Sequence-Based Prediction of RNA-Binding Proteins Using Random Forest with Minimum Redundancy Maximum Relevance Feature Selection.

Abstract:

:The prediction of RNA-binding proteins is one of the most challenging problems in computation biology. Although some studies have investigated this problem, the accuracy of prediction is still not sufficient. In this study, a highly accurate method was developed to predict RNA-binding proteins from amino acid sequences using random forests with the minimum redundancy maximum relevance (mRMR) method, followed by incremental feature selection (IFS). We incorporated features of conjoint triad features and three novel features: binding propensity (BP), nonbinding propensity (NBP), and evolutionary information combined with physicochemical properties (EIPP). The results showed that these novel features have important roles in improving the performance of the predictor. Using the mRMR-IFS method, our predictor achieved the best performance (86.62% accuracy and 0.737 Matthews correlation coefficient). High prediction accuracy and successful prediction performance suggested that our method can be a useful approach to identify RNA-binding proteins from sequence information.

journal_name

Biomed Res Int

authors

Ma X,Guo J,Sun X

doi

10.1155/2015/425810

subject

Has Abstract

pub_date

2015-01-01 00:00:00

pages

425810

eissn

2314-6133

issn

2314-6141

journal_volume

2015

pub_type

杂志文章
  • Effect of Short-Term Stimulation with Interleukin-1β and Differentiation Medium on Human Mesenchymal Stromal Cell Paracrine Activity in Coculture with Osteoblasts.

    abstract:INTRODUCTION:Human mesenchymal stromal cells (hMSCs) exhibit the potential to accelerate bone healing by enhanced osteogenic differentiation. Interleukin-1β is highly expressed during fracture healing and has been demonstrated to exert a significant impact on the differentiation behaviour of hMSCs. Here, we investigate...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2015/714230

    authors: Voss JO,Loebel C,Bara JJ,Fussinger MA,Duttenhoefer F,Alini M,Stoddart MJ

    更新日期:2015-01-01 00:00:00

  • Gene Expression Profile Signature of Aggressive Waldenström Macroglobulinemia with Chromosome 6q Deletion.

    abstract:Background:Waldenström macroglobulinemia (WM) is a rare, indolent B-cell lymphoma. Clinically, chromosome 6q deletion (6q del) including loss of the B lymphocyte-induced maturation protein 1 gene (BLIMP-1) is reported to be associated with poor prognosis. However, it remains unclear how the underlying biological mechan...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2018/6728128

    authors: Sekiguchi N,Nomoto J,Nagata A,Kiyota M,Fukuda I,Yamada K,Takezako N,Kobayashi Y

    更新日期:2018-10-04 00:00:00

  • Role of the AMPK/ACC Signaling Pathway in TRPP2-Mediated Head and Neck Cancer Cell Proliferation.

    abstract::Transient receptor potential polycystic 2 (TRPP2) exerts vital roles in various types of cancer; however, its underlying mechanisms remain largely unknown. This study is aimed at investigating whether knockdown of TRPP2 affected the AMP-activated protein kinase (AMPK)/acetyl-CoA carboxylase (ACC) signaling pathway and...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/4375075

    authors: Li K,Chen L,Lin Z,Zhu J,Fang Y,Du J,Shen B,Wu K,Liu Y

    更新日期:2020-11-14 00:00:00

  • The mouse median nerve experimental model in regenerative research.

    abstract::Sciatic nerve crush injury in rat animal model is one of the most common experimental models used in regenerative research. However, the availability of transgenic mouse for nerve regeneration studies is constantly increasing and, therefore, the shift from rat model to mouse model is, in some cases, necessary. Moreove...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2014/701682

    authors: Jager SB,Ronchi G,Vaegter CB,Geuna S

    更新日期:2014-01-01 00:00:00

  • Establishment of a Novel Simplified Surgical Model of Acute Liver Failure in the Cynomolgus Monkey.

