A5100782545- Congenital heart defects research
- CRISPR and Genetic Engineering
- Hemoglobinopathies and Related Disorders
- Bioinformatics and Genomic Networks
- Plant and animal studies
- Gene expression and cancer classification
- RNA modifications and cancer
- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- Prenatal Screening and Diagnostics
- Aquaculture Nutrition and Growth
- Computational Drug Discovery Methods
- Probiotics and Fermented Foods
- MicroRNA in disease regulation
- Insect symbiosis and bacterial influences
- Plant Diversity and Evolution
- Ecology and Vegetation Dynamics Studies
- Astrophysics and Cosmic Phenomena
- Microbial Metabolites in Food Biotechnology
- Plant Reproductive Biology
- Protein Hydrolysis and Bioactive Peptides
- Gene Regulatory Network Analysis
- Erythrocyte Function and Pathophysiology
- Congenital Heart Disease Studies
- Polysaccharides and Plant Cell Walls
St. Jude Children's Research Hospital
2020-2025
Peking University
2021-2024
Chinese Academy of Fishery Sciences
2021-2024
Yunnan Normal University
2024
Sichuan Agricultural University
2024
Googol Technology (China)
2024
Tsinghua University
2024
Tianjin Economic-Technological Development Area
2024
Ohio University
2011-2023
Minzu University of China
2023
Abstract The effectiveness of most cancer targeted therapies is short-lived. Tumors often develop resistance that might be overcome with drug combinations. However, the number possible combinations vast, necessitating data-driven approaches to find optimal patient-specific treatments. Here we report AstraZeneca’s large combination dataset, consisting 11,576 experiments from 910 across 85 molecularly characterized cell lines, and results a DREAM Challenge evaluate computational strategies for...
It remains unclear whether causal, rather than merely correlational, relationships in molecular networks can be inferred complex biological settings. Here we describe the HPN-DREAM network inference challenge, which focused on learning causal influences signaling networks. We used phosphoprotein data from cancer cell lines as well silico a nonlinear dynamical model. Using data, scored more 2,000 submitted by challenge participants. The spanned 32 contexts and were terms of validity with...
Abstract Motivation: Identifying the cellular wiring that connects genomic perturbations to transcriptional changes in cancer is essential gain a mechanistic understanding of disease initiation, progression and ultimately predict drug response. We have developed method called Tied Diffusion Through Interacting Events (TieDIE) uses network diffusion approach connect gene expression characteristic subtypes. The computes subnetwork protein–protein interactions, predicted transcription...
Sickle-cell disease (SCD) is caused by an A·T-to-T·A transversion mutation in the β-globin gene (HBB). Here we show that prime editing can correct SCD allele (HBB
The genes encoding mouse and human acetylcholinesterases have been cloned from genomic cosmid libraries. Restriction analysis a comparison of sequence with the cDNAs defined exon-intron boundaries. In mammals, three invariant exons encode signal peptide amino-terminal 535 amino acids common to all forms enzyme whereas alternative exon usage next accounts for structural divergence in carboxyl termini catalytic subunits. mRNA protection studies show that cDNA hydrophilic subunits represents...
We present a novel regularization scheme called The Generalized Elastic Net (GELnet) that incorporates gene pathway information into feature selection. proposed formulation is applicable to wide variety of problems in which the interpretation predictive features using known molecular interactions desired. method naturally steers solutions toward sets mechanistically interlinked genes. Using experiments on synthetic data, we demonstrate pathway-guided results maintain, and often improve,...
Abstract Technology for measuring 3D genome topology is increasingly important studying gene regulation, assembly and mapping of rearrangements. Hi-C other ligation-based methods have become routine but specific biases. Here, we develop multiplex-GAM, a faster more affordable version architecture (GAM), ligation-free technique that maps chromatin contacts genome-wide. We perform detailed comparison multiplex-GAM using mouse embryonic stem cells. When examining the strongest detected by...
Abstract Haematopoietic stem cell (HSC) transplantation (HSCT) is the only curative treatment for a broad range of haematological malignancies, but standard care relies on untargeted chemotherapies and limited possibilities to treat malignant cells after HSCT without affecting transplanted healthy 1 . Antigen-specific cell-depleting therapies hold promise much more targeted elimination diseased cells, as witnessed in past decade by revolution clinical practice B malignancies 2 However,...
Prime editing is a revolutionary genome-editing technology that can make wide range of precise edits in DNA. However, designing highly efficient prime editors (PEs) remains challenging. We develop Easy-Prime, machine learning-based program trained with multiple published data sources. Easy-Prime captures both known and novel features, such as RNA folding structure, optimizes feature combinations to improve efficiency. provide optimized PE design for installation 89.5% 152,351 GWAS variants....
The 5'-untranslated region of the mouse acetylcholinesterase gene has been characterized structurally by RNase protection, primer extension, and sequencing. Evidence obtained for use two alternative promoters in brain. Tissue-specific splicing to acceptor sites exons occurs brain, muscle, erythropoietic cells. cis elements 5' cap site that is predominantly used these tissues cells have analyzed deletion analysis promoter-reporter constructs site-specific mutagenesis. found 107 base pairs...
We present multiwavelength observations of 3C 454.3 from April 2008 to March 2010. The radio optical data are mostly the GASP-WEBT, UV and X-ray Swift, gamma-ray AGILE Fermi satellites. improved calibration optical-UV UVOT OM instruments estimated Lyalpha flux disentangle contributions different components in this spectral region. reveal prominent variability above 8 GHz. In band, amplitude decreases with increasing frequency due a steadier radiation both broad line region an accretion disc....
Filarial nematodes can cause debilitating diseases in humans. They have complicated life cycles involving an insect vector and mammalian hosts, they go through a number of developmental molts. While whole genome sequences parasitic worms are now available, very little is known about transcription factor (TF) binding sites their cognate factors that play role regulating development. To address this gap, we developed novel motif prediction pipeline, Emotif Alpha, integrates ten different...
Abstract Sex determination mechanisms often differ even between related species yet the evolution of sex chromosomes remains poorly understood in all but a few model organisms. Some nematodes such as Caenorhabditis elegans have an XO system while others, filarial parasite Brugia malayi , XY mechanism. We present complete B. genome assembly and define Nigon elements shared with C. which we then map to genomes other more distantly nematodes. find remarkable plasticity chromosome several...