Abstract:
:Long non-coding RNAs (lncRNAs) have been found to play important roles in various biological processes; however, many of their functions remain unclear. In this study, we present a novel approach to identify the lncRNA-associated protein-protein interaction (PPI) modules and ascertain their functions in human lung squamous cell carcinoma. We collected lncRNA and mRNA expression profiles of lung squamous cell carcinoma from The Cancer Genome Atlas. To identify the lncRNA-associated PPI modules, lncRNA-mRNA co-expression networks were first constructed based on the mutual ranks of expression correlations. Next, we examined whether the co-expressed mRNAs of a specific lncRNA were closely connected by PPIs. For this, a significantly connected mRNA set was considered to be the lncRNA-associated PPI module. Finally, the prospective functions of a lncRNA was inferred using Gene Ontology enrichment analysis on the associated module. We found that lncRNA-associated PPI modules were subtype-dependent and each subtype had unique molecular mechanisms. In addition, antisense lncRNAs and sense genes tended to be functionally associated. Our results might provide new directions for understanding lncRNA regulations in lung cancer. The analysis pipeline was implemented in a web tool, available at http://lncin.ym.edu.tw/.
journal_name
Sci Repjournal_title
Scientific reportsauthors
Wu CH,Hsu CL,Lu PC,Lin WC,Juan HF,Huang HCdoi
10.1038/srep35939subject
Has Abstractpub_date
2016-10-27 00:00:00pages
35939issn
2045-2322pii
srep35939journal_volume
6pub_type
杂志文章abstract::Members of the Eph family of receptor tyrosine kinases have been implicated in a wide array of human cancers. The EphB4 receptor is ubiquitously expressed in head and neck squamous cell carcinoma (HNSCC) and has been shown to impart tumorigenic and invasive characteristics to these cancers. In this study, we investiga...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep38792
更新日期:2016-12-12 00:00:00
abstract::Carbapenem resistant Enterobacteriaceae (CRE) pose an urgent risk to global human health. CRE that are non-susceptible to all commercially available antibiotics threaten to return us to the pre-antibiotic era. Using Single Molecule Real Time (SMRT) sequencing we determined the complete genome of a pandrug-resistant Kl...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep15082
更新日期:2015-10-19 00:00:00
abstract::High-risk human papillomavirus (HPV) type 16, which is responsible for greater than 50% of cervical cancer cases, is the most prevalent and lethal HPV type. However, the molecular mechanisms of cervical carcinogenesis remain elusive, particularly the early steps of HPV infection that may transform normal cervical epit...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep07653
更新日期:2015-01-07 00:00:00
abstract::Two-photon (2P) microscopy is a powerful tool for imaging and exploring label-free biological tissues at high resolution. Although this type of microscopy has been demonstrated in ex vivo ocular tissues of both humans and animal models, imaging the human eye in vivo has always been challenging. This work presents a no...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-46568-z
更新日期:2019-07-12 00:00:00
abstract::The design, fabrication, and characterization of ultra-high responsivity photodetectors based on mesoscopic multilayer MoS2 is presented, which is a less explored system compared to direct band gap monolayer MoS2 that has received increasing attention in recent years. The device architecture is comprised of a metal-se...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-19367-1
更新日期:2018-01-19 00:00:00
abstract::Thin layers of silicon nanocrystals (SiNC) in oxide matrix with optimized parameters are fabricated by the plasma-enhanced chemical vapor deposition. These materials with SiNC sizes of about 4.5 nm and the SiO2 barrier thickness of 3 nm reveal external quantum yield (QY) close to 50% which is near to the best chemical...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-47825-x
更新日期:2019-08-02 00:00:00
abstract::Polymersome nanoparticles (PMs) are attractive candidates for spatio-temporal controlled delivery of therapeutic agents. Although many studies have addressed cellular uptake of solid nanoparticles, there is very little data available on intracellular release of molecules encapsulated in membranous carriers, such as po...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep29460
更新日期:2016-07-11 00:00:00