    abstract::Models using large animals that are suitable for studying artificial liver support system (ALSS) are urgently needed. Presently available acute liver failure (ALF) models mainly involve pigs or dogs. Establishment of current surgical ALF models (hepatectomy/devascularization) requires either very good surgical skills ...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2016/3518989

    authors: Cai L,Weng J,Feng L,He G,Qin J,Zhang Z,Li Y,Peng Q,Jiang Z,Pan M,Gao Y

    更新日期:2016-01-01 00:00:00

  • Construction of Protein-related Risk Score Model in Bladder Urothelial Carcinoma.

    abstract:Background:Though there are several prognostic models, there is no protein-related prognostic model. The aim of this study is to identify possible prognostic-related proteins in bladder urothelial carcinoma and to try to predict the prognosis of bladder urothelial carcinoma based on these proteins. Methods:Profile dat...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/7147824

    authors: Luo Q,Zhang X

    更新日期:2020-07-31 00:00:00

  • The Hearing Outcomes of Cochlear Implantation in Waardenburg Syndrome.

    abstract::Objectives. This study aimed to determine the feasibility of cochlear implantation for sensorineural hearing loss in patients with Waardenburg syndrome. Method. A retrospective chart review was performed on patients who underwent cochlear implantation at the University of Tokyo Hospital. Clinical classification, genet...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2016/2854736

    authors: Koyama H,Kashio A,Sakata A,Tsutsumiuchi K,Matsumoto Y,Karino S,Kakigi A,Iwasaki S,Yamasoba T

    更新日期:2016-01-01 00:00:00

  • Cord Blood Levels of Angiopoietin-Like 7 (ANGPTL7) in Preterm Infants.

    abstract:Objective:ANGPTL7 is a member of the angiogenin-like protein family. Compared to other members, ANGPTL7 is the least known. Recent studies have explored the relationship between ANGPTL7 and multiple pathological processes and diseases. However, there is no research about ANGPTL7 in neonates. This study was designed to ...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/1892458

    authors: Xia X,Ren Z,Yan L,Zheng X,Yang H,Kang M,Yan H,Zhong Z,Xu F,Miao J,Wang J,Li Y,Wei W,Yang J

    更新日期:2020-11-27 00:00:00

  • Does off-pump coronary artery bypass grafting negatively impact long-term survival and freedom from reintervention?

    abstract::Recently published evidence has raised concerns about worse late mortality and increasing need for reintervention after off-pump coronary artery bypass grafting. We undertook this study to assess the impact of off-pump coronary artery bypass grafting on survival and freedom from reintervention at 10 years. From Januar...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2013/602871

    authors: Raja SG,Husain M,Popescu FL,Chudasama D,Daley S,Amrani M

    更新日期:2013-01-01 00:00:00

  • Acute and Subchronic Oral Toxicity Study of Polyherbal Formulation Containing Allium sativum L., Terminalia bellirica (Gaertn.) Roxb., Curcuma aeruginosa Roxb., and Amomum compactum Sol. ex. Maton in Rats.

    abstract::The polyherbal formulation containing Allium sativum L., Terminalia bellirica (Gaertn.) Roxb., Curcuma aeruginosa Roxb., and Amomum compactum Sol ex. Maton has been used for hypertension treatment empirically. Our previous study showed its blood pressure-lowering effect on a rat model of hypertension. However, toxicit...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/8609364

    authors: Sholikhah EN,Mustofa M,Nugrahaningsih DAA,Yuliani FS,Purwono S,Sugiyono S,Widyarini S,Ngatidjan N,Jumina J,Santosa D,Koketsu M

    更新日期:2020-03-24 00:00:00

  • Downregulation of miR-214-3p May Contribute to Pathogenesis of Ulcerative Colitis via Targeting STAT6.

    abstract::MicroRNAs (miRs) are small noncoding RNA molecules and recently have demonstrated that altered expression and functions are their tight association with ulcerative colitis (UC). Previous microarray study reported that miR-214 was downregulated in the sigmoid colon of patients with active UC, but the roles of miR-214 i...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2017/8524972

    authors: Li JA,Wang YD,Wang K,Wang ZL,Jia DY,Yang BY,Xiong CB

    更新日期:2017-01-01 00:00:00

  • Chemerin: A Potential Regulator of Inflammation and Metabolism for Chronic Obstructive Pulmonary Disease and Pulmonary Rehabilitation.

