Prostate cancer invasion and metastasis: insights from mining genomic data.

abstract：:The presence of microchimeric cells is known for >100 years and well documented since decades. Earlier, microchimeric cells were mainly used for cell-based non-invasive prenatal diagnostics during early pregnancy. Microchimeric cells are also present beyond delivery and are associated to various autoimmune diseases, t...

journal_title：Briefings in functional genomics

authors： Ståhlberg A,El-Heliebi A,Sedlmayr P,Kroneis T

更新日期：2018-07-01 00:00:00

abstract：:The specificity of protein-DNA interactions can be determined directly by sequencing the bound and unbound fractions in a standard binding reaction. The procedure is easy and inexpensive, and the accuracy can be high for thousands of sequences assayed in parallel. From the measurements, simple models of specificity, s...

journal_title：Briefings in functional genomics

authors： Stormo GD,Zuo Z,Chang YK

更新日期：2015-01-01 00:00:00

abstract：:The involvement of epigenetic processes in the origin and progression of cancer is now widely appreciated. Consequently, targeting the enzymatic machinery that controls the epigenetic regulation of the genome has emerged as an attractive new strategy for therapeutic intervention. The development of epigenetic drugs re...

journal_title：Briefings in functional genomics

authors： Bartke T,Borgel J,DiMaggio PA

更新日期：2013-05-01 00:00:00

abstract：:The growing appreciation of the importance of long noncoding RNAs (lncRNAs), together with the awareness that some of these RNAs are associated with chromatin, has inspired the development of methods to detect their sites of interaction on a genome-wide scale at high resolution. Hybridization capture methods combine a...

journal_title：Briefings in functional genomics

authors： Machyna M,Simon MD

更新日期：2018-03-01 00:00:00

abstract：:The advent of high-throughput genomics techniques, along with the completion of genome sequencing projects, identification of protein-protein interactions and reconstruction of genome-scale pathways, has accelerated the development of systems biology research in the yeast organism Saccharomyces cerevisiae In particula...

journal_title：Briefings in functional genomics

authors： Hou J,Acharya L,Zhu D,Cheng J

更新日期：2016-03-01 00:00:00

abstract：:The epitome of any genome research is to identify all the existing genes in a genome and investigate their roles. Various techniques have been applied to unveil the functions either by silencing or over-expressing the genes by targeted expression or random mutagenesis. Rice is the most appropriate model crop for gener...

journal_title：Briefings in functional genomics

authors： Moin M,Bakshi A,Saha A,Dutta M,Kirti PB

更新日期：2017-07-01 00:00:00

abstract：:A central environment and interface for microRNA (miRNA) registry and repository and a general standardized framework for their systematic annotation was established over a decade ago. However, the numbers of experimentally and computationally identified miRNAs are swiftly accumulating, and new aspects of miRNA-mediat...

journal_title：Briefings in functional genomics

authors： Budak H,Bulut R,Kantar M,Alptekin B

更新日期：2016-01-01 00:00:00

abstract：:Research on plant three-dimensional (3D) genome architecture made rapid progress over the past 5 years. Numerous Hi-C interaction data sets were generated in a wide range of plant species, allowing for a comprehensive overview on 3D chromosome folding principles in the plant kingdom. Plants lack important genes report...

journal_title：Briefings in functional genomics

authors： Grob S

更新日期：2020-03-23 00:00:00

abstract：:The evolution of next-generation sequencing technologies has facilitated the detection of causal genetic variants in diseases previously undiagnosed at a molecular level. However, in genome sequencing studies, the identification of disease genes among a candidate gene list is often difficult because of the large numbe...

journal_title：Briefings in functional genomics

authors： Alyousfi D,Baralle D,Collins A

更新日期：2019-02-14 00:00:00

abstract：:Molecular network data are increasingly becoming available, necessitating the development of well performing computational tools for their analyses. Such tools enabled conceptually different approaches for exploring human diseases to be undertaken, in particular, those that study the relationship between a multitude o...

