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1.
Sci Rep ; 14(1): 20819, 2024 09 06.
Article in English | MEDLINE | ID: mdl-39242695

ABSTRACT

RNA modifications play an important role in actively controlling recently created formation in cellular regulation mechanisms, which link them to gene expression and protein. The RNA modifications have numerous alterations, presenting broad glimpses of RNA's operations and character. The modification process by the TET enzyme oxidation is the crucial change associated with cytosine hydroxymethylation. The effect of CR is an alteration in specific biochemical ways of the organism, such as gene expression and epigenetic alterations. Traditional laboratory systems that identify 5-hydroxymethylcytosine (5hmC) samples are expensive and time-consuming compared to other methods. To address this challenge, the paper proposed XGB5hmC, a machine learning algorithm based on a robust gradient boosting algorithm (XGBoost), with different residue based formulation methods to identify 5hmC samples. Their results were amalgamated, and six different frequency residue based encoding features were fused to form a hybrid vector in order to enhance model discrimination capabilities. In addition, the proposed model incorporates SHAP (Shapley Additive Explanations) based feature selection to demonstrate model interpretability by highlighting the high contributory features. Among the applied machine learning algorithms, the XGBoost ensemble model using the tenfold cross-validation test achieved improved results than existing state-of-the-art models. Our model reported an accuracy of 89.97%, sensitivity of 87.78%, specificity of 94.45%, F1-score of 0.8934%, and MCC of 0.8764%. This study highlights the potential to provide valuable insights for enhancing medical assessment and treatment protocols, representing a significant advancement in RNA modification analysis.


Subject(s)
5-Methylcytosine , Algorithms , Machine Learning , 5-Methylcytosine/analogs & derivatives , 5-Methylcytosine/metabolism , Humans , Cytosine/analogs & derivatives , Cytosine/metabolism
2.
BMC Bioinformatics ; 25(1): 256, 2024 Aug 04.
Article in English | MEDLINE | ID: mdl-39098908

ABSTRACT

BACKGROUND: Antioxidant proteins are involved in several biological processes and can protect DNA and cells from the damage of free radicals. These proteins regulate the body's oxidative stress and perform a significant role in many antioxidant-based drugs. The current invitro-based medications are costly, time-consuming, and unable to efficiently screen and identify the targeted motif of antioxidant proteins. METHODS: In this model, we proposed an accurate prediction method to discriminate antioxidant proteins namely StackedEnC-AOP. The training sequences are formulation encoded via incorporating a discrete wavelet transform (DWT) into the evolutionary matrix to decompose the PSSM-based images via two levels of DWT to form a Pseudo position-specific scoring matrix (PsePSSM-DWT) based embedded vector. Additionally, the Evolutionary difference formula and composite physiochemical properties methods are also employed to collect the structural and sequential descriptors. Then the combined vector of sequential features, evolutionary descriptors, and physiochemical properties is produced to cover the flaws of individual encoding schemes. To reduce the computational cost of the combined features vector, the optimal features are chosen using Minimum redundancy and maximum relevance (mRMR). The optimal feature vector is trained using a stacking-based ensemble meta-model. RESULTS: Our developed StackedEnC-AOP method reported a prediction accuracy of 98.40% and an AUC of 0.99 via training sequences. To evaluate model validation, the StackedEnC-AOP training model using an independent set achieved an accuracy of 96.92% and an AUC of 0.98. CONCLUSION: Our proposed StackedEnC-AOP strategy performed significantly better than current computational models with a ~ 5% and ~ 3% improved accuracy via training and independent sets, respectively. The efficacy and consistency of our proposed StackedEnC-AOP make it a valuable tool for data scientists and can execute a key role in research academia and drug design.


