A5056217834- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- Genomics and Phylogenetic Studies
- Gene expression and cancer classification
- Bacterial Genetics and Biotechnology
- Bioinformatics and Genomic Networks
- Molecular Biology Techniques and Applications
- Machine Learning in Bioinformatics
- Cancer-related molecular mechanisms research
- RNA Research and Splicing
- Immunotherapy and Immune Responses
- MicroRNA in disease regulation
- RNA Interference and Gene Delivery
- vaccines and immunoinformatics approaches
- Advanced Proteomics Techniques and Applications
- Immune Cell Function and Interaction
- Antimicrobial Peptides and Activities
- Biomedical Text Mining and Ontologies
- Heart Rate Variability and Autonomic Control
- Advanced biosensing and bioanalysis techniques
- Escherichia coli research studies
- Pituitary Gland Disorders and Treatments
- Biosensors and Analytical Detection
- Organometallic Compounds Synthesis and Characterization
- Facial Trauma and Fracture Management
Academy of Military Medical Sciences
2019-2024
Institute of Basic Medical Sciences of the Chinese Academy of Medical Sciences
2010-2023
Institute of Physiology and Basic Medicine
2006-2023
Institute of Microbiology
2023
Beijing Institute of Education
2006-2021
82th Hospital of Pla
2012
Chinese People's Armed Police Force
2009
Chinese People's Armed Police General Hospital
2009
Northwest A&F University
2007
The University of Texas Health Science Center at Houston
2000-2001
Abstract Mutations in amino acid sequences can provoke changes protein function. Accurate and unsupervised prediction of mutation effects is critical biotechnology biomedicine, but remains a fundamental challenge. To resolve this challenge, here we present Pro tein M utational E ffect P redictor (ProMEP), general multiple sequence alignment-free method that enables zero-shot effects. A multimodal deep representation learning model embedded ProMEP was developed to comprehensively learn both...
Early stage lung cancer detection is the first step toward successful clinical therapy and increased patient survival. Clinicians monitor progression by profiling tumor cell proteins in blood plasma of afflicted patients. Blood plasma, however, a difficult protein assessment medium because it rich albumins heterogeneous species. We report herein method to detect released into circulatory system cells. Initially we analyzed components conditioned (CM) primary or organ cultures adjacent normal...
B-cell epitopes play important roles in vaccine design, clinical diagnosis, and antibody production. Although some models have been developed to predict linear or conformational epitopes, their performance is still unsatisfactory. Hundreds of thousands epitope data accumulated the Immune Epitope Database (IEDB). These can be explored using deep learning methods, order create better predictive for epitopes.After cleaning, we obtained 240,563 peptide samples with experimental evidence from...
Abstract Background Acute myeloid leukemia (AML), caused by the abnormal proliferation of immature cells in blood or bone marrow, is one most common hematologic malignancies. Currently, interactions between malignant and immune microenvironment, especially T B cells, remain poorly characterized. Methods In this study, we systematically analyzed cell receptor (TCR BCR) repertoires from RNA-seq data 145 pediatric 151 adult AML samples as well 73 non-tumor peripheral samples. Results We...
Background Bacterial sRNAs are a class of small regulatory RNAs involved in regulation expression variety genes. Most act trans via base-pairing with target mRNAs, leading to repression or activation translation mRNA degradation. To date, more than 1,000 have been identified. However, direct targets identified for only approximately 50 these sRNAs. Computational predictions can provide candidates validation, thereby increasing the speed sRNA identification. Although several methods...
Objective The lack of the disease biomarker to support objective laboratory tests still constitutes a bottleneck in clinical diagnosis and evaluation major depressive disorder (MDD) its subtypes. We used metabonomic techniques screen diagnostic panels from plasma MDD patients with without early life stress (ELS) experience. Methods Plasma samples were collected 25 healthy adults 46 MDD, including 23 ELS ELS. Furthermore, gas chromatography/mass spectrometry (GC/MS) coupled multivariate...
Bacterial sRNAs are an emerging class of small regulatory RNAs, 40–500 nt in length, which play a variety important roles many biological processes through binding to their mRNA or protein targets. A comprehensive database experimentally confirmed sRNA targets would be helpful understanding functions systematically and provide support for developing prediction models. Here we report on such database—sRNATarBase. The holds 138 sRNA–target interactions 252 noninteraction entries, were manually...
