Abstract:
:Hepatocellular carcinoma (HCC) is one of the most heterogeneous malignant cancers with no effective targets and treatments. However, the molecular pathogenesis of HCC remains largely uncertain. The aims of our study were to find crucial genes involved in HCC through multidimensional methods and revealed potential molecular mechanisms. Here, we reported the gene expression profile GSE121248 findings from 70 HCC and 37 adjacent normal tissues, all of which had chronic hepatitis B virus (HBV) infection, we were seeking to identify the dysregulated pathways, crucial genes and therapeutic targets implicated in HBV-associated HCC. We found 164 differentially expressed genes (DEGs) (92 downregulated genes and 72 upregulated genes). Gene ontology (GO) analysis of DEGs revealed significant functional enrichment of mitotic nuclear division, cell division, and the epoxygenase P450 pathway. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that the DEGs were mainly enriched in metabolism, cell cycle regulation and the p53 signaling pathway. The Mcode plugin was calculated to construct a module complex of DEGs, and the module was mainly enriched in cell cycle checkpoints, RHO GTPase effectors and cytochrome P450. Considering a weak contribution of each gene, gene set enrichment analysis (GSEA) was performed, revealing results consistent with those described above. Six crucial proteins were selected based on the degree of centrality, including NDC80, ESR1, ZWINT, NCAPG, ENO3 and CENPF. Real-time quantitative PCR analysis validated the six crucial genes had the same expression trend as predicted. Furthermore, the methylation data of The Cancer Genome Atlas (TCGA) with HCC showed that mRNA expression of crucial genes was negatively correlated with methylation levels of their promoter region. The overall survival reflected that high expression of NDC80, CENPF, ZWINT, and NCAPG significantly predicted poor prognosis, whereas ESR1 high expression exhibited a favorable prognosis. The identification of the crucial genes and pathways would contribute to the development of novel molecular targets and biomarker-driven treatments for HCC.
journal_name
PeerJjournal_title
PeerJauthors
Liu ZK,Zhang RY,Yong YL,Zhang ZY,Li C,Chen ZN,Bian Hdoi
10.7717/peerj.7436subject
Has Abstractpub_date
2019-08-08 00:00:00pages
e7436issn
2167-8359pii
7436journal_volume
7pub_type
杂志文章相关文献
PeerJ文献大全abstract::Sea cucumbers possess the remarkable capacity to regenerate their body parts or organs. Regeneration of host organs and/or body parts involves reconstruction of the host associated microbiota, however, the dynamics and contribution of microbiota to the regeneration process are largely unknown due to a lack of experime...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.10260
更新日期:2020-12-01 00:00:00
abstract:BACKGROUND:Cancer research is a national and international priority, with the efficiency and effectiveness of current anti-tumor therapies being one of the major challenges with which physicians are faced. OBJECTIVE:To assess the impact of exposure to tobacco smoke, arsenic, and phthalates on cervical cancer treatment...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.2448
更新日期:2016-09-08 00:00:00
abstract::Although the existence of coral-reef habitats at depths to 165 m in tropical regions has been known for decades, the richness, diversity, and ecological importance of mesophotic coral ecosystems (MCEs) has only recently become widely acknowledged. During an interdisciplinary effort spanning more than two decades, we c...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.2475
更新日期:2016-10-04 00:00:00
abstract::Soil sickness is the progressive loss of soil quality due to continuous monocropping. The bacterial populations are critical to sustaining agroecosystems, but their responses to long-term peanut monocropping have not been determined. In this study, based on a previously constructed gradient of continuous monocropped p...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.9024
更新日期:2020-04-28 00:00:00
abstract::Sex reversal is a complex biological phenomenon exhibited by Cynoglossus semilaevis. Some genetic females may irreversibly convert to pseudomales, thus increasing aquaculture costs because males grow much more slowly than females. In this study, an integrative analysis of transcriptome and proteome was performed to co...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.8801
更新日期:2020-03-19 00:00:00
abstract::Language WorkBenches (LWBs) are software engineering tools that help domain experts develop solutions to various classes of problems. Some of these tools focus on non-technical users and provide languages to help organize knowledge while other workbenches provide means to create new programming languages. A key advant...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.241
更新日期:2014-01-02 00:00:00