abstract::We have designed a fully automated optical microscope running at high-speed and achieving a very high spatial resolution. In order to overcome the resolution limit of optical microscopes, it exploits the localized surface plasmon resonance phenomenon. The customized setup using a polarization analyzer, based on liquid...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-75883-z
更新日期:2020-11-02 00:00:00
abstract::Concerns related to pulmonary toxicity and non-specificity of nanoparticles have limited their clinical applications for aerosol delivery of chemotherapeutics in lung cancer. We hypothesized that pulmonary surfactant mimetic nanoparticles that offer pH responsive release specifically in tumor may be a possible solutio...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep07085
更新日期:2014-11-18 00:00:00
abstract::To construct a machine learning algorithm model of lymph node metastasis (LNM) in patients with poorly differentiated-type intramucosal gastric cancer. 1169 patients with postoperative gastric cancer were divided into a training group and a test group at a ratio of 7:3. The model for lymph node metastasis was establis...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-80582-w
更新日期:2021-01-14 00:00:00
abstract::Ubiquitin C-terminal Hydrolase-1 (UCHL1) is a deubiquitinating enzyme, which plays a key role in Parkinson's disease (PD). It is one of the most important proteins, which constitute Lewy body in PD patient. However, how this well folded highly soluble protein presents in this proteinaceous aggregate is still unclear. ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep44558
更新日期:2017-03-16 00:00:00
abstract::Parental care is widespread in Archosaurs (birds, crocodilians, dinosaurs and pterosaurs), and this group provides a useful model for the evolution of parent-offspring interactions. While offspring signalling has been well-studied in birds, the modulation of parental care in crocodilians remains an open question. Here...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep15547
更新日期:2015-10-23 00:00:00
abstract::Pigeon pea is an important legume infested by a plethora of insect pests amongst which gram pod borer Helicoverpa armigera is very prominent. Imparting resistance to this insect herbivore is of global importance in attaining food security. Expression of insecticidal crystal proteins (ICP) in diverse crops has led to i...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-26358-9
更新日期:2018-06-11 00:00:00
abstract::A correction to this article has been published and is linked from the HTML version of this paper. The error has been fixed in the paper. ...
journal_title:Scientific reports
pub_type: 杂志文章,已发布勘误
doi:10.1038/s41598-017-17040-7
更新日期:2017-12-05 00:00:00
abstract::Storage of solar radiation is currently accomplished by coupling two separate devices, one that captures and converts the energy into an electrical impulse (a photovoltaic cell) and another that stores this electrical output (a battery or a supercapacitor electrochemical cell). This configuration however has several c...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-30728-8
更新日期:2018-08-24 00:00:00
abstract::The metabolic impact of circulating fatty acids (FAs) in patients requiring hemodialysis (HD) is unknown. We investigated the associations between plasma triglyceride (TG) FAs and markers of inflammation, insulin resistance, nutritional status and body composition. Plasma TG-FAs were measured using gas chromatography ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-80812-1
更新日期:2021-01-14 00:00:00
abstract::Magma transport through the Earth's crust occurs dominantly via sheet intrusions, such as dykes and cone-sheets, and is fundamental to crustal evolution, volcanic eruptions and geochemical element cycling. However, reliable methods to reconstruct flow direction in solidified sheet intrusions have proved elusive. Aniso...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep27635
更新日期:2016-06-10 00:00:00
abstract::Graphene's unique physical and chemical properties make it an attractive platform for use in micro- and nanoelectronic devices. However, electrostatically controlling the flow of electrons in graphene can be challenging as a result of Klein tunneling, where electrons normally incident to a one-dimensional potential ba...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep08435
更新日期:2015-02-13 00:00:00
abstract::Cardiomyocytes differentiated from human pluripotent stem cells provide promising tools for screening of cardiotoxic drugs. For evaluation of human pluripotent stem cell-derived cardiomyocytes for cardiotoxicity test, in the present study, human embryonic stem cells (hESCs) were differentiated to cardiomyocytes, follo...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-017-14198-y