Staphylococcus aureus is a gram-positive pathogen responsible for wide variety of diseases. RNAIII the key effector accessory gene regulator (agr) system. It regulatory RNA (514 nucleotides long) that acts at both transcription and translation level to regulate production numerous toxins, enzymes cell surface proteins. Here, we reveal map (major histocompatibility complex class II analogous protein) positively regulated by RNAIII. Our further study indicates 108–135 nt fragment as an...
Interactions between large-scale brain networks have received most attention in the study of cognitive dysfunction human brain. In this paper, we aimed to test hypothesis that coupling strength will reflect pressure for sleep and predict performance, referred as index (SPI). Fourteen healthy subjects underwent within-subject functional magnetic resonance imaging (fMRI) during rested wakefulness (RW) after 36 h total deprivation (TSD). Self-reported scores sleepiness were higher TSD than RW....
Bacterial sRNAs are a class of small regulatory RNAs about 40–500 nt in length; they play multiple biological roles through binding to their target mRNAs or proteins. Therefore, elucidating sRNA targets is very important. However, only few have been described. To facilitate functional studies such as developing prediction models, we updated the sRNATarBase database, which was initially developed 2010. The new version (recently moved http://ccb1.bmi.ac.cn/srnatarbase/) contains 771...
Accurate identification of linear B-cell epitopes plays an important role in peptide vaccine designs, immunodiagnosis, and antibody productions. Although several prediction methods have been reported, unsatisfied accuracy has limited the broad usages epitope prediction. Therefore, developing a reliable model with significant improvement on is highly desirable.In this study, we developed novel for epitopes, APCpred, which was derived from combination amino acid anchoring pair composition...
Transcript stability is associated with many biological processes, and the factors affecting mRNA have been extensively studied. However, little known about features related to human long noncoding RNA (lncRNA) stability. By inhibiting transcription collecting samples in 10 time points, genome-wide RNA-seq studies was performed lung adenocarcinoma cells (A549) half-life datasets were constructed. The following observations obtained. First, distributions of both lncRNAs messanger RNAs (mRNAs)...
Gene expression profiles may offer more or additional information than classic morphologic- and histologic-based tumor classification systems. Because the number of tissue samples examined is usually much smaller genes examined, efficient data reduction analysis methods are critical. In this report, we propose a principal component discriminant method using gene profile data. Expression 2000 in 40 22 normal colon used to examine feasibility expression-based Using method, percentage correctly...
In bacteria, there exist some small non-coding RNAs (sRNAs) with 40-500 nucleotides in length.Most of them function as posttranscriptional regulation gene expression through binding to their target mRNAs, which Hfq protein acts RNA chaperone.With the increase identified sRNA genes bacterium, prediction targets plays a more important role determining functions.However, are few available computational tools for predicting at present.Here we introduced web server, sRNATarget, genome-scale...
Shigella flexneri is an important etiological agent of bacillary dysentery in developing countries. The Hfq protein thought to play a major regulatory role various cellular processes this organism. However, the roles stress tolerance and virulence S. response environmental have not been fully studied. In study, hfq was highly expressed when exposed low pH. Growth retardation observed deletion mutant at pH values ranging from 5.0 7.0 survival rate strain reduced by 60% acidic conditions (pH...
Streptococcus mutans is one of the major cariogenic bacteria in oral environment. Small non-coding RNAs (sRNAs) play important roles regulation bacterial growth, stress tolerance, and virulence. In this study, we experimentally verified existence sRNA, L10-Leader, S. for first time. Our results show that expression level L10-Leader was growth-phase dependent varied among different clinical strains mutans. The UA159 closely related to pH value, but not concentrations glucose sucrose culture...
The superficial amygdala (SFA) is important in human emotion/affective processing via its strong connection with other limbic and cerebral cortex for receptive expressive emotion processing. Few studies have investigated the functional connectivity changes of SFA under extreme conditions, such as prolonged sleep loss, although showed a distinct pattern throughout brain. In this study, resting‐state magnetic resonance imaging (rs‐fMRI) was employed to investigate SFA–cortical after 36 hr...