Abstract:
:The Gene Ontology (GO) provides a resource for consistent annotation of genes and gene products that is extensively used by numerous large public repositories. The GO is constructed of three subontologies describing the cellular component of action, molecular function, and overall biological process of a gene or gene product. Querying across the subontologies is problematic and no standard method exists to, for example, find all molecular functions occurring in a particular cellular component. GOLink addresses this problem by finding terms from all subontologies cooccurring with a term of interest in annotation across the entire GO database. Genes annotated with this term are exported and their GO annotation is assigned to three separate GOLink terms lists based on specific criteria. The software was used to predict the most likely Biological Process for a group of genes using just their Molecular Function terms giving sensitivity, specificity, and accuracy between 80 and 90% across all the terms lists. GOLink is made freely available for noncommercial use and can be downloaded from the project website.
journal_name
Int J Genomicsjournal_title
International journal of genomicsauthors
Francis RWdoi
10.1155/2013/594528subject
Has Abstractpub_date
2013-01-01 00:00:00pages
594528eissn
2314-436Xissn
2314-4378journal_volume
2013pub_type
杂志文章abstract::Cancer is a multistep process characterized by various and different genetic lesions which cause the transformation of normal cells into tumor cells. To preserve the genomic integrity, eukaryotic cells need a complex DNA damage/repair response network of signaling pathways, involving many proteins, able to induce cell...
journal_title:International journal of genomics
pub_type: 杂志文章,评审
doi:10.1155/2014/820248
更新日期:2014-01-01 00:00:00
abstract:Background:Chronic kidney disease (CKD) is characterized by progressive renal function loss, which may finally lead to end-stage renal disease (ESRD). The study is aimed at identifying crucial genes related to CKD progressive and constructing a disease prediction model to investigate risk factors. Methods:GSE97709 and...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2020/7524057
更新日期:2020-11-12 00:00:00
abstract:Purpose:Next-generation sequencing (NGS) has become more accessible, leading to an increasing number of genetic studies of familial bradycardia being reported. However, most of the variants lack full evaluation. The relationship between genetic factors and bradycardia should be summarized and reevaluated. Methods:We s...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2020/2415850
更新日期:2020-02-25 00:00:00
abstract::A population of 146 RILs (Recombinant Inbred Line) was derived from the cross between a cold-sensitive cultivated Solanum lycopersicum L. XF98-7 and a cold-tolerant wild Solanum pimpinellifolium LA2184. Relative germination ratio (RGR) and chilling index (CI) were used to evaluate the cold tolerance of the parental li...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2016/3219276
更新日期:2016-01-01 00:00:00
abstract::The threat of heat stress on crop production increased dramatically due to global warming leading to the rise on the demand of heat-tolerant crops and understanding their tolerance. The leguminous forage crop Guar [Cyamopsis tetragonoloba (L.) Taub] is a high-temperature tolerant plant with numerous works on its toler...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2020/3126592
更新日期:2020-06-19 00:00:00
abstract::The wild Rubus species R. coreanus, which is widely distributed in southwest China, shows great promise as a genetic resource for breeding. One of its outstanding properties is adaptation to high temperature and humidity. To facilitate its use in selection and breeding programs, we assembled de novo 179,738,287 R. cor...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2018/8084032
更新日期:2018-04-01 00:00:00
abstract::We screened bacteria that use E2 as its sole source of carbon and energy for growth and identified them as Rhodococcus, and we named them DSSKP-R-001. For a better understanding of the metabolic potential of the strain, whole genome sequencing of Rhodococcus DSSKP-R-001 and annotation of the functional genes were perf...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2018/3505428
更新日期:2018-10-28 00:00:00
abstract::The genera Actinobacillus, Haemophilus, and Pasteurella exhibit extensive polyphyletic branching in phylogenetic trees and do not represent coherent clusters of species. In this study, we have utilized molecular signatures identified through comparative genomic analyses in conjunction with genome based and multilocus ...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2015/198560
更新日期:2015-01-01 00:00:00
