Cargando…

Allele specific chromatin signals, 3D interactions, and motif predictions for immune and B cell related diseases

Several Genome Wide Association Studies (GWAS) have reported variants associated to immune diseases. However, the identified variants are rarely the drivers of the associations and the molecular mechanisms behind the genetic contributions remain poorly understood. ChIP-seq data for TFs and histone m...

Descripción completa

Detalles Bibliográficos
Autores principales:	Cavalli, Marco, Baltzer, Nicholas, Umer, Husen M., Grau, Jan, Lemnian, Ioana, Pan, Gang, Wallerman, Ola, Spalinskas, Rapolas, Sahlén, Pelin, Grosse, Ivo, Komorowski, Jan, Wadelius, Claes
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Nature Publishing Group UK 2019
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6389883/ https://www.ncbi.nlm.nih.gov/pubmed/30804403 http://dx.doi.org/10.1038/s41598-019-39633-0

Ejemplares similares

A Multi-Omics Approach to Liver Diseases: Integration of Single Nuclei Transcriptomics with Proteomics and HiCap Bulk Data in Human Liver
por: Cavalli, Marco, et al.
Publicado: (2020)

HiCapTools: a software suite for probe design and proximity detection for targeted chromosome conformation capture applications
por: Anil, Anandashankar, et al.
Publicado: (2018)

Functional annotation of noncoding mutations in cancer
por: Umer, Husen M, et al.
Publicado: (2021)

ChIP-seq in steatohepatitis and normal liver tissue identifies candidate disease mechanisms related to progression to cancer
por: Bysani, Madhusudhan, et al.
Publicado: (2013)

Maps of context-dependent putative regulatory regions and genomic signal interactions
por: Diamanti, Klev, et al.
Publicado: (2016)

Molecular interactions between HNF4a, FOXA2 and GABP identified at regulatory DNA elements through ChIP-sequencing
por: Wallerman, Ola, et al.
Publicado: (2009)

Cancer associated epigenetic transitions identified by genome-wide histone methylation binding profiles in human colorectal cancer samples and paired normal mucosa
por: Enroth, Stefan, et al.
Publicado: (2011)

High-Resolution Regulatory Maps Connect Vascular Risk Variants to Disease-Related Pathways
por: Åkerborg, Örjan, et al.
Publicado: (2019)

Allele-specific transcription factor binding to common and rare variants associated with disease and gene expression
por: Cavalli, Marco, et al.
Publicado: (2016)

lobChIP: from cells to sequencing ready ChIP libraries in a single day
por: Wallerman, Ola, et al.
Publicado: (2015)

Studies of liver tissue identify functional gene regulatory elements associated to gene expression, type 2 diabetes, and other metabolic diseases
por: Cavalli, Marco, et al.
Publicado: (2019)

Differential binding and co-binding pattern of FOXA1 and FOXA3 and their relation to H3K4me3 in HepG2 cells revealed by ChIP-seq
por: Motallebipour, Mehdi, et al.
Publicado: (2009)

Different distribution of histone modifications in genes with unidirectional and bidirectional transcription and a role of CTCF and cohesin in directing transcription
por: Bornelöv, Susanne, et al.
Publicado: (2015)

Multifaceted regulation of hepatic lipid metabolism by YY1
por: Pan, Gang, et al.
Publicado: (2021)

Nucleosome regulatory dynamics in response to TGFβ
por: Enroth, Stefan, et al.
Publicado: (2014)

Combinations of Histone Modifications Mark Exon Inclusion Levels
por: Enroth, Stefan, et al.
Publicado: (2012)

SICTIN: Rapid footprinting of massively parallel sequencing data
por: Enroth, Stefan, et al.
Publicado: (2010)

Performance of Mapping Approaches for Whole-Genome Bisulfite Sequencing Data in Crop Plants
por: Grehl, Claudius, et al.
Publicado: (2020)

InMoDe: tools for learning and visualizing intra-motif dependencies of DNA binding sites
por: Eggeling, Ralf, et al.
Publicado: (2017)

Whole-genome sequencing and gene network modules predict gemcitabine/carboplatin-induced myelosuppression in non-small cell lung cancer patients
por: Björn, Niclas, et al.
Publicado: (2020)

Looking beyond GWAS: allele-specific transcription factor binding drives the association of GALNT2 to HDL-C plasma levels
por: Cavalli, Marco, et al.
Publicado: (2016)

Transcriptional Analysis of Total CD8(+) T Cells and CD8(+)CD45RA(-) Memory T Cells From Young and Old Healthy Blood Donors
por: Toma, Georgiana, et al.
Publicado: (2022)

Identification of candidate regulatory SNPs by combination of transcription-factor-binding site prediction, SNP genotyping and haploChIP
por: Ameur, Adam, et al.
Publicado: (2009)

Peak Finder Metaserver - a novel application for finding peaks in ChIP-seq data
por: Kruczyk, Marcin, et al.
Publicado: (2013)

A general approach for discriminative de novo motif discovery from high-throughput data
por: Grau, Jan, et al.
Publicado: (2013)

DiffLogo: a comparative visualization of sequence motifs
por: Nettling, Martin, et al.
Publicado: (2015)

A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements
por: Enroth, Stefan, et al.
Publicado: (2012)

Divergent Evolution of the Transcriptional Network Controlled by Snf1-Interacting Protein Sip4 in Budding Yeasts
por: Mehlgarten, Constance, et al.
Publicado: (2015)

The BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation
por: Zhang, Wensheng, et al.
Publicado: (2019)

Intra- and inter-individual metabolic profiling highlights carnitine and lysophosphatidylcholine pathways as key molecular defects in type 2 diabetes
por: Diamanti, Klev, et al.
Publicado: (2019)

Author Correction: Intra- and inter-individual metabolic profiling highlights carnitine and lysophosphatidylcholine pathways as key molecular defects in type 2 diabetes
por: Diamanti, Klev, et al.
Publicado: (2019)

Integration of whole-body [(18)F]FDG PET/MRI with non-targeted metabolomics can provide new insights on tissue-specific insulin resistance in type 2 diabetes
por: Diamanti, Klev, et al.
Publicado: (2020)

Organ-specific metabolic pathways distinguish prediabetes, type 2 diabetes, and normal tissues
por: Diamanti, Klev, et al.
Publicado: (2022)

Combining phylogenetic footprinting with motif models incorporating intra-motif dependencies
por: Nettling, Martin, et al.
Publicado: (2017)

MotifAdjuster: a tool for computational reassessment of transcription factor binding site annotations
por: Keilwagen, Jens, et al.
Publicado: (2009)

User-Friendly Genetic Conditional Knockout Strategies by CRISPR/Cas9
por: Chen, Liangliang, et al.
Publicado: (2018)

Varying levels of complexity in transcription factor binding motifs
por: Keilwagen, Jens, et al.
Publicado: (2015)

Area under Precision-Recall Curves for Weighted and Unweighted Data
por: Keilwagen, Jens, et al.
Publicado: (2014)

PRROC: computing and visualizing precision-recall and receiver operating characteristic curves in R
por: Grau, Jan, et al.
Publicado: (2015)

Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study
por: Ambrosini, Giovanna, et al.
Publicado: (2020)

Cannot write session to /tmp/vufind_sessions/sess_actbq1b5a7fn21l0t3drfmtrsi