更新日期:2017-10-23 00:00:00
abstract::Nanoscale real-time molecular sensing requires large signal enhancement, small background, short detection time and high spectral resolution. We demonstrate a new vibrational spectroscopic technique which satisfies all of these conditions. This time-resolved surface-enhanced coherent anti-Stokes Raman scattering (tr-S...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep00891
更新日期:2012-01-01 00:00:00
abstract::Understanding Zn uptake dynamics is critical to rice grain Zn biofortification. Here we examined soil Zn availability and Zn uptake pathways as affected by genotype (high-grain Zn varieties IR69428 and IR68144), Zn fertilization and water management in two pot experiments. Results showed significant interactions (P < ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep38301
更新日期:2016-12-02 00:00:00
abstract::The prediction of infarction volume after stroke onset depends on the shape of the growth dynamics of the infarction. To understand growth patterns that predict lesion volume changes, we studied currently available models described in literature and compared the models with Adaptive Neuro-Fuzzy Inference System [ANFIS...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-017-08044-4
更新日期:2017-08-08 00:00:00
abstract::Infectious diseases outbreaks are often characterized by a spatial component induced by hosts' distribution, mobility, and interactions. Spatial models that incorporate hosts' movements are being used to describe these processes, to investigate the conditions for propagation, and to predict the spatial spread. Several...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep00476
更新日期:2012-01-01 00:00:00
abstract::There is increasing interest in the development of noninvasive diagnostic methods for early cancer detection, to improve the survival rate and quality of life of cancer patients. Identification of volatile metabolic compounds may provide an approach for noninvasive early diagnosis of malignant diseases. Here we analyz...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep05196
更新日期:2014-06-06 00:00:00
abstract::Mitochondrial activity is central to tissue homeostasis. Mitochondria dysfunction constitutes a hallmark of many genetic diseases and plays a key role in tumor progression. The essential role of mitochondria, added to their recently documented capacity to transfer from cell to cell, obviously contributes to their curr...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep09073
更新日期:2015-03-13 00:00:00
abstract::The pollination syndrome concept has provided powerful utility in understanding the evolution and adaptation of floral traits. However, the utility of this conception has been questioned on the grounds that flowers usually attract a broader spectrum of visitors than one might expect. Furthermore, the relationship betw...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-70954-7
更新日期:2020-08-18 00:00:00
abstract::The effect of the surface area of palm kernel shell activated carbon (PKSAC) on the properties of n-octadecane-encapsulated shape stabilized phase change material (SSPCM) for thermal energy storage (TES) application were studied. Various surface areas of the PKSAC were prepared using different amounts of H3PO4 treatme...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-72019-1
更新日期:2020-09-14 00:00:00
abstract::We identify a new instability in electrostatic actuators dubbed quasi-static pull-in. We report experimental evidence of the instability and study its characteristics in two types of micro actuators operating in ambient air. We found that the underlying mechanism is a fast-slow dynamic interaction between slowly-varyi...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-61534-w
更新日期:2020-03-19 00:00:00
abstract::Rubber dams are widely used for landscaping in urban rivers and they retain large amounts of sediments. The sediments are rich in phosphorus (P) which can cause river eutrophication. Little is known about P release in rubber dams. We investigated the potential of sediment P release by isotherm experiment in an urban r...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-59493-3
更新日期:2020-02-17 00:00:00
abstract::We report on the first observation of 'Spoof' Surface Plasmon Polariton (SPP) scattering from surface defects on metal-coated 3D printed, corrugated THz waveguiding surfaces. Surface defects, a result of the printing process, are shown to assist the direct coupling of the incident free-space radiation into a spoof SPP...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-42412-6
更新日期:2019-04-18 00:00:00