Subject(s)
Antioxidants , Proteins , Antioxidants/chemistry , Proteins/chemistry , Proteins/metabolism , Computational Biology/methods , Machine Learning , Algorithms , Wavelet Analysis , Support Vector Machine , Databases, Protein , Position-Specific Scoring Matrices
3.
Bioinformatics ; 40(5)2024 05 02.
Article in English | MEDLINE | ID: mdl-38710482

ABSTRACT

MOTIVATION: Despite the extensive manufacturing of antiviral drugs and vaccination, viral infections continue to be a major human ailment. Antiviral peptides (AVPs) have emerged as potential candidates in the pursuit of novel antiviral drugs. These peptides show vigorous antiviral activity against a diverse range of viruses by targeting different phases of the viral life cycle. Therefore, the accurate prediction of AVPs is an essential yet challenging task. Lately, many machine learning-based approaches have developed for this purpose; however, their limited capabilities in terms of feature engineering, accuracy, and generalization make these methods restricted. RESULTS: In the present study, we aim to develop an efficient machine learning-based approach for the identification of AVPs, referred to as DeepAVP-TPPred, to address the aforementioned problems. First, we extract two new transformed feature sets using our designed image-based feature extraction algorithms and integrate them with an evolutionary information-based feature. Next, these feature sets were optimized using a novel feature selection approach called binary tree growth Algorithm. Finally, the optimal feature space from the training dataset was fed to the deep neural network to build the final classification model. The proposed model DeepAVP-TPPred was tested using stringent 5-fold cross-validation and two independent dataset testing methods, which achieved the maximum performance and showed enhanced efficiency over existing predictors in terms of both accuracy and generalization capabilities. AVAILABILITY AND IMPLEMENTATION: https://github.com/MateeullahKhan/DeepAVP-TPPred.


Subject(s)
Algorithms , Antiviral Agents , Machine Learning , Antiviral Agents/pharmacology , Antiviral Agents/chemistry , Peptides/chemistry , Humans , Computational Biology/methods , Neural Networks, Computer
4.
Artif Intell Med ; 151: 102860, 2024 May.
Article in English | MEDLINE | ID: mdl-38552379

ABSTRACT

Globally, fungal infections have become a major health concern in humans. Fungal diseases generally occur due to the invading fungus appearing on a specific portion of the body and becoming hard for the human immune system to resist. The recent emergence of COVID-19 has intensely increased different nosocomial fungal infections. The existing wet-laboratory-based medications are expensive, time-consuming, and may have adverse side effects on normal cells. In the last decade, peptide therapeutics have gained significant attention due to their high specificity in targeting affected cells without affecting healthy cells. Motivated by the significance of peptide-based therapies, we developed a highly discriminative prediction scheme called iAFPs-Mv-BiTCN to predict antifungal peptides correctly. The training peptides are encoded using word embedding methods such as skip-gram and attention mechanism-based bidirectional encoder representation using transformer. Additionally, transform-based evolutionary features are generated using the Pseduo position-specific scoring matrix using discrete wavelet transform (PsePSSM-DWT). The fused vector of word embedding and evolutionary descriptors is formed to compensate for the limitations of single encoding methods. A Shapley Additive exPlanations (SHAP) based global interpolation approach is applied to reduce training costs by choosing the optimal feature set. The selected feature set is trained using a bi-directional temporal convolutional network (BiTCN). The proposed iAFPs-Mv-BiTCN model achieved a predictive accuracy of 98.15 % and an AUC of 0.99 using training samples. In the case of the independent samples, our model obtained an accuracy of 94.11 % and an AUC of 0.98. Our iAFPs-Mv-BiTCN model outperformed existing models with a ~4 % and ~5 % higher accuracy using training and independent samples, respectively. The reliability and efficacy of the proposed iAFPs-Mv-BiTCN model make it a valuable tool for scientists and may perform a beneficial role in pharmaceutical design and research academia.


