A5100779276- Stochastic processes and financial applications
- Statistical Methods and Inference
- RNA modifications and cancer
- Gene expression and cancer classification
- RNA Research and Splicing
- Cancer-related molecular mechanisms research
- Molecular Biology Techniques and Applications
- Cancer Genomics and Diagnostics
- Financial Risk and Volatility Modeling
- Advanced Graph Theory Research
- Bayesian Methods and Mixture Models
- Probability and Risk Models
- RNA and protein synthesis mechanisms
- Prostate Cancer Treatment and Research
- Graph Labeling and Dimension Problems
- Random Matrices and Applications
- Cancer Cells and Metastasis
- Stochastic processes and statistical mechanics
- Limits and Structures in Graph Theory
- Speech Recognition and Synthesis
- Insect-Plant Interactions and Control
- Speech and Audio Processing
- Insect and Pesticide Research
- Genomics and Phylogenetic Studies
- Protein Degradation and Inhibitors
University of Michigan
2016-2025
Changchun University of Technology
2023-2025
Huazhong University of Science and Technology
2022-2025
Beijing Institute of Technology
2025
Harbin Medical University
2024
Shandong Normal University
2020-2024
Nanjing University of Aeronautics and Astronautics
2015-2024
Anhui University of Traditional Chinese Medicine
2024
Hebei University of Technology
2024
Second Military Medical University
2020-2023
Abstract Summary: SeqMap is a tool for mapping large amount of short sequences to the genome. It designed finding all places in reference genome where each sequence may come from. This task essential analysis data from ultra high-throughput sequencing machines. With carefully index-filtering algorithm and an efficient implementation, can map tens millions several billions nucleotides. Multiple substitutions insertions/deletions nucleotide bases be tolerated therefore detected. supports FASTA...
The development of RNA sequencing (RNA-Seq) makes it possible for us to measure transcription at an unprecedented precision and throughput. However, challenges remain in understanding the source distribution reads, modeling transcript abundance developing efficient computational methods. In this article, we develop a method deal with isoform expression estimation problem. count reads falling into locus on genome annotated multiple isoforms is modeled as Poisson variable. each individual...
Alternative splicing is a prevalent post-transcriptional process, which not only important to normal cellular function but also involved in human diseases. The newly developed second generation sequencing technique provides high-throughput data (RNA-seq data) study alternative events different types of cells. Here, we present computational method, SpliceMap, detect splice junctions from RNA-seq data. This method does depend on any existing annotation gene structures and capable finding novel...
Triple-negative breast cancers (TNBC) remain clinically challenging with a lack of options for targeted therapy. In this study, we report the development second-generation BET protein degrader, BETd-246, which exhibits superior selectivity, potency, and antitumor activity. human TNBC cells, BETd-246 induced degradation proteins at low nanomolar concentrations within 1 hour exposure, resulting in robust growth inhibition apoptosis. was more potent effective cells than its parental inhibitor...
Precision therapy for lung cancer will require comprehensive genomic testing to identify actionable targets as well ascertain disease prognosis. RNA-seq is a robust platform that meets these requirements, but microarray-derived prognostic signatures are not optimal data. Thus, we undertook the first analysis of adenocarcinoma data and generated signature. Lung clinical from The Cancer Genome Atlas (TCGA) were divided chronologically into training (n = 255) validation 157) cohorts. In cohort,...
ConspectusClosed-loop cycling of green hydrogen is a promising alternative to the current hydrocarbon economy for mitigating energy crisis and environmental pollution. It stores from renewable sources like solar, wind, hydropower into chemical bond dihydrogen (H2) via (photo)electrochemical water splitting, then stored can be released on demand through reverse reactions in H2-O2 fuel cells. The sluggish kinetics involved half-reactions evolution reaction (HER), oxygen (OER), oxidation (HOR),...
Abstract After mapping, RNA-Seq data can be summarized by a sequence of read counts commonly modeled as Poisson variables with constant rates along each transcript, which actually fit poorly. We suggest using variable for different positions, and propose two models to predict these based on local sequences. These explain more than 50% the variations lead improved estimates gene isoform expressions both Illumina Applied Biosystems data.
// Zhuo Zhang 1 , Hiroe Shiratsuchi 2 Jules Lin 3 Guoan Chen Rishindra M. Reddy Ebrahim Azizi 2, 4 Shamileh Fouladdel Andrew C. Chang Hui Jiang 7 Meghna Waghray 3, 4, 5 Gary Luker 8 Diane Simeone Max S. Wicha David G. Beer Nithya Ramnath 6 Sunitha Nagrath 1, Department of Chemical Engineering, Biomedical University Michigan, Ann Arbor, MI 48109 Internal Medicine, Surgery, Translational Oncology Program, Molecular and Integrative Physiology, Veterans Administration Arbor Healthcare System,...
Abstract Type 2 diabetes (T2D) results from the combined effects of genetic and environmental factors on multiple tissues over time. Of >100 variants associated with T2D related traits in genome-wide association studies (GWAS), >90% occur non-coding regions, suggesting a strong regulatory component to risk. Here understand how status, metabolic variation influence gene expression, we analyse skeletal muscle biopsies 271 well-phenotyped Finnish participants glucose tolerance ranging...
Fast adaptation of deep neural networks (DNN) is an important research topic in learning. In this paper, we have proposed a general scheme for DNN based on discriminant condition codes, which are directly fed to various layers pre-trained through new set connection weights. Moreover, present several training methods learn weights from data as well the corresponding code each test condition. work, fast applied supervised speaker speech recognition either frame-level cross-entropy or...
Endothelial cells (ECs) are highly specialized across vascular beds. However, given their interspersed anatomic distribution, comprehensive characterization of the molecular basis for this heterogeneity in vivo has been limited. By applying endothelial-specific translating ribosome affinity purification (EC-TRAP) combined with high-throughput RNA sequencing analysis, we identified pan EC-enriched genes and tissue-specific EC transcripts, which include both established markers previously...
A 6.9 million-feature oligonucleotide array of the human transcriptome [Glue Grant (GG-H array)] has been developed for high-throughput and cost-effective analyses in clinical studies. This allows comprehensive examination gene expression genome-wide identification alternative splicing as well detection coding SNPs noncoding transcripts. The performance was examined compared with mRNA sequencing (RNA-Seq) results over multiple independent replicates liver muscle samples. Compared RNA-Seq 46...
Despite advancements in targeting the immune checkpoints program cell death protein 1 (PD-1), programmed ligand (PD-L1), and cytotoxic T lymphocyte–associated 4 (CTLA-4) for cancer immunotherapy, a large number of patients types remain unresponsive. Current immunotherapies focus on modulating an antitumor response by directly or indirectly expanding CD8 cells. A complementary strategy might involve inhibition Tregs that otherwise suppress responses. Here, we sought to identify functional...
Abstract Recently, all‐dielectric metasurfaces are profoundly exploited to enhance light‐matter interactions, resulting from the high quality‐factor (Q‐factor) optical resonances that based on novel concepts such as bound states in continuum (BIC). Unfortunately, BIC operates at a fixed resonance wavelength and wavevector for specific structure. Here, experimental demonstration of dielectric nonlocal metasurface capable robustly maintaining high‐Q is reported, over broad spectral range,...