Chengxiang Qiu
A5007221570- Single-cell and spatial transcriptomics
- Renal Diseases and Glomerulopathies
- Birth, Development, and Health
- Chronic Kidney Disease and Diabetes
- Renal and related cancers
- Epigenetics and DNA Methylation
- Cancer-related molecular mechanisms research
- MicroRNA in disease regulation
- Genetic Associations and Epidemiology
- Genetic Syndromes and Imprinting
- RNA Research and Splicing
- RNA modifications and cancer
- Genomics and Chromatin Dynamics
- Pluripotent Stem Cells Research
- Plant biochemistry and biosynthesis
- Plant tissue culture and regeneration
- Congenital heart defects research
- Functional Brain Connectivity Studies
- Meningioma and schwannoma management
- Inflammasome and immune disorders
- Plant pathogens and resistance mechanisms
- Glioma Diagnosis and Treatment
- CRISPR and Genetic Engineering
- RNA and protein synthesis mechanisms
- Lipid metabolism and biosynthesis
University of Pennsylvania
2017-2025
University of Washington
2020-2024
Brotman Baty Institute
2022
Howard Hughes Medical Institute
2022
Institute of Nutrition, Metabolism and Diabetes
2021
University of Science and Technology Beijing
2016
Peking University
2009-2015
Temasek Life Sciences Laboratory
2010-2015
National University of Singapore
2009-2015
Institute of Automation
2012-2015
The Human microRNA Disease Database (HMDD; available via the Web site at http://cmbi.bjmu.edu.cn/hmdd and http://202.38.126.151/hmdd/tools/hmdd2.html) is a collection of experimentally supported human (miRNA) disease associations. Here, we describe HMDD v2.0 update that presented several novel options for users to facilitate exploration data in database. In updated database, miRNA–disease association were annotated more details. For example, from genetics, epigenetics, circulating miRNAs...
Touring the kidney, cell by Our kidneys play a critical role in keeping us healthy, fact of which we are reminded several times each day. This organ's cellular complexity has hindered progress understanding mechanisms underlying chronic kidney disease, affects 10% world's population. Using single-cell transcriptional profiling, Park et al. produced comprehensive atlas healthy mouse (see Perspective Humphreys). An unexpected type collecting duct appears to be transitional state between two...
In this article, we describe a long-non-coding RNA (lncRNA) and disease association database (LncRNADisease), which is publicly accessible at http://cmbi.bjmu.edu.cn/lncrnadisease. recent years, large number of lncRNAs have been identified increasing evidence shows that play critical roles in various biological processes. Therefore, the dysfunctions are associated with wide range diseases. It thus becomes important to understand lncRNAs’ diseases identify candidate for diagnosis, treatment...
MicroRNAs (miRNAs) regulate gene expression at the posttranscriptional level and are therefore important cellular components. As is true for protein-coding genes, transcription of miRNAs regulated by factors (TFs), an class regulators that act transcriptional level. The correct regulation TFs critical, increasing evidence indicates aberrant can cause phenotypic variations diseases. Therefore, a TF-miRNA database would be helpful understanding mechanisms which their contribution to In this...
Abstract The recognition between disease resistance (R) genes in plants and their cognate avirulence (Avr) pathogens can produce a hypersensitive response of localized programmed cell death. However, our knowledge the early signaling events R gene–mediated remains limited. Here, we report cloning characterization Xa10, transcription activator–like (TAL) effector-dependent gene for to bacterial blight rice (Oryza sativa). Xa10 contains binding element TAL effector AvrXa10 (EBE AvrXa10) its...
Abstract Embryonic stem (ES) cells can undergo many aspects of mammalian embryogenesis in vitro 1–5 , but their developmental potential is substantially extended by interactions with extraembryonic cells, including trophoblast (TS) endoderm (XEN) and inducible XEN (iXEN) 6–11 . Here we assembled cell-derived embryos from mouse ES TS iXEN showed that they recapitulate the development whole natural embryo utero up to day 8.5 post-fertilization. Our model displays headfolds defined forebrain...