abstract::miRNAs are a class of noncoding RNAs important in posttranscriptional repressors and involved in the regulation of almost every biological process by base paring with target genes through sequence in their seed regions. Genetic variations in the seed regions have vital effects on gene expression, phenotypic variation,...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2018/2456076
更新日期:2018-03-06 00:00:00
abstract::The purpose of this work was to study changes in the level of cell-free DNA (cfDNA) in the blood of young and old rats in the normal state and with induced benign prostatic hyperplasia (BPH). Male Wistar rats were divided into 4 groups-young (3 months), old (20 months), intact, or with testosterone-induced BPH. Groups...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2019/8173630
更新日期:2019-06-02 00:00:00
abstract::In general, mutation frequencies are context-dependent: specific adjacent nucleotides may influence the probability to observe a specific type of mutation in a genome. Recently, several hypermutable motifs were identified in the human genome. Namely, there is an increased frequency of T>C mutations in the second posit...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2013/173616
更新日期:2013-01-01 00:00:00
abstract::Taxol is one of the most potent and effective anticancer drugs and is originally isolated from Taxus species. To investigate the specific regulatory mechanisms of taxol synthesis in Taxus wallichiana var. mairei, RNA-seq was conducted to reveal the differences in transcriptional levels between wild type (WT) and "Jinx...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2019/1596895
更新日期:2019-05-02 00:00:00
abstract::TSEN54 encodes a subunit of the tRNA-splicing endonuclease complex, which catalyzes the identification and cleavage of introns from precursor tRNAs. Previously, we identified an AluSx-derived alternative transcript in TSEN54 of cynomolgus monkey. Reverse transcription-polymerase chain reaction (RT-PCR) amplification a...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2016/1679574
更新日期:2016-01-01 00:00:00
abstract::The HIV-1 virus (human immunodeficiency virus) affects 36.9 million people worldwide, with approximately 900000 deaths in 2017. The virus carrier can develop severe immunodeficiency since CD4+ T lymphocytes are the main target, leading to acquired immunodeficiency syndrome (AIDS). Despite advances in pharmacological t...
journal_title:International journal of genomics
pub_type: 杂志文章,评审
doi:10.1155/2019/8458263
更新日期:2019-08-21 00:00:00
abstract::Simple sequence repeats (SSRs) are among the most important markers for population analysis and have been widely used in plant genetic mapping and molecular breeding. Expressed sequence tag-SSR (EST-SSR) markers, located in the coding regions, are potentially more efficient for QTL mapping, gene targeting, and marker-...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2015/473028
更新日期:2015-01-01 00:00:00
abstract::Osteoporosis is a serious public health issue, which is mostly characterized by low bone mineral density (BMD). To search for additional genetic susceptibility loci underlying BMD variation, an effective strategy is to focus on testing of specific variants with high potential of functional effects. Single nucleotide p...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2018/6407257
更新日期:2018-08-07 00:00:00
abstract::Sweet sorghum (Sorghum bicolor) is one of the most important cereal crops in the world with colorful seeds. To study the diversity and cultivar-specificity of phytochemicals in sweet sorghum seeds, widely targeted metabolomics was used to analyze the metabolic profiles of the white, red, and purple seeds from three sw...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2020/6247429
更新日期:2020-03-04 00:00:00
abstract::Cardiovascular disease is a leading cause of death in both humans and dogs. Dilated cardiomyopathy (DCM) accounts for a large number of these cases, reported to be the third most common form of cardiac disease in humans and the second most common in dogs. In human studies of DCM there are more than 50 genetic loci ass...
journal_title:International journal of genomics
pub_type: 杂志文章,评审
doi:10.1155/2015/204823
更新日期:2015-01-01 00:00:00
abstract:Background:Nonalcoholic fatty liver disease (NAFLD) has become a leading cause of liver transplantation. Lingguizhugan decoction (LGZG), a classical Chinese herbal formula, has beneficial effects on NAFLD animal models. Our study examined the impact of LGZG on hepatic global transcriptome of high-fat-diet-induced NAFLD...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2017/2790864
更新日期:2017-01-01 00:00:00
abstract::Drought is the main environmental factor impairing hemp growth and yield. In order to decipher the molecular responses of hemp to drought stress, transcriptome changes of drought-stressed hemp (DS1 and DS2), compared to well-watered control hemp (CK1 and CK2), were studied with RNA-Seq technology. RNA-Seq generated 9....