abstract::The goal of this study was to assess the diagnostic accuracy of acute phase proteins and proinflammatory cytokines in sheep with pneumonic pasteurellosis. Blood samples were collected from 56 sheep (36 naturally infected with Pasteurella multocida and 20 healthy controls) belonging to one farm in Eastern region, Saudi...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.2161
更新日期:2016-07-19 00:00:00
abstract:Background:Previous studies have shown that the mammalian thalamus is a key structure for anesthesia-induced unconsciousness and anesthesia-awakening regulation. However, both the dynamic characteristics and probable lateralization of thalamic functioning during anesthesia-awakening regulation are not fully understood,...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.4516
更新日期:2018-03-15 00:00:00
abstract::This paper investigates the capabilities of the evolutionary fuzzy genetic (FG) approach and compares it with three neuro-fuzzy methods-neuro-fuzzy with grid partitioning (ANFIS-GP), neuro-fuzzy with subtractive clustering (ANFIS-SC), and neuro-fuzzy with fuzzy c-means clustering (ANFIS-FCM)-in terms of modeling long-...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.8882
更新日期:2020-08-14 00:00:00
abstract::Biodiversity forecasts are important for conservation, management, and evaluating how well current models characterize natural systems. While the number of forecasts for biodiversity is increasing, there is little information available on how well these forecasts work. Most biodiversity forecasts are not evaluated to ...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.4278
更新日期:2018-02-08 00:00:00
abstract:Background:Dinoflagellates have the potential to pose severe ecological and economic damages to aquatic ecosystems. It is therefore largely needed to understand the causes and consequences of distribution patterns of dinoflagellate communities in order to manage potential environmental problems. However, a majority of ...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.6733
更新日期:2019-04-09 00:00:00
abstract::The INDETERMINATE DOMAIN (IDD) gene family encodes hybrid transcription factors with distinct zinc finger motifs and appears to be found in all higher plant genomes. IDD genes have been identified throughout the genomes of the model plants Arabidopsis thaliana and Oryza sativa, and the functions of many members of thi...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.6628
更新日期:2019-03-26 00:00:00
abstract::Pico and nanoplankton communities from the Southwest Atlantic Ocean along the Brazilian Bight are poorly described. The hydrography in this region is dominated by a complex system of layered water masses, which includes the warm and oligotrophic Tropical Water (TW), the cold and nutrient rich South Atlantic Central Wa...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.2587
更新日期:2016-11-10 00:00:00
abstract::Resistance strategies of clonal organs, and parent and offspring shoots of Phragmites australis (common reed) to heavy metal pollution in soils are not well known. To clarify the tolerance or resistance strategies in reeds, we conducted a pot experiment with five levels of Pb concentration (0∼4,500 mg kg-1) in flood a...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.4188
更新日期:2018-01-03 00:00:00
abstract::Pseudoterranovosis is a well-known human disease caused by anisakid larvae belonging to the genus Pseudoterranova. Human infection occurs after consuming infected fish. Hence the presence of Pseudoterranova larvae in the flesh of the fish can cause serious losses and problems for the seafood, fishing and fisheries ind...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.1722
更新日期:2016-03-15 00:00:00
abstract::Background. The relative efficacy and safety of lacosamide as adjunctive therapy compared to other antiepileptic drugs has not been well established. Objective. To determine if lacosamide provides improved efficacy and safety, reduced length of hospital stay and improved quality of life compared with other anti-epilep...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.114
更新日期:2013-08-06 00:00:00
abstract:Background:Dry eye disease (DED), a chronic ocular disease, is associated with numerous medical issues, including asthma. However, studies on these associations are limited. In this study, we investigated the incidence of DED among patients with asthma and its correlation with other allergic comorbidities. Methods:We ...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.5941
更新日期:2018-12-05 00:00:00
abstract::Protoporphyrin (PP) and biliverdin (BV) give rise to the enormous diversity in avian egg coloration. Egg color serves several ecological purposes, including post-mating signaling and camouflage. Egg camouflage represents a major character of open-nesting birds which accomplish protection of their unhatched offspring a...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.3706
更新日期:2017-08-29 00:00:00
