Comprehensive databases of microRNA-disease associations are continuously demanded in biomedical researches. The recently launched version 3.0 Human MicroRNA Disease Database (HMDD v3.0) manually collects a significant number miRNA-disease association entries from literature. Comparing to HMDD v2.0, this new contains 2-fold more entries. Besides, the have been accurately classified based on literature-derived evidence code, which results six generalized categories (genetics, epigenetics,...

MicroRNAs (miRNAs) are a class of important small non-coding RNAs with critical molecular functions in almost all biological processes, and thus, they play roles disease diagnosis therapy. Human MicroRNA Disease Database (HMDD) represents an comprehensive resource for biomedical researchers miRNA-related medicine. Here, we introduce HMDD v4.0, which curates 53530 miRNA-disease association entries from literatures. In comparison to v3.0 released five years ago, v4.0 contains 1.5 times more...

Abstract Systematic integration of lncRNA-disease associations is great importance for further understanding their underlying molecular mechanisms and exploring lncRNA-based biomarkers therapeutics. The database long non-coding RNA-associated diseases (LncRNADisease) designed the above purpose. Here, an updated version (LncRNADisease v3.0) has curated comprehensive lncRNA (including circRNA) disease from burgeoning literatures. LncRNADisease v3.0 exhibits over 2-fold increase in...

Triboelectric nanogenerators (TENGs) converting mechanical energy into electrical have received much attention because of their huge potential applications for supplying power to electronic devices. Improving the performance TENGs has become a research hot point output limited current. In this paper, we propose flexible single-electrode triboelectric nanogenerator based on porous Na2CO3/polydimethylsiloxane (PDMS) structure enhance nanogenerators. To compare performance, NaCl and sugar are...

Abstract Sex differences are widely observed under various circumstances ranging from physiological processes to therapeutic responses, and a myriad of sex-biased genes have been identified. In recent years, transcriptomic datasets microRNAs (miRNAs), an important class non-coding RNAs, become increasingly accessible. However, comprehensive analysis sex difference in miRNA expression has not performed. Here, we identified the differentially-expressed miRNAs between males females by examining...

Abstract It is known that many microRNAs (miRNAs) stably exist in various body fluids, however, the relationship of fluids miRNAs (BF-miRNAs) with those from tissues (T-miRNAs) remains largely unclear but important for understanding potential BF-miRNAs to be biomarkers specific diseases. Here by analyzing miRNA expression data 40 human healthy and including plasma, serum, urine, bile, feces, we revealed a positive correlation between T-miRNAs. Moreover, plasma serum have most communication...

Hydrogen sulfide (H2 S) plays a protective role in NAFLD. However, whether cystathionine γ lyase (CSE), dominant H2 S generating enzyme hepatocytes, has the pathogenesis of NAFLD is currently unclear.We showed that CSE protein expression dramatically downregulated, especially fibrotic areas, livers from patients with In high-fat diet (HFD)-induced mice or an oleic acid-induced hepatocyte model, CSE/H2 pathway also downregulated. To illustrate regulatory for NAFLD, we generated...

Abstract Background Diabetes mellitus (DM) is a chronic metabolic disease that could produce severe complications threatening life. Its early detection thus quite important for the timely prevention and treatment. Normally, fasting blood glucose (FBG) by physical examination used large-scale screening of DM; however, some people with normal (NFG) actually have suffered from diabetes but are missed examination. This study aimed to investigate whether common indexes can be identify individuals...

Recently, it was confirmed that ACE2 is the receptor of SARS-CoV-2, pathogen causing recent outbreak severe pneumonia around world. It confused widely expressed across a variety organs and moderately but not highly in lung, which, however, major infected organ. Therefore, we hypothesized there could be some other genes playing key roles entry SARS-CoV-2 into human cells. Here found AGTR2 (angiotensin II type 2), G-protein coupled receptor, has interaction with lung high tissue specificity....

ABSTRACT Background With a decline of 17β‐estradiol (E2) at menopause, E2 has been implicated in the accompanied loss skeletal muscle mass and strength. We aimed characterizing transcriptomic responses to female mice, testing hypothesis that genes pathways related contraction maintenance are differentially expressed ovariectomized mice with without treatment. Methods Soleus tibialis anterior (TA) muscles from C57BL/6 treated placebo (OVX) or (OVX + E2) for 60 days, muscle‐specific ERα...

Background: Metabolic dysfunction is a key driver of heart failure (HF) progression. Identifying metabolic hub genes in HF may reveal novel therapeutic targets. Methods: Transcriptomic datasets from patients (GEO database) and metabolism-related (PathCards) were analyzed. Differentially expressed (DEGs) intersected with genes, followed by the application LASSO, Random Forest, XGBoost algorithms to prioritize genes. Candidate validated via WGCNA, an mouse model, plasma metabolomics....