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2018/3057272
更新日期:2018-05-15 00:00:00
abstract::To explore heat response mechanisms of mircoRNAs (miRNAs) in rice post-meiosis panicle, microarray analysis was performed on RNA isolated from rice post-meiosis panicles which were treated at 40°C for 0 min, 10 min, 20 min, 60 min, and 2 h. By integrating paired differentially expressed (DE) miRNAs and mRNA expression...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2020/7582612
更新日期:2020-09-17 00:00:00
abstract::Paulownia witches' broom caused by phytoplasma infection affects the production of Paulownia trees worldwide. Emerging evidence showed that long noncoding RNAs (lncRNA) play a protagonist role in regulating the expression of genes in plants. So far, the identification of lncRNAs has been limited to a few model plant s...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2018/3174352
更新日期:2018-02-21 00:00:00
abstract::The Chinese Kunming (KM) mouse is a widely used outbred mouse stock in China. However, its genetic structure remains unclear. In this study, we sequenced the genome of the C57BL/6J-Chr1KM (B6-Chr1KM) strain, the chromosome 1 (Chr 1) of which was derived from one KM mouse. With 36.6× average coverage of the entire geno...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2017/1712530
更新日期:2017-01-01 00:00:00
abstract::The urinary metabolomic study based on gas chromatography-mass spectrometry (GC-MS) had been developed to investigate the possible antidepressant mechanism of chlorogenic acid (CGA) in a rat model of sleep deprivation (SD). According to pattern recognition analysis, there was a clear separation among big platform grou...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2018/1361402
更新日期:2018-02-11 00:00:00
abstract::Calmodulin II (CALM2) gene polymorphism might be responsible for the variation in the left ventricular mass amongst healthy individuals. The aim was to evaluate the correlation between left ventricular mass (LVM) and g.474955027G>A (rs7565161) polymorphism adjacent to the CALM2 gene. Healthy Polish newborns (n = 206) ...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2013/410407
更新日期:2013-01-01 00:00:00
abstract::Deep-sea fishes provide a unique opportunity to study the physiology and evolutionary adaptation to extreme environments. We carried out a high throughput sequencing analysis on a 454 GS-FLX titanium plate using unnormalized cDNA libraries from six tissues of A. carbo. Assemblage and annotations were performed by Newb...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2014/267482
更新日期:2014-01-01 00:00:00
abstract::We characterized the male-specific region on the Y chromosome of rainbow trout, which contains both sdY (the sex-determining gene) and the male-specific genetic marker, OmyY1. Several clones containing the OmyY1 marker were screened from a BAC library from a YY clonal line and found to be part of an 800 kb BAC contig....
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2013/261730
更新日期:2013-01-01 00:00:00
abstract::Photobacterium damselae subsp. damselae (PDD) is a Gram-negative bacterium that can infect a variety of aquatic organisms and humans. Based on an epidemiological investigation conducted over the past 3 years, PDD is one of the most important pathogens causing septic skin ulcer in deep-sea cage-cultured Sebastes schleg...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2019/4242653
更新日期:2019-04-10 00:00:00
abstract::To better understand the molecular functions of the master stress-response regulator AtfA in Aspergillus nidulans, transcriptomic analyses of the atfA null mutant and the appropriate control strains exposed to menadione sodium bisulfite- (MSB-), t-butylhydroperoxide- and diamide-induced oxidative stresses were perform...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2017/6923849
更新日期:2017-01-01 00:00:00
abstract::Insulin resistance has a central role in the pathogenesis of several metabolic diseases, including type 2 diabetes, obesity, glucose intolerance, metabolic syndrome, atherosclerosis, and cardiovascular diseases. Insulin resistance and related traits are likely to be caused by abnormalities in the genes encoding for pr...
journal_title:International journal of genomics
pub_type: 杂志文章
doi:10.1155/2013/376454
更新日期:2013-01-01 00:00:00