abstract:BACKGROUND:Self-contained tests estimate and test the association between a phenotype and mean expression level in a gene set defined a priori. Many self-contained gene set analysis methods have been developed but the performance of these methods for phenotypes that are continuous rather than discrete and with multiple...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.2575
更新日期:2016-10-11 00:00:00
abstract::Bone microstructure has long been known as a powerful tool to investigate lifestyle-related biomechanical constraints, and many studies have focused on identifying such constraints in the limb bones of aquatic or arboreal mammals in recent years. The limb bone microstructure of fossorial mammals, however, has not been...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.5216
更新日期:2018-07-11 00:00:00
abstract::In summer 2012, we initiated a large-scale field experiment in southern Ontario, Canada, to determine whether exposure to clothianidin seed-treated canola (oil seed rape) has any adverse impacts on honey bees. Colonies were placed in clothianidin seed-treated or control canola fields during bloom, and thereafter were ...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.652
更新日期:2014-10-30 00:00:00
abstract:Background:Extensive genome rearrangements, known as chromothripsis, have been recently identified in several cancer types. Chromothripsis leads to complex structural variants (cSVs) causing aberrant gene expression and the formation of de novo fusion genes, which can trigger cancer development, or worsen its clinical ...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.7071
更新日期:2019-06-12 00:00:00
abstract::Background. Many Long-Term Care (LTC) institutionalized patients are the most frail and functionally dependent among the geriatric population and have significant oral health disparities.They often suffer from dental neglect due to limited access to appropriate professional dental care. These patients have chronic hea...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.423
更新日期:2014-06-10 00:00:00
abstract::Convergent evolution can provide insights into the predictability of, and constraints on, the evolution of biodiversity. One striking example of convergence is seen in the 'river dolphins'. The four dolphin genera that make up the 'river dolphins' (Inia geoffrensis, Pontoporia blainvillei, Platanista gangetica and Lip...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.4090
更新日期:2017-11-21 00:00:00
abstract:BACKGROUND:Quercus infectoria G. Olivier (Fagaceae) nutgalls have been widely employed in traditional Asian medicine for several treatments, especially wounds and skin disorders. However, the effects of this plant on wound healing have not yet been clearly elucidated. This present work was focused on utilization of Que...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.3608
更新日期:2017-07-24 00:00:00
abstract:Background:Among Buddhist or Taoist Taiwanese residents, burning incense is a common source of indoor particulate matter (PM), including PM10 and PM2.5, and can adversely affect the health status of patients with chronic obstructive pulmonary diseases (COPD). However, few studies have focused on the effects of intermit...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.9768
更新日期:2020-08-31 00:00:00
abstract::Lead (Pb) is a ubiquitous pollutant which poses serious threats to plants, animals and humans once entered into the food chain via contaminated industrial effluents on their discharge into the surface of water bodies and/or geological materials. This study aimed to examine and compare the biosorption potential of natu...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.5672
更新日期:2018-09-28 00:00:00
abstract::Paratya australiensis Kemp (Decapoda: Atyidae) is a widely distributed freshwater shrimp in eastern Australia. The species has been considered as an important stream organism for studying genetics, dispersal, biology, behaviour and evolution in atyids and is a major food source for stream dwelling fishes. Paratya aust...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.8139
更新日期:2020-01-09 00:00:00
abstract::Neem (Azadirachta indica A. Juss) is one of the most versatile tropical evergreen tree species known in India since the Vedic period (1500 BC-600 BC). Neem tree is a rich source of limonoids, having a wide spectrum of activity against insect pests and microbial pathogens. Complex tetranortriterpenoids such as azadirac...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.1066
更新日期:2015-08-06 00:00:00
abstract:Background:Dengue infection represents a global health issue of growing importance. Dengue non-structural protein 1 (NS1) plays a central role in the early detection of the disease. The most common method for NS1 detection is testing by lateral flow immunoassays (LFIAs) with varying sensitivity. In this study, we prese...
journal_title:PeerJ
pub_type: 杂志文章
doi:10.7717/peerj.7779
更新日期:2019-09-25 00:00:00