Topic: chromatin-interaction Goto Github
Some thing interesting about chromatin-interaction
Some thing interesting about chromatin-interaction
chromatin-interaction,
Organization: 3dgenomes
chromatin-interaction,A preprocessing and QC pipeline for HiChIP data
Organization: aryeelab
chromatin-interaction,LoopPredictor: Predicting unknown enhancer-mediated genome topology by an ensemble machine learning model
User: bioinfomaticscsu
chromatin-interaction,Code for my Master project
User: gabrielstav
Home Page: https://github.com/Gabrielstav/master
chromatin-interaction,RB represses cohesin-dependent loop formation and safeguards E2F-independent transcription
User: hanjunlee21
chromatin-interaction,Identification of dynamic changes in chromatin conformation is a fundamental task in genetics. In 2020, Galan et al. presented CHESS (Comparison of Hi-C Experiments using Structural Similarity), a novel computational algorithm designed for systematic identification of structural differences in chromatin-contact maps. Using CHESS, the same group recently reported that chromatin organization is largely maintained across tissues during dorsoventral patterning of fruit fly embryos despite tissue-specific chromatin states and gene expression. However, here we show that the primary outputs of CHESS–namely, the structural similarity index (SSIM) profiles–are nearly identical regardless of the input matrices, even when query and reference reads were shuffled to destroy any significant differences. This issue stems from the dominance of the regional counting noise arising from stochastic sampling in chromatin-contact maps, reflecting a fundamentally incorrect assumption of the CHESS algorithm. Therefore, biological interpretation of SSIM profiles generated by CHESS requires considerable caution.
User: hanjunlee21
chromatin-interaction,7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
User: ibn-salem
Home Page: https://ibn-salem.github.io/sevenC
chromatin-interaction,Bioinformatic analysis of RNA-Seq, WGBS, and Hi-C in Arabidopsis
User: linhua-sun
chromatin-interaction,An R package for analyzing UMI-4C chromatin contact data.
Organization: pasquali-lab
Home Page: https://pasquali-lab.github.io/UMI4Cats/
chromatin-interaction,3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process
User: sirusb
chromatin-interaction,
User: tanlabcode
chromatin-interaction,Scripts to create cartoons of 3D genomes
User: tzeitim
chromatin-interaction,Accurate and flexible loops calling tool for 3D genomic data.
User: yaqiangcao
Home Page: https://yaqiangcao.github.io/cLoops/
chromatin-interaction,Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
User: yaqiangcao
chromatin-interaction,HiSIF: Genome-wide chromatin interactions identify characteristic promoter-distal loops
User: yufanzhouonline
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