Aging is a complex biological process that far from being completely understood. Analyzing transcriptional differences across age might help uncover genetic bases of aging. In this study, 1573 differentially expressed genes, related to chronological age, the Genotype-Tissue Expression (GTEx) project, were categorized as upregulated age-associated genes (UAGs) and downregulated (DAGs). Characteristics in evolution, expression, function molecular networks comprehensively described compared for...

Nipah virus (NiV) is a highly lethal zoonotic with potential large-scale outbreak, which poses great threat to world health and security. In order explore more factors associated NiV, proximity labeling method was applied investigate the F, G, host protein interactions systematically. We screened 1996 1524 high-confidence proteins that interacted NiV fusion (F) glycoprotein attachment (G) in HEK293T cells by technology, 863 of them both F G. The results GO KEGG enrichment analysis showed...

Small open reading frame (smORF) is with a length of less than 100 codons. Microproteins, translated from smORFs, have been found to participate in variety biological processes such as muscle formation and contraction, cell proliferation, immune activation. Although previous studies collected annotated large abundance functions the vast majority smORFs are still unknown. It thus increasingly important develop computational methods annotate these smORFs.In this study, we 617,462 unique three...

Abstract Motivation MicroRNAs (miRNAs) are one class of small noncoding RNA molecules, which regulate gene expression at the post-transcriptional level and play important roles in health disease. To dissect critical miRNAs miRNAome, it is needed to predict essentiality miRNAs, however, bioinformatics methods for this purpose limited. Results Here we propose miES, a novel algorithm, prioritization miRNA essentiality. miES implements machine learning strategy based on from positive unlabeled...

N6-methyladenosine (m6A) is the most prevalent chemical modification in eukaryotic mRNAs and plays key roles diverse cellular processes. Precise localization of m6A sites thus critical for characterizing functional various conditions dissecting mechanisms governing its deposition. Here, we design a combined framework Transformer architecture recurrent neural network, deepSRAMP, to identify using sequence-based genome-derived features. As result, deepSRAMP achieves notably enhanced...

Recently, it was confirmed that ACE2 is the receptor of 2019-nCoV, pathogen causing recent outbreak severe pneumonia in China. It confused widely expressed across a variety organs and moderately but not highly lung, which, however, major infected organ. remains unclear why lung other tissues among which mainly infected. We hypothesized there could be some genes playing key roles entry 2019-nCoV into human cells. Here we found AGTR2 (angiotensin II type 2), G-protein coupled receptor, has...

It is well known that significant differences exist between males and females in both physiology disease. Thus, it important to identify analyze sex-biased miRNAs. However, previous studies investigating sex miRNA expression have predominantly focused on healthy individuals or restricted their analysis a single Therefore, necessary comprehensively the miRNAs diseases. For this purpose, study, we first identified showing diseases based number of datasets. Then, performed bioinformatics for...

microRNAs (miRNAs) are active in various biological processes by mediating gene expression, and the full investigation of miRNA transcription is crucial for understanding mechanisms underlying deregulation pathological conditions. Here an updated TransmiR v3.0 database presented with more comprehensive regulation information, which contains 5095 factor (TF) -miRNA regulations curated from 2285 papers >6 million TF-miRNA derived ChIP-seq data. Currently, covers 3260 TFs, 4253 miRNAs 514 433...

Stroke is a major cause of fatalities and disabilities around the world, yet available treatments for it are still limited. The quest more efficacious drugs therapies an arduous task. LY2922470 currently used as G protein-coupled receptor 40 (GPR40) agonist treatment type 2 diabetes. Previous studies have reported protective effects other GPR40 activators on brain; however, remains unclear whether could be new stroke therapy improve stroke-induced brain damage. Here, we first reveal that...

An aneurysm is an outward bulge on arterial wall. Aneurysms are becoming a serious public health concern as the worldwide population ages. Unfortunately, no effective drugs have been developed for aneurysms to date. In addition, may be associated with grave prognosis due conditions such ruptures and recurrence. Altogether, these factors make earlier prevention, diagnosis intervention strategies even more important. A bioinformatics resource aneurysm-associated molecules would helpful...

Abstract To dig critical microRNAs (miRNAs) from the big miRNAome, it is becoming emergent to quantify importance of miRNAs. However, computational methods for this purpose are still not available. Some sequence features associated with miRNA conservation revealed and disease spectrum width (DSW) defined as a score measure miRNAs some extent. Here, random forest based regression model, microRNA calculator (MIC), proposed estimate relationship between DSW score. The result shows that MIC fits...

Physiological and pathophysiological differences widely exist in paired organ systems. However, the molecular basis for these remains largely unknown. We previously reported that there differentially expressed miRNAs (DEMs) left right kidneys of normal mice. Here, we identified DEMs eyes, lungs, testes mice via RNA sequencing. As a result, 26 with 23 higher 3 lower eyes compared eyes; 21 15 6 lungs lungs; 54 testes, 48 testes. Ten microRNAs (miRNAs) were further examined by quantitative PCR...