Increased levels of the urinary albumin-to-creatinine ratio (UACR) are associated with higher risk kidney disease progression and cardiovascular events, but underlying mechanisms incompletely understood. Here, we conduct trans-ethnic (n = 564,257) European-ancestry specific meta-analyses genome-wide association studies UACR, including ancestry- diabetes-specific analyses, identify 68 UACR-associated loci. Genetic correlation analyses score associations in an independent electronic medical...
Chronic kidney disease (CKD) is defined by reduced estimated glomerular filtration rate (eGFR). Previous genetic studies have implicated regulatory mechanisms contributing to CKD. Here we present epigenome-wide association of eGFR and CKD using whole-blood DNA methylation 2264 ARIC Study 2595 Framingham Heart participants identify epigenetic signatures function. Of 19 CpG sites significantly associated (P < 1e-07) with eGFR/CKD replicated, five also associate renal fibrosis in biopsies from...
Significance Statement Although studies show that diabetic kidney disease has a heritable component, searches for the genetic determinants of this complication diabetes have had limited success. In study, new international genomics consortium, JDRF funded Diabetic Nephropathy Collaborative Research Initiative, assembled nearly 20,000 samples from participants with type 1 diabetes, and without disease. The authors found 16 disease–associated loci at genome-wide significance. strongest signal...
Mammalian embryogenesis is characterized by rapid cellular proliferation and diversification. Within a few weeks, single-cell zygote gives rise to millions of cells expressing panoply molecular programs. Although intensively studied, comprehensive delineation the major trajectories that comprise mammalian development in vivo remains elusive. Here, we set out integrate several RNA-sequencing (scRNA-seq) datasets collectively span mouse gastrulation organogenesis, supplemented with new...
Abstract The house mouse ( Mus musculus ) is an exceptional model system, combining genetic tractability with close evolutionary affinity to humans 1,2 . Mouse gestation lasts only 3 weeks, during which the genome orchestrates astonishing transformation of a single-cell zygote into free-living pup composed more than 500 million cells. Here, establish global framework for exploring mammalian development, we applied optimized combinatorial indexing profile transcriptional states 12.4 nuclei...
Kidney dysfunction is a major cause of mortality, but its genetic architecture remains elusive. In this study, we conducted multiancestry genome-wide association study in 2.2 million individuals and identified 1026 (97 previously unknown) independent loci. Ancestry-specific analysis indicated an attenuation newly signals on common variants European ancestry populations the power population diversity for further discoveries. We defined genotype effects allele-specific gene expression...
MicroRNAs (miRNAs) are small noncoding RNAs which play essential roles in many important biological processes. Therefore, their dysfunction is associated with a variety of human diseases, including cancer. Increasing evidence shows that miRNAs can act as oncogenes or tumor suppressors, and although there great interest research into these cancer-associated miRNAs, little known about them. In this study, we performed comprehensive analysis putative miRNA suppressors. We found suppressors...
Abstract Chronic kidney disease (CKD), defined by low estimated glomerular filtration rate (eGFR), contributes to global morbidity and mortality. Here we conduct a transethnic Genome-Wide Association Study of eGFR in 280,722 participants the Million Veteran Program (MVP), with replication 765,289 from Kidney Disease Genetics (CKDGen) Consortium. We identify 82 previously unreported variants, confirm 54 loci, report interesting findings including association sickle cell allele betaglobin...
Abstract Epigenetic changes might provide the biological explanation for long-lasting impact of metabolic alterations diabetic kidney disease development. Here we examined cytosine methylation human tubules using Illumina Infinium 450 K arrays from 91 subjects with and without diabetes varying degrees a cross-sectional design. We identify associated structural damage build model function decline. find that levels 65 probes are degree fibrosis at genome wide significance. In total 471 improve...
Genome-wide association studies (GWAS) for kidney function identified hundreds of risk regions; however, the causal variants, target genes, cell types, and disease mechanisms remain poorly understood. Here, we performed transcriptome-wide (TWAS), summary Mendelian randomization, MetaXcan to identify genes whose expression mediates genotype effect on phenotype. Our analyses Dachshund homolog 1 (DACH1), a cell-fate determination factor. GWAS variant was associated with lower DACH1 in human...