Cargando…

A Multigraph-Based Representation of Hi-C Data

Chromatin–chromatin interactions and three-dimensional (3D) spatial structures are involved in transcriptional regulation and have a decisive role in DNA replication and repair. To understand how individual genes and their regulatory elements function within the larger genomic context, and how the g...

Descripción completa

Detalles Bibliográficos
Autores principales:	Makai, Diána, Cseh, András, Sepsi, Adél, Makai, Szabolcs
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	MDPI 2022
Materias:	Technical Note
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9778156/ https://www.ncbi.nlm.nih.gov/pubmed/36553456 http://dx.doi.org/10.3390/genes13122189

Ejemplares similares

Rapid in-solution preparation of somatic and meiotic plant cell nuclei for high-quality 3D immunoFISH and immunoFISH-GISH
por: Makai, Diána, et al.
Publicado: (2023)

Loop detection using Hi-C data with HiCExplorer
por: Wolff, Joachim, et al.
Publicado: (2022)

HiView: an integrative genome browser to leverage Hi-C results for the interpretation of GWAS variants
por: Xu, Zheng, et al.
Publicado: (2016)

Sim3C: simulation of Hi-C and Meta3C proximity ligation sequencing technologies
por: DeMaere, Matthew Z, et al.
Publicado: (2017)

Hi-C chromosome conformation capture sequencing of avian genomes using the BGISEQ-500 platform
por: Sandoval-Velasco, Marcela, et al.
Publicado: (2020)

Modulation Spectral Signal Representation for Quality Measurement and Enhancement of Wearable Device Data: A Technical Note
por: Tiwari, Abhishek, et al.
Publicado: (2022)

Goodness of fit tests for random multigraph models
por: Shafie, Termeh
Publicado: (2022)

SHILO, a novel dual imaging approach for simultaneous HI-/LOw temporal (Low-/Hi-spatial) resolution imaging for vascular dynamic contrast enhanced cardiovascular magnetic resonance: numerical simulations and feasibility in the carotid arteries
por: Calcagno, Claudia, et al.
Publicado: (2013)

GrapHi-C: graph-based visualization of Hi-C datasets
por: MacKay, Kimberly, et al.
Publicado: (2018)

snHiC: a complete and simplified snakemake pipeline for grouped Hi-C data analysis
por: Gregoricchio, Sebastian, et al.
Publicado: (2023)

mBISON: Finding miRNA target over-representation in gene lists from ChIP-sequencing data
por: Gebhardt, Marie Luise, et al.
Publicado: (2015)

A Catalog of Regulatory Sequences for Trait Gene for the Genome Editing of Wheat
por: Makai, Szabolcs, et al.
Publicado: (2016)

Hydroxylamine‐Derived Reagent as a Dual Oxidant and Amino Group Donor for the Iron‐Catalyzed Preparation of Unprotected Sulfinamides from Thiols
por: Chatterjee, Sayanti, et al.
Publicado: (2020)

GOGrapher: A Python library for GO graph representation and analysis
por: Muller, Brian, et al.
Publicado: (2009)

A unified spatial multigraph analysis for public transport performance
por: Wang, Yaoli, et al.
Publicado: (2020)

HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data
por: Ye, Tiantian, et al.
Publicado: (2023)

scHiCDiff: detecting differential chromatin interactions in single-cell Hi-C data
por: Liu, Huiling, et al.
Publicado: (2023)

New solutions in IT Monitoring: cAdvisor and Collectd
por: Makai, Jozsef
Publicado: (2015)

Comparing the similarity and spatial structure of neural representations: A pattern-component model
por: Diedrichsen, Jörn, et al.
Publicado: (2011)

Learning Multigraph Node Embeddings Using Guided Lévy Flights
por: Roy, Aman, et al.
Publicado: (2020)

Disease gene identification by random walk on multigraphs merging heterogeneous genomic and phenotype data
por: Li, Yongjin, et al.
Publicado: (2012)

Comparison of the two up-to-date sequencing technologies for genome assembly: HiFi reads of Pacific Biosciences Sequel II system and ultralong reads of Oxford Nanopore
por: Lang, Dandan, et al.
Publicado: (2020)

Hi-Corrector: a fast, scalable and memory-efficient package for normalizing large-scale Hi-C data
por: Li, Wenyuan, et al.
Publicado: (2015)

scHiCNorm: a software package to eliminate systematic biases in single-cell Hi-C data
por: Liu, Tong, et al.
Publicado: (2018)

Non PCR-amplified Transcripts and AFLP fragments as reduced representations of the quail genome for 454 Titanium sequencing
por: Leroux, Sophie, et al.
Publicado: (2010)

The advent of electrophilic hydroxylamine-derived reagents for the direct preparation of unprotected amines
por: Gasser, Valentina C. M., et al.
Publicado: (2022)

Scool: a new data storage format for single-cell Hi-C data
por: Wolff, Joachim, et al.
Publicado: (2020)

HiC-spector: a matrix library for spectral and reproducibility analysis of Hi-C contact maps
por: Yan, Koon-Kiu, et al.
Publicado: (2017)

HTSlib: C library for reading/writing high-throughput sequencing data
por: Bonfield, James K, et al.
Publicado: (2021)

HiCBricks: building blocks for efficient handling of large Hi-C datasets
por: Pal, Koustav, et al.
Publicado: (2020)

HiCRep.py: fast comparison of Hi-C contact matrices in Python
por: Lin, Dejun, et al.
Publicado: (2021)

Exploring spatially adjacent TFBS-clustered regions with Hi-C data
por: Chen, Hebing, et al.
Publicado: (2017)

GITAR: An Open Source Tool for Analysis and Visualization of Hi-C Data
por: Calandrelli, Riccardo, et al.
Publicado: (2018)

Classifying Multigraph Models of Secondary RNA Structure Using Graph-Theoretic Descriptors
por: Knisley, Debra, et al.
Publicado: (2012)

Functional network estimation using multigraph learning with application to brain maturation study
por: Wang, Junqi, et al.
Publicado: (2021)

A Multigraph-Defined Distribution Function in a Simulation Model of a Communication Network
por: Miletic, Slobodan, et al.
Publicado: (2022)

ASaiM: a Galaxy-based framework to analyze microbiota data
por: Batut, Bérénice, et al.
Publicado: (2018)

PHi-C2: interpreting Hi-C data as the dynamic 3D genome state
por: Shinkai, Soya, et al.
Publicado: (2022)

Initial Operating Room Experience with Digital Variance Angiography in Carbon Dioxide-Assisted Lower Limb Interventions: A Pilot Study
por: Gyánó, Marcell, et al.
Publicado: (2020)

MGCAF: A Novel Multigraph Cross-Attention Fusion Method for Traffic Speed Prediction
por: Ma, Tian, et al.
Publicado: (2022)

Cannot write session to /tmp/vufind_sessions/sess_2o5h50o96f6nkar8trthu0e7b9