Subject(s)
Antifungal Agents , Neural Networks, Computer , Antifungal Agents/therapeutic use , Humans , Peptides/chemistry , COVID-19 , Mycoses/microbiology , Wavelet Analysis , Algorithms
5.
BMC Bioinformatics ; 25(1): 102, 2024 Mar 07.
Article in English | MEDLINE | ID: mdl-38454333

ABSTRACT

BACKGROUND: Viral infections have been the main health issue in the last decade. Antiviral peptides (AVPs) are a subclass of antimicrobial peptides (AMPs) with substantial potential to protect the human body against various viral diseases. However, there has been significant production of antiviral vaccines and medications. Recently, the development of AVPs as an antiviral agent suggests an effective way to treat virus-affected cells. Recently, the involvement of intelligent machine learning techniques for developing peptide-based therapeutic agents is becoming an increasing interest due to its significant outcomes. The existing wet-laboratory-based drugs are expensive, time-consuming, and cannot effectively perform in screening and predicting the targeted motif of antiviral peptides. METHODS: In this paper, we proposed a novel computational model called Deepstacked-AVPs to discriminate AVPs accurately. The training sequences are numerically encoded using a novel Tri-segmentation-based position-specific scoring matrix (PSSM-TS) and word2vec-based semantic features. Composition/Transition/Distribution-Transition (CTDT) is also employed to represent the physiochemical properties based on structural features. Apart from these, the fused vector is formed using PSSM-TS features, semantic information, and CTDT descriptors to compensate for the limitations of single encoding methods. Information gain (IG) is applied to choose the optimal feature set. The selected features are trained using a stacked-ensemble classifier. RESULTS: The proposed Deepstacked-AVPs model achieved a predictive accuracy of 96.60%%, an area under the curve (AUC) of 0.98, and a precision-recall (PR) value of 0.97 using training samples. In the case of the independent samples, our model obtained an accuracy of 95.15%, an AUC of 0.97, and a PR value of 0.97. CONCLUSION: Our Deepstacked-AVPs model outperformed existing models with a ~ 4% and ~ 2% higher accuracy using training and independent samples, respectively. The reliability and efficacy of the proposed Deepstacked-AVPs model make it a valuable tool for scientists and may perform a beneficial role in pharmaceutical design and research academia.


Subject(s)
Biological Evolution , Peptides , Humans , Reproducibility of Results , Peptides/chemistry , Antiviral Agents/pharmacology
6.
J Chem Inf Model ; 63(21): 6537-6554, 2023 11 13.
Article in English | MEDLINE | ID: mdl-37905969

ABSTRACT

Inflammation is a biologically resistant response to harmful stimuli, such as infection, damaged cells, toxic chemicals, or tissue injuries. Its purpose is to eradicate pathogenic micro-organisms or irritants and facilitate tissue repair. Prolonged inflammation can result in chronic inflammatory diseases. However, wet-laboratory-based treatments are costly and time-consuming and may have adverse side effects on normal cells. In the past decade, peptide therapeutics have gained significant attention due to their high specificity in targeting affected cells without affecting healthy cells. Motivated by the significance of peptide-based therapies, we developed a highly discriminative prediction model called AIPs-SnTCN to predict anti-inflammatory peptides accurately. The peptide samples are encoded using word embedding techniques such as skip-gram and attention-based bidirectional encoder representation using a transformer (BERT). The conjoint triad feature (CTF) also collects structure-based cluster profile features. The fused vector of word embedding and sequential features is formed to compensate for the limitations of single encoding methods. Support vector machine-based recursive feature elimination (SVM-RFE) is applied to choose the ranking-based optimal space. The optimized feature space is trained by using an improved self-normalized temporal convolutional network (SnTCN). The AIPs-SnTCN model achieved a predictive accuracy of 95.86% and an AUC of 0.97 by using training samples. In the case of the alternate training data set, our model obtained an accuracy of 92.04% and an AUC of 0.96. The proposed AIPs-SnTCN model outperformed existing models with an ∼19% higher accuracy and an ∼14% higher AUC value. The reliability and efficacy of our AIPs-SnTCN model make it a valuable tool for scientists and may play a beneficial role in pharmaceutical design and research academia.