    abstract::Chronic obstructive pulmonary disease (COPD) features chronic inflammatory reactions of both intra- and extrapulmonary nature. Moreover, COPD is associated with abnormal glucose and lipid metabolism in patients, which influences the prognosis and chronicity of this disease. Abnormal glucose and lipid metabolism are al...

    journal_title:BioMed research international

    pub_type: 杂志文章,评审

    doi:10.1155/2020/4574509

    authors: Li J,Lu Y,Li N,Li P,Wang Z,Ting W,Liu X,Wu W

    更新日期:2020-04-06 00:00:00

  • Pharmacokinetics and Bioavailability Study of Monocrotaline in Mouse Blood by Ultra-Performance Liquid Chromatography-Tandem Mass Spectrometry.

    abstract:Background and Aims:The present study aimed to develop a simple and sensitive method for quantitative determination of monocrotaline (MCT) in mouse blood employing ultra-performance liquid chromatography-electrospray ionization tandem mass spectrometry (UPLC-ESI/MS/MS) using rhynchophylline as an internal standard. Me...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2018/1578643

    authors: Chen L,Zhang B,Liu J,Fan Z,Weng Z,Geng P,Wang X,Lin G

    更新日期:2018-08-13 00:00:00

  • The prognostic significance of CD44V6, CDH11, and β-catenin expression in patients with osteosarcoma.

    abstract::This study aimed to examine the expression of and the relationship between CD44V6, CDH11, and β-catenin. The expression of these cell adhesion molecules was detected in 90 osteosarcoma and 20 osteochondroma specimens using immunohistochemistry. Associations between these parameters and clinicopathological data were al...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2013/496193

    authors: Deng Z,Niu G,Cai L,Wei R,Zhao X

    更新日期:2013-01-01 00:00:00

  • Association between Insulin-Like Growth Factor-1 and Relative Skeletal Maturation: A Retrospective Cohort Study of Short Children and Adolescents.

    abstract:Objective:Delays in skeletal maturity are related to bone mass and fracture risk in children, but the factors that determine it are unknown. We aimed to identify the association between insulin-like growth factor-1 (IGF-1) and skeletal maturation before and after growth hormone (GH) treatment. Methods:In this retrospe...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/8052143

    authors: Zhao Q,Zhang M,Chu Y,Ji B,Pan H,Sun H,Ban B

    更新日期:2020-08-13 00:00:00

  • Predicting Presynaptic and Postsynaptic Neurotoxins by Developing Feature Selection Technique.

    abstract::Presynaptic and postsynaptic neurotoxins are proteins which act at the presynaptic and postsynaptic membrane. Correctly predicting presynaptic and postsynaptic neurotoxins will provide important clues for drug-target discovery and drug design. In this study, we developed a theoretical method to discriminate presynapti...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2017/3267325

    authors: Tang H,Yang Y,Zhang C,Chen R,Huang P,Duan C,Zou P

    更新日期:2017-01-01 00:00:00

  • Dysphagia, Speech, Voice, and Trismus following Radiotherapy and/or Chemotherapy in Patients with Head and Neck Carcinoma: Review of the Literature.

    abstract::Introduction. Patients with head and neck cancer suffer from various impairments due to the primary illness, as well as secondary consequences of the oncological treatment. This systematic review describes the effects of radiotherapy and/or chemotherapy on the functions of the upper aerodigestive tract in patients wit...

    journal_title:BioMed research international

    pub_type: 杂志文章,meta分析,评审

    doi:10.1155/2016/6086894

    authors: Heijnen BJ,Speyer R,Kertscher B,Cordier R,Koetsenruijter KW,Swan K,Bogaardt H

    更新日期:2016-01-01 00:00:00

  • Hypoxia Induces Growth Differentiation Factor 15 to Promote the Metastasis of Colorectal Cancer via PERK-eIF2α Signaling.