journal_title：Briefings in functional genomics

authors： Janjić V,Pržulj N

更新日期：2012-11-01 00:00:00

abstract：:A plant communicates within itself and with the outside world by deploying an array of agents that include several attractants by virtue of their color and smell. In this category, the contribution of 'carotenoids and apocarotenoids' is very significant. Apocarotenoids, the carotenoid-derived compounds, show wide repr...

journal_title：Briefings in functional genomics

authors： Dhar MK,Mishra S,Bhat A,Chib S,Kaul S

更新日期：2020-01-22 00:00:00

abstract：:Piwi-interacting RNAs (piRNAs) and CRISPR RNAs (crRNAs) are two recently discovered classes of small noncoding RNA that are found in animals and prokaryotes, respectively. Both of these novel RNA species function as components of adaptive immune systems that protect their hosts from foreign nucleic acids-piRNAs repres...

journal_title：Briefings in functional genomics

authors： Kumar MS,Chen KC

更新日期：2012-07-01 00:00:00

abstract：:Patterns of evolution in immune defense genes help to understand the evolutionary dynamics between hosts and pathogens. Multiple insect genomes have been sequenced, with many of them having annotated immune genes, which paves the way for a comparative genomic analysis of insect immunity. In this review, I summarize th...

journal_title：Briefings in functional genomics

authors： Viljakainen L

更新日期：2015-11-01 00:00:00

abstract：:Neisseria meningitidis is a strictly human pathogen and is one of the major causes of septicemia and meningitis worldwide. Functional genomics approaches have been extensively applied to study how N. meningitidis adapts to grow and survive in different human niches encountered during the infection. DNA microarrays per...

journal_title：Briefings in functional genomics

authors： Del Tordello E,Serruto D

更新日期：2013-07-01 00:00:00

abstract：:Acquisition of evolutionary novelties is a fundamental process for adapting to the external environment and invading new niches and results in the diversification of life, which we can see in the world today. How such novel phenotypic traits are acquired in the course of evolution and are built up in developing embryo...

journal_title：Briefings in functional genomics

authors： Moriyama Y,Koshiba-Takeuchi K

更新日期：2018-09-27 00:00:00

abstract：:Premature termination of transcription, or attenuation, is an efficient RNA-based regulatory strategy that is commonly used in bacterial organisms. Attenuators are generally located in the 50 untranslated regions of genes or operons and combine a Rho-independent terminator, controlling transcription, with an RNA eleme...

journal_title：Briefings in functional genomics

authors： Naville M,Gautheret D

更新日期：2010-03-01 00:00:00

abstract：:Aberrant DNA methylation is considered to be one of the most common hallmarks of cancer. Several recent advances in assessing the DNA methylome provide great promise for deciphering the cancer-specific DNA methylation patterns. Herein, we present the current key technologies used to detect high-throughput genome-wide ...

journal_title：Briefings in functional genomics

authors： Fan S,Chi W

更新日期：2016-11-01 00:00:00

abstract：:Submitting sequences to the National Center for Biotechnology Information (NCBI) is an integral part of research and the publication process for many disciplines within the life sciences, and it will only become more important as sequencing technologies continue to improve. Here, I argue that the available infrastruct...

journal_title：Briefings in functional genomics

authors： Smith DR

更新日期：2020-12-04 00:00:00

abstract：:RNA-seq is a methodology for RNA profiling based on next-generation sequencing that enables to measure and compare gene expression patterns at unprecedented resolution. Although the appealing features of this technique have promoted its application to a wide panel of transcriptomics studies, the fast-evolving nature o...

journal_title：Briefings in functional genomics

authors： Finotello F,Di Camillo B

更新日期：2015-03-01 00:00:00

abstract：:In the current era of epigenetics research, we have observed many examples of epigenetic modifications, like histone modification and DNA methylation, in various fatal diseases. These include solid tumors, hematological malignancies and viral infections with DNA or RNA viruses. The purpose of this review is to summari...

journal_title：Briefings in functional genomics

authors： Sen S,Maulik U

更新日期：2018-11-26 00:00:00

abstract：:Hemagglutinin (HA) is a transmembrane protein of the influenza A virus and a key component in its life cycle. The protein allows the virus to enter a host cell by recognizing specific glycans attached to transmembrane proteins of the host, which leads to viral endocytosis. In recent years, significant progress has bee...