Subject(s)
Anti-Inflammatory Agents , Peptides , Humans , Reproducibility of Results , Peptides/pharmacology , Peptides/chemistry , Inflammation/drug therapy , Support Vector Machine
7.
Artif Intell Med ; 131: 102349, 2022 09.
Article in English | MEDLINE | ID: mdl-36100346

ABSTRACT

Cancer is a Toxic health concern worldwide, it happens when cellular modifications cause the irregular growth and division of human cells. Several traditional approaches such as therapies and wet laboratory-based methods have been applied to treat cancer cells. However, these methods are considered less effective due to their high cost and diverse side effects. According to recent advancements, peptide-based therapies have attracted the attention of scientists because of their high selectivity. Peptide therapy can efficiently treat the targeted cells, without affecting the normal cells. Due to the rapid increase of peptide sequences, an accurate prediction model has become a challenging task. Keeping the significance of anticancer peptides (ACPs) in cancer treatment, an intelligent and reliable prediction model is highly indispensable. In this paper, a FastText-based word embedding strategy has been employed to represent each peptide sample via a skip-gram model. After extracting the peptide embedding descriptors, the deep neural network (DNN) model was applied to accurately discriminate the ACPs. The optimized parameters of DNN achieved an accuracy of 96.94 %, 93.41 %, and 94.02 % using training, alternate, and independent samples, respectively. It was observed that our proposed cACP-DeepGram model outperformed and reported ~10 % highest prediction accuracy than existing predictors. It is suggested that the cACP-DeepGram model will be a reliable tool for scientists and might play a valuable role in academic research and drug discovery. The source code and the datasets are publicly available at https://github.com/shahidakbarcs/cACP-DeepGram.


Subject(s)
Neural Networks, Computer , Peptides , Amino Acid Sequence , Humans , Software
8.
Comput Biol Med ; 139: 105006, 2021 12.
Article in English | MEDLINE | ID: mdl-34749096

ABSTRACT

In extremely cold environments, living organisms like plants, animals, fishes, and microbes can die due to the intracellular ice formation in their bodies. To sustain life in such cold environments, some cold-blooded species produced Antifreeze proteins (AFPs), also called ice-binding proteins. AFPs are not only limited to the medical field but also have diverse significance in the area of biotechnology, agriculture, and the food industry. Different AFPs exhibit high heterogeneity in their structures and sequences. Keeping the significance of AFPs, several machine-learning-based models have been developed by scientists for the prediction of AFPs. However, due to the complex and diverse nature of AFPs, the prediction performance of the existing methods is limited. Therefore, it is highly indispensable for researchers to develop a reliable computational model that can accurately predict AFPs. In this connection, this study presents a novel predictor for AFPs, named AFP-CMBPred. The sequences of AFPs are formulated via four different feature representation methods, such as Amphiphilic pseudo amino acid composition (Amp-PseAAC), Dipeptide Deviation from Expected Mean (DDE), Multi-Blocks Position Specific Scoring Matrix (MB-PSSM), and Consensus Sequence-based on Multi-Blocks Position Specific Scoring Matrix (CS-MB-PSSM) to collect local and global descriptors. In the next step, the extracted feature vectors are evaluated via Support Vector Machine (SVM) and Random Forest (RF) based classification learners. The prediction performance of both classifiers is further assessed using three validation methods i.e., jackknife test, 10-fold cross-validation test, and independent test. After examining the prediction rates of all validation tests, it was found that our proposed model achieved the higher prediction accuracies of ∼2.65%, ∼2.84%, and ∼3.37% using jackknife, K-fold, and independent test, respectively. The experimental outcomes validate that our proposed "AFP-CMBPred" predictor secured the highest prediction results than the existing models for the identification of AFPs. It is further anticipated that our proposed AFP-CMBPred model will be considered a valuable tool in the research academia and drug development.


