Abstract:
:Ever since DNA microarrays were first applied to the quantitation of RNA levels, there has been considerable interest in generating a protein homolog that can be used to assay cellular protein expression. A recent paper describes the first microarray that can be used for such protein profiling.
journal_name
Genome Bioljournal_title
Genome biologyauthors
Tomlinson IM,Holt LJdoi
10.1186/gb-2001-2-2-reviews1004keywords:
subject
Has Abstractpub_date
2001-01-01 00:00:00pages
REVIEWS1004issue
2eissn
1474-7596issn
1474-760Xjournal_volume
2pub_type
杂志文章,评审相关文献
GENOME BIOLOGY文献大全abstract::The genetic and molecular analysis of circadian timekeeping mechanisms has accelerated as a result of the increasing volume of genomic markers and nucleotide sequence information. Completion of whole genome sequences and the use of differential gene expression technology will hasten the discovery of the clock output p...
journal_title:Genome biology
pub_type: 杂志文章,评审
doi:10.1186/gb-2000-1-4-reviews1023
更新日期:2000-01-01 00:00:00
abstract::Reliable orthology prediction is central to comparative genomics. Although orthology is defined by phylogenetic criteria, most automated prediction methods are based on pairwise sequence comparisons. Recently, automated phylogeny-based orthology prediction has emerged as a feasible alternative for genome-wide studies....
journal_title:Genome biology
pub_type: 杂志文章,评审
doi:10.1186/gb-2008-9-10-235
更新日期:2008-10-30 00:00:00
abstract:BACKGROUND:Obesity is a particularly complex disease that at least partially involves genetic and environmental perturbations to gene-networks connecting the hypothalamus and several metabolic tissues, resulting in an energy imbalance at the systems level. RESULTS:To provide an inter-tissue view of obesity with respec...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2009-10-5-r55
更新日期:2009-01-01 00:00:00
abstract::The mouse is an important model of human genetic disease. Describing phenotypes of mutant mice in a standard, structured manner that will facilitate data mining is a major challenge for bioinformatics. Here we describe a novel, compositional approach to this problem which combines core ontologies from a variety of sou...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2004-6-1-r8
更新日期:2005-01-01 00:00:00
abstract:BACKGROUND:Complete genomic sequences of closely related organisms, such as the chlamydiae, afford the opportunity to assess significant strain differences against a background of many shared characteristics. The chlamydiae are ubiquitous intracellular parasites that are important pathogens of humans and other organism...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2002-3-9-research0051
更新日期:2002-08-29 00:00:00
abstract:BACKGROUND:DNA damage leads to cellular responses that include the increased expression of DNA repair genes, repression of DNA replication and alterations in cellular metabolism. Archaeal information processing pathways resemble those in eukaryotes, but archaeal damage response pathways remain poorly understood. RESUL...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2007-8-10-r220
更新日期:2007-01-01 00:00:00
abstract:BACKGROUND:The cellular mechanisms that underlie metal toxicity and detoxification are rather variegated and incompletely understood. Genomic phenotyping was used to assess the roles played by all nonessential Saccharomyces cerevisiae proteins in modulating cell viability after exposure to cadmium, nickel, and other me...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2008-9-4-r67
更新日期:2008-04-07 00:00:00
abstract:BACKGROUND:Protein domains are commonly used to assess the functional roles and evolutionary relationships of proteins and protein families. Here, we use the Pfam protein family database to examine a set of candidate partial domains. Pfam protein domains are often thought of as evolutionarily indivisible, structurally ...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-015-0656-7
更新日期:2015-05-15 00:00:00
abstract::Two recent studies demonstrate the power of integrating tumor genotype information with epigenetic and proteomic studies to discover potential therapeutic targets in breast cancer. ...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-017-1238-7
更新日期:2017-05-22 00:00:00
abstract::Vascular endothelia comprise a diverse population of cells that specialize in response to genetic programs and environmental cues to take on distinct roles in different vessels, tissues, and organs, and in response to pathophysiological stresses. Characterization of endothelial-cell diversity will facilitate the devel...
journal_title:Genome biology
pub_type: 杂志文章,评审
doi:10.1186/gb-2004-5-2-207
更新日期:2004-01-01 00:00:00
abstract:BACKGROUND:Neuropsychiatric disorders are common forms of disability in humans. Despite recent progress in deciphering the genetics of these disorders, their phenotypic complexity continues to be a major challenge. Mendelian neuropsychiatric disorders are rare but their study has the potential to unravel novel mechanis...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-016-1061-6
更新日期:2016-09-27 00:00:00
abstract:BACKGROUND:Gene duplication followed by divergence is one of the main sources of metabolic versatility. The patchwork and stepwise models of metabolic evolution help us to understand these processes, but their assumptions are relatively simplistic. We used a network-based approach to determine the influence of metaboli...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2007-8-2-r26
更新日期:2007-01-01 00:00:00
abstract:BACKGROUND:Malaria is a one of the most important infectious diseases and is caused by parasitic protozoa of the genus Plasmodium. Previously, quantitative characterization of the P. falciparum transcriptome demonstrated that the strictly controlled progression of these parasites through their intra-erythrocytic develo...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2008-9-12-r177
更新日期:2008-01-01 00:00:00
abstract:BACKGROUND:The C2H2 zinc finger (C2H2-ZF) is the most numerous protein domain in many metazoans, but is not as frequent or diverse in other eukaryotes. The biochemical and evolutionary mechanisms that underlie the diversity of this DNA-binding domain exclusively in metazoans are, however, mostly unknown. RESULTS:Here,...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-017-1287-y
更新日期:2017-09-06 00:00:00
abstract::A central goal of biogerontology is to identify robust gene-expression biomarkers of aging. Here we develop a method where the biomarkers are networks of genes selected based on age-dependent activity and a graph-theoretic property called modularity. Tested on Caenorhabditis elegans, our algorithm yields better biomar...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2010-11-2-r13
更新日期:2010-01-01 00:00:00
abstract::Through understanding the intricacies of host-pathogen interactions, it is now possible to inhibit the growth of microbes, especially viruses, by targeting host-cell proteins and functions. This new antimicrobial strategy has proved effective in the laboratory and in the clinic, and it has great potential for the futu...
