Chromatin structure of pluripotent stem cells and induced pluripotent stem cells.

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 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：:Omics, such as genomics, transcriptome and proteomics, has been affected by the era of big data. A huge amount of high dimensional and complex structured data has made it no longer applicable for conventional machine learning algorithms. Fortunately, deep learning technology can contribute toward resolving these chall...

journal_title：Briefings in functional genomics

authors： Zhang Z,Zhao Y,Liao X,Shi W,Li K,Zou Q,Peng S

更新日期：2019-02-14 00:00:00

abstract：:Lysine N-ε-acetylation is a post-translational modification that regulates the function of histone and non-histone proteins. In several malignancies, histone acetyltransferase (HAT) activities are disturbed as a consequence of various genetic or epigenetic alterations. In particular, HATs can function as tumor suppres...

journal_title：Briefings in functional genomics

authors： Di Cerbo V,Schneider R

更新日期：2013-05-01 00:00:00

abstract：:The Human Cell Atlas is a large, international consortium that aims to identify and describe every cell type in the human body. The comprehensive cellular maps that arise from this ambitious effort have the potential to transform many aspects of fundamental biology and clinical practice. Here, we discuss the technical...

journal_title：Briefings in functional genomics

authors： Hon CC,Shin JW,Carninci P,Stubbington MJT

更新日期：2018-07-01 00:00:00

abstract：:The human genome has an almost equal distribution of unique and transposable genetic elements. Although at the transcriptome level, a relatively higher contribution from transposable elements derived RNA has been reported. This is further highlighted with evidence from pervasive transcription. Of the total RNA, noncod...

journal_title：Briefings in functional genomics

authors： Chattopadhyay P,Srinivasa Vasudevan J,Pandey R

更新日期：2021-01-25 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：: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：:Defects in the initial establishment of cardiogenic cell fate are likely to contribute to pervasive human congenital cardiac abnormalities. However, the molecular underpinnings of nascent cardiac fate induction have proven difficult to decipher. In this review we explore the participation of extracellular, cellular an...

journal_title：Briefings in functional genomics

authors： Cota CD,Segade F,Davidson B

更新日期：2014-01-01 00:00:00

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：: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：: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：: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：: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：: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

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：: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 recent highlight of genomics research has been the discovery of many families of transcripts which have function but do not code for proteins. An important group is long noncoding RNAs (lncRNAs), which are typically longer than 200 nt, and whose members originate from thousands of loci across genomes. We review prog...

journal_title：Briefings in functional genomics

authors： Bai Y,Dai X,Harrison AP,Chen M

更新日期：2015-03-01 00:00:00

abstract：:Since the discovery of RNA splicing in 1977 the knowledge of this important biological process has increased steadily following the identification of many of the mechanistic features of splicing: from the basic cis-acting splicing signals, through the detail composition and dynamics of the spliceosome, to the role pla...

journal_title：Briefings in functional genomics

authors： Buratti E,Baralle M,Baralle FE

更新日期：2013-01-01 00:00:00

abstract：:The use of genetically isolated populations can empower next-generation association studies. In this review, we discuss the advantages of this approach and review study design and analytical considerations of genetic association studies focusing on isolates. We cite successful examples of using population isolates in ...

journal_title：Briefings in functional genomics

authors： Hatzikotoulas K,Gilly A,Zeggini E

更新日期：2014-09-01 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：: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：:Differential gene expression plays a critical role in the development and physiology of multicellular organisms. At a 'systems level' (e.g. at the level of a tissue, organ or whole organism), this process can be studied using gene regulatory network (GRN) models that capture physical and regulatory interactions betwee...

journal_title：Briefings in functional genomics

authors： Arda HE,Walhout AJ

更新日期：2010-01-01 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：: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：:Gastric cancer remains the second most common cause of cancer-related death worldwide. Because of the poor prognosis of late-stage gastric cancer patients, it is imperative to develop new strategies to improve the survival rate of this disease. Currently, immunotherapy is considered as an innovative approach for cance...

journal_title：Briefings in functional genomics

authors： Zhao Q,Cao L,Guan L,Bie L,Wang S,Xie B,Chen X,Shen X,Cao F

更新日期：2019-03-22 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：:High-throughput next-generation sequencing (NGS) technologies have rapidly generated a large volume of genomic data. To aid the development and evaluation of new statistical models and computational methods, NGS-based simulators have been proposed to construct better experimental workflows. However, the comparative pe...

journal_title：Briefings in functional genomics

authors： Zhao M,Liu D,Qu H

更新日期：2017-05-01 00:00:00