Subject(s)
Antifreeze Proteins , Computational Biology , Algorithms , Animals , Antifreeze Proteins/genetics , Bacteria , Consensus Sequence , Plants
9.
Comput Biol Med ; 137: 104778, 2021 10.
Article in English | MEDLINE | ID: mdl-34481183

ABSTRACT

Tuberculosis (TB) is a worldwide illness caused by the bacteria Mycobacterium tuberculosis. Owing to the high prevalence of multidrug-resistant tuberculosis, numerous traditional strategies for developing novel alternative therapies have been presented. The effectiveness and dependability of these procedures are not always consistent. Peptide-based therapy has recently been regarded as a preferable alternative due to its excellent selectivity in targeting specific cells without affecting the normal cells. However, due to the rapid growth of the peptide samples, predicting TB accurately has become a challenging task. To effectively identify antitubercular peptides, an intelligent and reliable prediction model is indispensable. An ensemble learning approach was used in this study to improve expected results by compensating for the shortcomings of individual classification algorithms. Initially, three distinct representation approaches were used to formulate the training samples: k-space amino acid composition, composite physiochemical properties, and one-hot encoding. The feature vectors of the applied feature extraction methods are then combined to generate a heterogeneous vector. Finally, utilizing individual and heterogeneous vectors, five distinct nature classification models were used to evaluate prediction rates. In addition, a genetic algorithm-based ensemble model was used to improve the suggested model's prediction and training capabilities. Using Training and independent datasets, the proposed ensemble model achieved an accuracy of 94.47% and 92.68%, respectively. It was observed that our proposed "iAtbP-Hyb-EnC" model outperformed and reported ~10% highest training accuracy than existing predictors. The "iAtbP-Hyb-EnC" model is suggested to be a reliable tool for scientists and might play a valuable role in academic research and drug discovery. The source code and all datasets are publicly available at https://github.com/Farman335/iAtbP-Hyb-EnC.


Subject(s)
Algorithms , Peptides , Amino Acids , Machine Learning , Software
10.
Zootaxa ; 4985(3): 403413, 2021 Jun 15.
Article in English | MEDLINE | ID: mdl-34186800

ABSTRACT

Here we describe and illustrate Syllophopsis peetersi sp. nov. from Silent Valley National Park, a biodiversity hotspot region of the Western Ghats of India. The discovery also marks a first native report of the genus from the Indian subcontinent. Scanning Electron Microscopy (SEM) analysis was carried out to elucidate the general morphology and sensilla of the new species. The new species is similar to congeners from Madagascar, but with larger differences from species that occur elsewhere.


Subject(s)
Ants/classification , Animals , Ants/ultrastructure , Biodiversity , India , Microscopy, Electron, Scanning
11.
Zookeys ; 967: 1-142, 2020.
Article in English | MEDLINE | ID: mdl-32999587

ABSTRACT

An updated checklist of the ants (Hymenoptera: Formicidae) of Sri Lanka is presented. These include representatives of eleven of the 17 known extant subfamilies with 341 valid ant species in 79 genera. Lioponera longitarsus Mayr, 1879 is reported as a new species country record for Sri Lanka. Notes about type localities, depositories, and relevant references to each species record are given. Accounts of the dubious and some undetermined species from Sri Lanka are also provided. 82 species (24%) are endemic whereas 18 species that are non-native to Sri Lanka are recorded. The list provides a synthesis of the regional taxonomical work carried out to date and will serve as a baseline for future studies on the ant fauna of this biodiversity hotspot.