journal_title:Genome biology
pub_type: 杂志文章,评审
doi:10.1186/gb-2006-7-1-201
更新日期:2006-01-01 00:00:00
abstract:BACKGROUND:Structural variations (SVs) or copy number variations (CNVs) greatly impact the functions of the genes encoded in the genome and are responsible for diverse human diseases. Although a number of existing SV detection algorithms can detect many types of SVs using whole genome sequencing (WGS) data, no single a...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-019-1720-5
更新日期:2019-06-03 00:00:00
abstract::Interpretation of the clinical significance of genomic alterations remains the most severe bottleneck preventing the realization of personalized medicine in cancer. We propose a knowledge commons to facilitate collaborative contributions and open discussion of clinical decision-making based on genomic events in cancer...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-014-0438-7
更新日期:2014-08-27 00:00:00
abstract:BACKGROUND:Short-term laboratory evolution of bacteria followed by genomic sequencing provides insight into the mechanism of adaptive evolution, such as the number of mutations needed for adaptation, genotype-phenotype relationships, and the reproducibility of adaptive outcomes. RESULTS:In the present study, we descri...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2009-10-10-r118
更新日期:2009-01-01 00:00:00
abstract:BACKGROUND:Structural variants (SVs) are known to play important roles in a variety of cancers, but their origins and functional consequences are still poorly understood. Many SVs are thought to emerge from errors in the repair processes following DNA double strand breaks (DSBs). RESULTS:We used experimentally quantif...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-019-1635-1
更新日期:2019-02-08 00:00:00
abstract:BACKGROUND:Targeted deep sequencing is increasingly used to detect low-allelic fraction variants; it is therefore essential that errors that constitute baseline noise and impose a practical limit on detection are characterized. In the present study, we systematically evaluate the extent to which errors are incurred dur...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-017-1275-2
更新日期:2017-07-21 00:00:00
abstract::The spatial organization of chromatin in the nucleus has been implicated in regulating gene expression. Maps of high-frequency interactions between different segments of chromatin have revealed topologically associating domains (TADs), within which most of the regulatory interactions are thought to occur. TADs are not...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-019-1893-y
更新日期:2019-12-18 00:00:00
abstract::The subcellular localization of the entire proteome of an organism, the yeast Saccharomyces cerevisiae, has been revealed for the first time. Comparison with less comprehensive studies of mammalian cells provides insights into the localization of the mammalian proteome. ...
journal_title:Genome biology
pub_type: 杂志文章,评审
doi:10.1186/gb-2003-4-12-240
更新日期:2003-01-01 00:00:00
abstract::A report on the 11th Cold Spring Harbor Laboratory/Wellcome Trust conference on Genome Informatics, Cold Spring Harbor Laboratories, New York, USA, November 2-5, 2011. ...
journal_title:Genome biology
pub_type:
doi:10.1186/gb-2011-12-12-310
更新日期:2011-12-28 00:00:00
abstract:BACKGROUND:The role played by microRNAs (miRs) as common regulators in physiologic processes such as development and various disease states was recently highlighted. Retinitis pigmentosa (RP) linked to RHO (which encodes rhodopsin) is the most frequent form of inherited retinal degeneration that leads to blindness, for...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2007-8-11-r248
更新日期:2007-01-01 00:00:00
abstract:BACKGROUND:Although genetic or epigenetic alterations have been shown to affect the three-dimensional organization of genomes, the utility of chromatin conformation in the classification of human disease has never been addressed. RESULTS:Here, we explore whether chromatin conformation can be used to classify human leu...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2014-15-4-r60
更新日期:2014-04-30 00:00:00
abstract::Studies of human genetic disorders have traditionally followed a reductionist paradigm. Traits are defined as Mendelian or complex based on family pedigree and population data, whereas alleles are deemed rare, common, benign, or deleterious based on their population frequencies. The availability of exome and genome da...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/s13059-016-1107-9
更新日期:2016-11-17 00:00:00
abstract::Proteins of the phytochrome superfamily of red/far-red light receptors have a variety of biological roles in plants, algae, bacteria and fungi and demonstrate a diversity of spectral sensitivities and output signaling mechanisms. Over the past few years the first three-dimensional structures of phytochrome light-sensi...
journal_title:Genome biology
pub_type: 杂志文章,评审
doi:10.1186/gb-2008-9-8-230
更新日期:2008-01-01 00:00:00
abstract::Genomic and proteomic studies have identified hundreds of proteins from mitochondria. A recent study has added a functional twist to these systematic approaches and identified novel mitochondrial modifiers and regulators. ...
journal_title:Genome biology
pub_type: 杂志文章,评审
doi:10.1186/gb-2008-9-2-209
更新日期:2008-01-01 00:00:00
abstract:BACKGROUND:Two distinct classes of regulators have been implicated in regulating neuronal gene expression and mediating neuronal identity: transcription factors such as REST/NRSF (RE1 silencing transcription factor) and CREB (cAMP response element-binding protein), and microRNAs (miRNAs). How these two classes of regul...
journal_title:Genome biology
pub_type: 杂志文章
doi:10.1186/gb-2006-7-9-r85
更新日期:2006-01-01 00:00:00