Chip sequencing databases

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August undefined, 2024

WebChIP-Seq Transcription Factor Motifs A vast majority of motifs in the HOMER motif database are based on the analysis of published ChIP-Seq data. Only high-quality ChIP … WebGenome-wide association studies have identified over 150 risk loci that increase prostate cancer risk. However, few causal variants and their regulatory mechanisms have been characterized. In this study, we utilized our previously developed single-nucleotide polymorphisms sequencing (SNPs-seq) technology to test allele-dependent protein …

Cistrome DB

WebWe also explored the ChIP-seq data in the Cistrome database to identify the relationship between FOXA1 and GJB1. Based on this analysis of the ChIP-seq data, we found that FOXA1 could bind to the GJB1 promoter . Furthermore, we performed ChIP-qPCR in cells of the OC cell lines A2780 or SKOV3 to further determine whether FOXA1 directly binds to ... Web13 rows · Recent advances in chromatin immunoprecipitation followed by sequencing ( … fix finder.com

Welcome to ChIPBase! - Sun Yat-sen University

WebThe ChIP-Seq Web Server provides access to a set of useful tools performing common ChIP-Seq data analysis tasks, including positional correlation analysis, peak detection, and genome partitioning into signal-rich and signal-poor regions. ... (MGA) database. MGA-Search: Fast full-text search of our local collection of publicly available datasets ... WebJan 14, 2024 · The ChIP-seq peaks and the protein-binding DNA motifs under them can be further analyzed, and the resulted data can be integrated into a higher level database, … WebA reference Next Generation Sequencing (NGS) database for genomic analysis in vision research. RetSeq Database: A public transcriptome & regulome atlas of the retina and … fix finder powered by innova

ChIPSummitDB: a ChIP-seq-based database of human …

Chip sequencing databases

ChIP-Seq: A Powerful Tool for Studying Protein-DNA ... - PubMed

WebApr 14, 2024 · By comparing the results of predicted TF binding sites from the JASPAR database , a peak fragment was identified from the Chip-seq data in the FN1 promotor region, which contained putative CEBPD ... WebDec 7, 2015 · 9 years of close collaboration with scientists in cancer genomic research, routinely working on varieties of next generation …

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WebCistrome Data Browser. A new portal to browser public ChIP-seq and DNase-seq datasets. Besides providing a comprehensive knowledgebase of all of the publicly available ChIP … WebDatabase of Genomic Structural Variation (dbVar) Database of Genotypes and Phenotypes (dbGaP) Database of Single Nucleotide Polymorphisms (dbSNP) SNP Submission Tool; …

WebOct 4, 2024 · ChIP-Atlas An integrative, comprehensive database to explore public Epigenetic dataset, including ChIP-Seq, DNase-Seq, ATAC-Seq, and Bisulfite-Seq data: ChIP-Atlas covers almost all public data archived in Sequence Read Archive of NCBI, … ChIP-Atlas: Peak Browser Visualizes protein binding on given genomic loci … ChIP-Atlas: Target Genes Predict target genes bound by given transcription … ChIP-Atlas: Colocalization Predict partner proteins colocalizing with given … ChIP-Atlas: Enrichment Analysis Predict proteins bound to given genomic loci … The list of publications that used ChIP-Atlas database. Toggle navigation ChIP-Atlas … ChIP-Atlas: Dataset Search Search for data by keywords Simple search Detailed … WebFeb 27, 2024 · ChIPSummitDB – A ChIP-seq-based database of human transcription factor binding sites and the topological arrangements of the proteins bound to them ; ChIPSummitDB contains ~4,000 uniformly processed human ChIP-seq data sets and determines the cistrome for 292 TFs together with the distances between the TF binding …

WebNov 18, 2016 · Here we present the ChIP-Seq command line tools and web server, implementing basic algorithms for ChIP-seq data analysis starting with a read … WebOct 29, 2024 · Overview of the Aging Atlas database. Aging Atlas provides a platform for joint analysis of aging-related omics data, as well as online tools to visualize and compare these data. The current implementation of Aging Atlas includes five modules: transcriptomics (RNA-seq), single-cell transcriptomics (scRNA-seq), epigenomics (ChIP-seq), …

WebChIPBase v3.0 identified ~151,187,000 regulatory relationships between ~171,600 genes and ~3,000 regulators by analyzing ~55,000 ChIP-seq datasets, which represent a 30-fold expansion. Moreover, we de novo identified ~29,000 motif matrices of transcription factors. In addition, we constructed a novel “Enhancer” module to predict ~1,837,200 regulation …

WebA biologist with extensive experience in functional genomics, bioinformatics and databases. In general, I'm passionate about FAIR and scalable … fix finder serviceWebAll ChIP-seq validated antibodies are first subjected to the ChIP-qPCR validation protocol. Antibody sensitivity for ChIP-seq is then confirmed by analyzing the signal:noise ratio of target enrichment across the genome in antibody:input control comparisons. The antibody must provide an acceptable minimum number of defined enrichment peaks and a ... fix finder for carsWeb• Generated, performed quality control and analyzed ~300 DNA (ChIP) and RNA sequencing data for ~20 stem cells, differentiation progenies, or reprogramming cells. can mold cause arthritisWebCaenorhabditis elegans, a free-living soil nematode, is widely used as a model organism. It is transparent, and consists of 959 somatic cells. This easily cultured worm provides a model for complex organ systems, as well as developmental biology and genetics. Caenorhabditis elegans was the first multicellular eukaryotic genome to be completely ... can mold cause a rash on skinWebMar 1, 2024 · 1. Introduction. Chromatin immunoprecipitation followed by sequencing (ChIP-seq) analysis is a ... can mold cause anxiety and depressionhttp://gtrd20-06.biouml.org/ fix fingernail clipperWebApr 16, 2024 · Our analysis of ChIP-seq data, integrating PPI and gene expression information, uncovered different modes by which interacting TFs are recruited to DNA. We further demonstrate the utility of our Drosophila interactome in shedding light on human TF-TF interactions. This study reveals how TFs interact to bind regulatory elements in vivo … can mold cause anxiety and panic attacks