12.
J Comput Aided Mol Des ; 33(7): 645-658, 2019 07.
Article in English | MEDLINE | ID: mdl-31123959

ABSTRACT

DNA-binding proteins (DBPs) participate in various biological processes including DNA replication, recombination, and repair. In the human genome, about 6-7% of these proteins are utilized for genes encoding. DBPs shape the DNA into a compact structure known chromatin while some of these proteins regulate the chromosome packaging and transcription process. In the pharmaceutical industry, DBPs are used as a key component of antibiotics, steroids, and cancer drugs. These proteins also involve in biophysical, biological, and biochemical studies of DNA. Due to the crucial role in various biological activities, identification of DBPs is a hot issue in protein science. A series of experimental and computational methods have been proposed, however, some methods didn't achieve the desired results while some are inadequate in its accuracy and authenticity. Still, it is highly desired to present more intelligent computational predictors. In this work, we introduce an innovative computational method namely DP-BINDER based on physicochemical and evolutionary information. We captured local highly decisive features from physicochemical properties of primary protein sequences via normalized Moreau-Broto autocorrelation (NMBAC) and evolutionary information by position specific scoring matrix-transition probability composition (PSSM-TPC) and pseudo-position specific scoring matrix (PsePSSM) using training and independent datasets. The optimal features were selected by the support vector machine-recursive feature elimination and correlation bias reduction (SVM-RFE + CBR) from fused features and were fed into random forest (RF) and support vector machine (SVM). Our method attained 92.46% and 89.58% accuracy with jackknife and ten-fold cross-validation, respectively on the training dataset, while 81.17% accuracy on the independent dataset for prediction of DBPs. These results demonstrate that our method attained the highest success rate in the literature. The superiority of DP-BINDER over existing approaches due to several reasons including abstraction of local dominant features via effective feature descriptors, utilization of appropriate feature selection algorithms and effective classifier.


Subject(s)
DNA-Binding Proteins/chemistry , Machine Learning , Algorithms , Animals , Binding Sites , DNA/chemistry , Databases, Protein , Evolution, Molecular , Humans , Position-Specific Scoring Matrices , Support Vector Machine
13.
Biodivers Data J ; (6): e25016, 2018.
Article in English | MEDLINE | ID: mdl-30034264

ABSTRACT

BACKGROUND: There are no well defined Leptogenys species groups based on the worker morphology from the Oriental region Arimoto (2017). Leptogenys chinensis forms a complex species group with closely related species having little morphological changes Wilson (1958), Sarnat and Economo (2012). From the Oriental region, there are currently 9 species belonging to the L. chinensis group. The group is diagnosed by having edentate masticatory margin of the mandible, smooth body surface, elongate antennae and metallic green cuticle. The species included are: L. assamensis; L. chinensis; L. confucii; L. kraepelini; L. laeviterga; L. pangui; L. peuqueti; L. stenocheilos and L. sunzii. NEW INFORMATION: Leptogenys bhartii sp. n., a new ponerine ant species from Western Himalayas, India, is described and illustrated based on the worker caste. The new species belongs to the Leptogenys chinensis group and mostly resembles Leptogenys chinensis (Mayr, 1870). In the L. chinensis group, the original description of L. stenocheilos is insufficient as it lacks information about type material. As there is no further detailing of this species in the available literature, it is difficult to ascertain its valid status Xu and He (2015) and is therefore, considered a species inquirenda herewith. A revised key to the known species of chinensis-group in the Oriental Region is provided.