journal_title：Briefings in functional genomics

authors： Lazniewski M,Dawson WK,Szczepinska T,Plewczynski D

更新日期：2018-11-26 00:00:00

abstract：:In order to better understand several cellular processes, it is helpful to study how various components make up the system. This systems perspective is supported by several modelling tools including network analysis. Networks of protein-protein interactions (PPI networks) offer a way to depict, visualize and quantify ...

journal_title：Briefings in functional genomics

authors： Jordán F,Nguyen TP,Liu WC

更新日期：2012-11-01 00:00:00

abstract：:Gene Set Enrichment (GSE) is a computational technique which determines whether a priori defined set of genes show statistically significant differential expression between two phenotypes. Currently, the gene sets used for GSE are derived from annotation or pathway databases, which often contain computationally based ...

journal_title：Briefings in functional genomics

authors： Davies MN,Meaburn EL,Schalkwyk LC

更新日期：2010-12-01 00:00:00

abstract：:Recent data have revealed that the paradigmatic tumour suppressor gene RB1 on chromosome 13 is preferentially expressed from the maternal allele. Imprinted expression of RB1 is linked to a differentially methylated CpG island in intron 2 of this gene (CpG 85). On the paternal chromosome, CpG 85 is unmethylated and act...

journal_title：Briefings in functional genomics

authors： Buiting K,Kanber D,Horsthemke B,Lohmann D

更新日期：2010-07-01 00:00:00

abstract：:Genome editing allows for the versatile genetic modification of somatic cells, germ cells and embryos. In particular, CRISPR/Cas9 is worldwide used in biomedical research. Although the first report on Cas9-mediated gene modification in human embryos focused on the prevention of a genetic disease in offspring, it raise...

journal_title：Briefings in functional genomics

authors： Ishii T

更新日期：2017-01-01 00:00:00

abstract：:Epigenetic memory represents a natural mechanism whereby the identity of a cell is maintained through successive cell cycles, allowing the specification and maintenance of differentiation during development and in adult cells. Cancer is a loss or reversal of the stable differentiated state of adult cells and may be me...

journal_title：Briefings in functional genomics

authors： Halley-Stott RP,Gurdon JB

更新日期：2013-05-01 00:00:00

abstract：:Genetic variation is crucial for successful barley improvement. Genomic technologies are improving dramatically and are providing access to the genetic diversity within this important crop species. Diverse collections of barley germplasm are being assembled and mined via genome-wide association studies and the identif...

journal_title：Briefings in functional genomics

authors： Muñoz-Amatriaín M,Cuesta-Marcos A,Hayes PM,Muehlbauer GJ

更新日期：2014-07-01 00:00:00

abstract：:Chronic infection of hepatitis C virus (HCV) leads to severe life-threatening liver diseases such as cirrhosis of liver, fibrosis and hepatocellular carcinoma (HCC). Severity of the disease infects >180 million people worldwide. In recent years, many computational approaches have been proposed to study and analyze the...

journal_title：Briefings in functional genomics

authors： Ray S,Maulik U,Mukhopadhyay A

更新日期：2018-11-26 00:00:00

abstract：:The polycomb group (PcG) proteins are key epigenetic regulators of gene expression in animals and plants. They act in multiprotein complexes, of which the best characterized is the polycomb repressive complex 2 (PRC2), which catalyses the trimethylation of histone H3 at lysine 27 (H3K27me3) at chromatin targets. In Ar...

journal_title：Briefings in functional genomics

authors： Huang Y,Chen DH,Liu BY,Shen WH,Ruan Y

更新日期：2017-03-01 00:00:00

abstract：:DNA methylation is an epigenetic modification of cytosines that undergoes dynamic changes in a temporal, spatial and cell-type-specific manner. Recent advances in technology have permitted the profiling of high-throughput methylomes in large numbers of biological samples. Various computational tools have been develope...

journal_title：Briefings in functional genomics

authors： Liu H,Li S,Wang X,Zhu J,Wei Y,Wang Y,Wen Y,Wang L,Huang Y,Zhang B,Shang S,Zhang Y

更新日期：2016-11-01 00:00:00