please refer to Li et al. (2020).
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http://dx.doi.org/10.1016/j.xpro.2022.101494DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9250040PMC
June 2022
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