14.
J Theor Biol ; 455: 205-211, 2018 10 14.
Article in English | MEDLINE | ID: mdl-30031793

ABSTRACT

N6- methyladenosine (m6A) is a vital post-transcriptional modification, which adds another layer of epigenetic regulation at RNA level. It chemically modifies mRNA that effects protein expression. RNA sequence contains many genetic code motifs (GAC). Among these codes, identification of methylated or not methylated GAC motif is highly indispensable. However, with a large number of RNA sequences generated in post-genomic era, it becomes a challenging task how to accurately and speedily characterize these sequences. In view of this, the concept of an intelligent is incorporated with a computational model that truly and fast reflects the motif of the desired classes. An intelligent computational model "iMethyl-STTNC" model is proposed for identification of methyladenosine sites in RNA. In the proposed study, four feature extraction techniques, such as; Pseudo-dinucleotide-composition, Pseudo-trinucleotide-composition, split-trinucleotide-composition, and split-tetra-nucleotides-composition (STTNC) are utilized for genuine numerical descriptors. Three different classification algorithms including probabilistic neural network, Support vector machine (SVM), and K-nearest neighbor are adopted for prediction. After examining the outcomes of prediction model on each feature spaces, SVM using STTNC feature space reported the highest accuracy of 69.84%, 91.84% on dataset1 and dataset2, respectively. The reported results show that our proposed predictor has achieved encouraging results compared to the present approaches, so far in the research. It is finally reckoned that our developed model might be beneficial for in-depth analysis of genomes and drug development.


Subject(s)
Adenosine/analogs & derivatives , Base Sequence , Neural Networks, Computer , RNA/genetics , Sequence Analysis, RNA , Support Vector Machine , Adenosine/chemistry , Adenosine/genetics , RNA/chemistry
15.
Zootaxa ; 4379(3): 421-428, 2018 Feb 15.
Article in English | MEDLINE | ID: mdl-29689953

ABSTRACT

Ficobracon kashmirensis sp. nov., a new braconid species from Kashmir Himalayas, India, is described with illustrations. The discovery marks the first record of Ficobracon from India, and is the fifth known species of the genus globally. A discussion on the seasonal occurrence and some elements of biology, together with a revised key to the known species, are also provided.


Subject(s)
Hymenoptera , Animal Distribution , Animals , Biology , India , Wasps
16.
Artif Intell Med ; 79: 62-70, 2017 06.
Article in English | MEDLINE | ID: mdl-28655440

ABSTRACT

Cancer is a fatal disease, responsible for one-quarter of all deaths in developed countries. Traditional anticancer therapies such as, chemotherapy and radiation, are highly expensive, susceptible to errors and ineffective techniques. These conventional techniques induce severe side-effects on human cells. Due to perilous impact of cancer, the development of an accurate and highly efficient intelligent computational model is desirable for identification of anticancer peptides. In this paper, evolutionary intelligent genetic algorithm-based ensemble model, 'iACP-GAEnsC', is proposed for the identification of anticancer peptides. In this model, the protein sequences are formulated, using three different discrete feature representation methods, i.e., amphiphilic Pseudo amino acid composition, g-Gap dipeptide composition, and Reduce amino acid alphabet composition. The performance of the extracted feature spaces are investigated separately and then merged to exhibit the significance of hybridization. In addition, the predicted results of individual classifiers are combined together, using optimized genetic algorithm and simple majority technique in order to enhance the true classification rate. It is observed that genetic algorithm-based ensemble classification outperforms than individual classifiers as well as simple majority voting base ensemble. The performance of genetic algorithm-based ensemble classification is highly reported on hybrid feature space, with an accuracy of 96.45%. In comparison to the existing techniques, 'iACP-GAEnsC' model has achieved remarkable improvement in terms of various performance metrics. Based on the simulation results, it is observed that 'iACP-GAEnsC' model might be a leading tool in the field of drug design and proteomics for researchers.


Subject(s)
Algorithms , Computational Biology , Peptides/therapeutic use , Amino Acids , Antineoplastic Agents , Computer Simulation , Humans , Neoplasms/therapy , Sequence Analysis, Protein
17.
Zool Stud ; 56: e12, 2017.
Article in English | MEDLINE | ID: mdl-31966211

ABSTRACT

Mariusz Kanturski, Shahid Ali Akbar, and Colin Favret (2017) Here we describe the presence of the monotypic and poorly known aphid genus Pseudessigella Hille Ris Lambers (Hemiptera: Aphididae: Lachninae) in India. So far, the genus has only been known from Punjab, Pakistan. Representatives of P. brachychaeta Hille Ris Lambers were collected from Pinus wallichiana A.B. Jacks. in the Yousmarg region of the state of Jammu and Kashmir in India. Hitherto unknown oviparous females and dwarfish males, the latter reported in Eulachnini for the first time, are described and illustrated. The male's antennal sensilla and genitalic morphology are additionally studied and presented using Scanning Electron Microscopy. Notes on the biology, distribution, and previously overlooked generic features are given. We provide morphological identi cation keys to the genera of the tribe Eulachnini and to the species of aphid living on P. wallichiana.