    abstract::Hypoxia plays an essential role in orchestrating Epithelial-mesenchymal transition and promoting metastasis of colorectal cancer. However, the underlying mechanisms are still not well elucidated. Here, we present that hypoxic exposure causes endoplasmic reticulum stress and activates the unfolded protein response path...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/5958272

    authors: Zheng H,Wu Y,Guo T,Liu F,Xu Y,Cai S

    更新日期:2020-01-27 00:00:00

  • Improved efficacy of transcatheter arterial chemoembolization using warmed miriplatin for hepatocellular carcinoma.

    abstract::The aim of this study was to evaluate the efficacy and safety of transcatheter arterial chemoembolization (TACE) using warmed and nonwarmed miriplatin for hepatocellular carcinoma. Eighty patients (117 nodules), treated between January 2010 and June 2013, were evaluated. Thirty-two and 85 nodules were treated with non...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2014/359296

    authors: Yasui D,Murata S,Onozawa S,Mine T,Ueda T,Sugihara F,Kawamoto C,Uchida E,Kumita S

    更新日期:2014-01-01 00:00:00

  • Prevalence of Helicobacter pylori vacA Genotypes and cagA Gene in Dental Plaque of Asymptomatic Mexican Children.

    abstract::The variability in Helicobacter pylori vacA and cagA genes has been related to the progression of the gastrointestinal disease; also the presence of H. pylori in the oral cavity has been associated with periodontal disease in adults, but, in children without dyspeptic symptoms, little is known about this. We evaluated...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2017/4923640

    authors: Mendoza-Cantú A,Urrutia-Baca VH,Urbina-Ríos CS,De la Garza-Ramos MA,García-Martínez ME,Torre-Martínez HHH

    更新日期:2017-01-01 00:00:00

  • Comparison of Predictive Powers for Mortality between Systemic Vascular Resistance Index and Serum Lactate in Children with Persistent Catecholamine-Resistant Shock.

    abstract::Persistent catecholamine-resistant shock in children causes severe morbidity and mortality. We aimed to analyze the association between hemodynamics and serum lactate at different time points and 28-day mortality in children with persistent catecholamine-resistant shock. Methods. Twenty-six children with persistent ca...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/1341326

    authors: Lee EP,Chu SC,Hsia SH,Chen KF,Chan OW,Lin CY,Su YT,Lin JJ,Wu HP

    更新日期:2020-06-19 00:00:00

  • Prevalence and correlation between TMD based on RDC/TMD diagnoses, oral parafunctions and psychoemotional stress in Polish university students.

    abstract::The aim of the study was to assess the prevalence of temporomandibular disorders (TMD) and oral parafunctions, as well as their correlation with psychoemotional factors in Polish university students. The research was conducted in a group of 456 students (N = 456). The examination form comprised of two parts: survey an...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2014/472346

    authors: Wieckiewicz M,Grychowska N,Wojciechowski K,Pelc A,Augustyniak M,Sleboda A,Zietek M

    更新日期:2014-01-01 00:00:00

  • Oxidative Stress Induced by Polymyxin E Is Involved in Rapid Killing of Paenibacillus polymyxa.

    abstract::Historically, the colistin has been thought to kill bacteria through membrane lysis. Here, we present an alternative mechanism that colistin induces rapid Paenibacillus polymyxa death through reactive oxygen species production. This significantly augments our understanding of the mechanism of colistin action, which is...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2017/5437139

    authors: Yu Z,Zhu Y,Qin W,Yin J,Qiu J

    更新日期:2017-01-01 00:00:00

  • Effect of Different Body Postures on the Severity of Stuttering in Young Adults with Developmental Stuttering.

    abstract:Objective:The current study aimed to investigate the effects of body position on the level and severity of stuttering in young adults with developmental stuttering. Methods:A total of 24 subjects (male: 17; female: 7; mean age: 24.9 ± 6.2 years) with developmental stuttering participated. The participants were asked t...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2019/1817906

    authors: Almudhi A,Zafar H,Anwer S,Alghadir A

    更新日期:2019-08-05 00:00:00

  • The role of neurotrophic factors conjugated to iron oxide nanoparticles in peripheral nerve regeneration: in vitro studies.

