A decade of 3C technologies: insights into nuclear organization
Over the past 10 years, the development of chromosome conformation capture (3C)
technology and the subsequent genomic variants thereof have enabled the analysis of …
technology and the subsequent genomic variants thereof have enabled the analysis of …
[HTML][HTML] Advanced cell culture techniques for cancer drug discovery
CJ Lovitt, TB Shelper, VM Avery - Biology, 2014 - mdpi.com
Human cancer cell lines are an integral part of drug discovery practices. However, modeling
the complexity of cancer utilizing these cell lines on standard plastic substrata, does not …
the complexity of cancer utilizing these cell lines on standard plastic substrata, does not …
Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression
Trait-associated genetic variants affect complex phenotypes primarily via regulatory
mechanisms on the transcriptome. To investigate the genetics of gene expression, we …
mechanisms on the transcriptome. To investigate the genetics of gene expression, we …
[HTML][HTML] Global detection of human variants and isoforms by deep proteome sequencing
An average shotgun proteomics experiment detects approximately 10,000 human proteins
from a single sample. However, individual proteins are typically identified by peptide …
from a single sample. However, individual proteins are typically identified by peptide …
[HTML][HTML] Proteogenomic analysis of human colon cancer reveals new therapeutic opportunities
We performed the first proteogenomic study on a prospectively collected colon cancer
cohort. Comparative proteomic and phosphoproteomic analysis of paired tumor and normal …
cohort. Comparative proteomic and phosphoproteomic analysis of paired tumor and normal …
[HTML][HTML] iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data
Background RNA-seq is widely used for transcriptomic profiling, but the bioinformatics
analysis of resultant data can be time-consuming and challenging, especially for biologists …
analysis of resultant data can be time-consuming and challenging, especially for biologists …
Dynamic incorporation of multiple in silico functional annotations empowers rare variant association analysis of large whole-genome sequencing studies at scale
Large-scale whole-genome sequencing studies have enabled the analysis of rare variants
(RVs) associated with complex phenotypes. Commonly used RV association tests have …
(RVs) associated with complex phenotypes. Commonly used RV association tests have …
TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data
Abstract The Cancer Genome Atlas (TCGA) research network has made public a large
collection of clinical and molecular phenotypes of more than 10 000 tumor patients across …
collection of clinical and molecular phenotypes of more than 10 000 tumor patients across …
The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins
AD Rouillard, GW Gundersen, NF Fernandez… - Database, 2016 - academic.oup.com
Genomics, epigenomics, transcriptomics, proteomics and metabolomics efforts rapidly
generate a plethora of data on the activity and levels of biomolecules within mammalian …
generate a plethora of data on the activity and levels of biomolecules within mammalian …
Association analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations
Ulcerative colitis and Crohn's disease are the two main forms of inflammatory bowel disease
(IBD). Here we report the first trans-ancestry association study of IBD, with genome-wide or …
(IBD). Here we report the first trans-ancestry association study of IBD, with genome-wide or …