18.
Biodivers Data J ; (4): e10464, 2016.
Article in English | MEDLINE | ID: mdl-28174505

ABSTRACT

BACKGROUND: The taxonomy of Camponotus ants in India is mostly based on the worker caste, described in about 96% of the known species (AntWeb 2016). However, nearly 48% of these ant species are only known from workers, with no record of sexual forms. To improve knowledge of Indian Camponotus, we here describe sexuals of Camponotus opaciventris Mayr 1879. NEW INFORMATION: The hitherto unknown sexuals of Camponotus opaciventris Mayr 1879 are described for the first time. Workers are redescribed and distribution of this ant species in Indian Western Himalaya is herewith detailed.

19.
Biodivers Data J ; (3): e5420, 2015.
Article in English | MEDLINE | ID: mdl-26696759

ABSTRACT

BACKGROUND: The members of genus Calyptomyrmex are mostly encountered under rotten logs, in the soil, under stones and in leaf litter samples. These ants are seldom in collections making estimation of their true distributional patterns problematic (Shattuck 2011). The deep antennal scrobes and the unique configuration of the clypeus are distinct to the genus (Bolton 1981). NEW INFORMATION: Herein Calyptomyrmex wittmeri Baroni Urbani, 1975 is redescribed and reported for the first time from India. This also confirms the first valid published record of the genus from the country. The image hosted by AntWeb as C. vedda (CASENT0280817; AntWeb 2015b) collected by Besuchet, Löbl, Mussard from Kerala, India and identified by Brown is actually C. wittmeri (Brown was uncertain of his determination of C. vedda and cautiously inserted an interrogation point in front of his determination). Two workers recently collected at Salim Ali Bird Sanctuary, Kerala present similarities to the specimen identified by Brown. However, characters as the lack of well-developed promesonotal suture, absence of clavate setae, and narrow petiolar node, concur with the diagnosis of C. wittmeri. A revised key to known Indomalayan species of the genus is provided herewith.

20.
Asian Pac J Cancer Prev ; 15(22): 9567-74, 2014.
Article in English | MEDLINE | ID: mdl-25520068

ABSTRACT

ß-Blockers have been one of the most widely used and versatile drugs for the past half a century. A new potential for their use as anti-cancer drugs has emerged in the past few years. Various retrospective case control studies have been suggestive that use of ß-blockers before the diagnosis of cancer could have preventive and protective effects against non-small cell lung carcinoma, melanoma, and breast, pancreatic and prostate cancers. Experimental and clinical observations are still inconclusive with some inconsistent findings. However, indications are pointing toward a positive role of some ß-blockers against certain forms of cancers. This mini review is an effort to present the up to date published results of case-control studies and experimental findings.


Subject(s)
Adrenergic beta-Antagonists/pharmacology , Antineoplastic Agents/pharmacology , Neoplasms/drug therapy , Neoplasms/prevention & control , Apoptosis/drug effects , Breast Neoplasms/drug therapy , Breast Neoplasms/prevention & control , Carcinoma, Non-Small-Cell Lung/drug therapy , Carcinoma, Non-Small-Cell Lung/prevention & control , Catecholamines/metabolism , Cell Proliferation/drug effects , Female , Humans , Male , Melanoma/drug therapy , Melanoma/prevention & control , Pancreatic Neoplasms/drug therapy , Pancreatic Neoplasms/prevention & control , Prostatic Neoplasms/drug therapy , Prostatic Neoplasms/prevention & control
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