    abstract::Local delivery of neurotrophic factors is a pillar of neural repair strategies in the peripheral nervous system. The main disadvantage of the free growth factors is their short half-life of few minutes. In order to prolong their activity, we have conjugated to iron oxide nanoparticles three neurotrophic factors: nerve...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2014/267808

    authors: Ziv-Polat O,Shahar A,Levy I,Skaat H,Neuman S,Fregnan F,Geuna S,Grothe C,Haastert-Talini K,Margel S

    更新日期:2014-01-01 00:00:00

  • Nutritional biomarkers in children and adolescents with Beta-thalassemia-major: An Egyptian center experience.

    abstract:BACKGROUND AND AIM:Trace elements and vitamins play a vital role in human body to perform its function properly. Thalassemic patients are at risk of micronutrient deficiency. This study estimated levels of vitamins A, C, E, B12, folic acid, total homocysteine (tHcy), and methylmalonic acid (MMA) along with trace elemen...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2014/261761

    authors: Sherief LM,Abd El-Salam SM,Kamal NM,El Safy O,Almalky MA,Azab SF,Morsy HM,Gharieb AF

    更新日期:2014-01-01 00:00:00

  • Sliding and lower limb mechanics during sit-stand-sit transitions with a standing wheelchair.

    abstract:PURPOSE:This study aimed to investigate the shear displacement between the body and backrest/seat, range of motion (ROM), and force acting on the lower limb joints during sit-stand-sit transitions by operating an electric-powered standing wheelchair. METHODS AND MATERIALS:The amounts of sliding along the backrest and ...

    journal_title:BioMed research international

    pub_type: 临床试验,杂志文章

    doi:10.1155/2014/236486

    authors: Yang YS,Chen MD,Fang WC,Chang JJ,Kuo CC

    更新日期:2014-01-01 00:00:00

  • Diagnostic Value of Subjective Memory Complaints Assessed with a Single Item in Dominantly Inherited Alzheimer's Disease: Results of the DIAN Study.

    abstract:OBJECTIVE:We examined the diagnostic value of subjective memory complaints (SMCs) assessed with a single item in a large cross-sectional cohort consisting of families with autosomal dominant Alzheimer's disease (ADAD) participating in the Dominantly Inherited Alzheimer Network (DIAN). METHODS:The baseline sample of 18...

    journal_title:BioMed research international

    pub_type: 临床试验,杂志文章,多中心研究

    doi:10.1155/2015/828120

    authors: Laske C,Sohrabi HR,Jasielec MS,Müller S,Koehler NK,Gräber S,Förster S,Drzezga A,Mueller-Sarnowski F,Danek A,Jucker M,Bateman RJ,Buckles V,Saykin AJ,Martins RN,Morris JC,Dominantly Inherited Alzheimer Network Dian

    更新日期:2015-01-01 00:00:00

  • Corrigendum to "Peripheral Blood Mononuclear Cells as a Laboratory to Study Dementia in the Elderly".

    abstract::[This corrects the article DOI: 10.1155/2014/169203.]. ...

    journal_title:BioMed research international

    pub_type: 已发布勘误

    doi:10.1155/2020/9175369

    authors: Arosio B,D'Addario C,Gussago C,Casati M,Tedone E,Ferri E,Nicolini P,Rossi PD,Maccarrone M,Mari D

    更新日期:2020-09-07 00:00:00

  • Analysis of Occupational Stress and Its Relationship with Secretory Immunoglobulin A in the Xinjiang Plateau Young Military Recruits.

    abstract:Background:With the continuous improvement of the modernization of the Chinese military and the major adjustments made by the state to the recruitment policy, the newly recruited military undergone multiple pressures such as targeted high-intensity military training and environmental changes. The mental health of milit...

    journal_title:BioMed research international

    pub_type: 杂志文章

    doi:10.1155/2020/8695783

    authors: Tao N,An H,Zhang J,Zhang Y,Jin L,Xu L,Liu J,Xu X

    更新日期:2020-04-02 00:00:00