Beyond Bioinformatics

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                     Home About the journal Editorial Board Archives Author Guidelines Contact us            ISSN 0973-2063

         

 

               

 

 

 

 

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Volume 4, Issue 10 (2010)

Hypothesis

Computational analysis  of pongachalcone I activity against the  highly resistant bacteria Pseudomonas putida
S. B. Paul & S. Choudhury, 4(10) 473-477 (2010) PDF HTML-ABSTRACT

 

Hypothesis

Interaction of CTX-M-15 enzyme with cefotaxime: a molecular modelling and docking study

S. Shakil & A. U. Khan, 4(10) 468-472 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
Classification of DNA sequences based on thermal melting profiles
E. Reese & V. V. Krishnan, 4(10) 463-467 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Classification and clustering analysis of pyruvate dehydrogenase enzyme based on their physicochemical properties

A. K. Banerjee et al., 4(10) 456-462 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Low thymine content in PINK1 mRNAs and insights into Parkinson’s disease

P. Anandagopu et al., 4(10) 452-455 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
Computational identification of post-translational modification sites and functional families reveal possible moonlighting role of rotaviral proteins

S. Chattopadhyay et al., 4(10) 448-451 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Discriminating antigen and non-antigen using proteome dissimilarity: bacterial antigens

K. Ramakrishnan & D. R. Flower, 4(10) 445-447 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Length constraints of multi-domain proteins in metazoans
S. Middleton et al., 4(10) 441-444 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Function inferences from a molecular structural model of bacterial ParE toxin

L. C. B. Barbosa et al., 4(10) 438-440 (2010) PDF, HTML-ABSTRACT

 

Database

An integrated database to enhance the identification for silkworm gene resources

C. K. Kim et al., 4(10) 436-437 (2010) PDF, HTML-ABSTRACT

 

Volume 4, Issue 10 (2010)

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Volume 4, Issue 9 (2010)

Hypothesis
Analysis of casein alpha S1 & S2 proteins from different mammalian species
T. A. Masoodi & G. Shafi, 4(9) 427-433 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
Isolation, characterization and structural analysis of Amorpha–4, 11-diene synthase (ADS3963) from Artemisia annua L.
P. Alam et al., 4(9) 421-426 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
A QSAR study on some series of anti-hepatitis B Virus (HBV) agents
P. K. Arora et al., 4(9) 417-420 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
Molecular modeling of DICER and identification of phosphorylation sites
P. Dhar, 4(9) 412-416 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
Lysine richness in human snurps – possible sites for electrophilic attacks
S. K. Dey et al., 4(9) 409-411 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
A ClpP protein model as tuberculosis target for screening marine compounds
A. Tiwari et al., 4(9) 405-408 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
Predictive inference on cytoplasmic and mitochondrial thioredoxin peroxidases in the highly radioresistant Lepidopteran insect Spodoptera frugiperda
S. Hambarde et al., 4(9) 399-404 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Nearest-Neighbor classifier as a tool for classification of protein families
M. Chaurasiya et al., 4(9) 396-398 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Computational genome analyses of metabolic enzymes in Mycobacterium leprae for drug target identification
A. Shanmugam & J. Natarajan, 4(9) 392-395 (2010) PDF, HTML-ABSTRACT

 

Database
ExSer: A standalone tool to mine protein data bank (PDB) for secondary structural elements
V. Dhandapani et al., 4(9) 390-391 (2010) PDF, HTML-ABSTRACT

Volume 4, Issue 9 (2010)

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Volume 4, Issue 8 (2010)

Hypothesis

Effective feature selection framework for cluster analysis of microarray data

G. Pok et al., 4(8) 385-389 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Modelling of pyruvate decarboxylases from ethanol producing bacteria
A. Shrestha, 4(8) 378-384 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
Computational Discovery of miR-TF Regulatory Modules in Human Genome
D. H. Tran 4(8) 371-377 (2010) PDF, HTML-ABSTRACT

 

Hypothesis
A data-mining approach for multiple structural alignment of proteins
W. Y. Siu et al., 4(8) 366-370 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Molecular docking studies on quinazoline antifolate derivatives as human thymidylate synthase inhibitors

V. Srivastava et al., 4(8) 357-365 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Genomic adaptation of prokaryotic organisms at high temperature

S. Basak et al., 4(8) 352-356 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Clustering tendency in the protein fold space

O. Carugo, 4(8) 347-351 (2010) PDF, HTML-ABSTRACT

 

Web Server

The microarray manual curation tool (MMCT): A web server for microarray probe evaluations

D. Tulpan et al., 4(8) 344-346 (2010) PDF, HTML-ABSTRACT

 

Web server

WebFARM: web server for finite automated restriction mapping

T. R. Singh, 4(8) 341-343 (2010) PDF, HTML-ABSTRACT

 

Views & Challenges

Breaking the HxNy outbreak

J. Manikandan et al., 4(8) 338-340 (2010) PDF, HTML-ABSTRACT

Volume 4, Issue 8 (2010)

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Volume 4, Issue 7 (2010)

Current Trends

Computational Epigenetics: the new scientific paradigm
S. J. Lim et al., 4(7) 331-337 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Structural study of physiological ligands with major birch pollen allergen Betv1 by docking and molecular dynamics simulation

S. Kundu & D. Roy 4(7) 326-330 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Metabolic pathway reconstruction of eugenol to vanillin biotransformation in Aspergillus sp

S. Srivastava et al., 4(7) 320-325 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Interaction modes at protein hetero-dimer interfaces
A. Vaishnavi et al., 4(7) 310-319 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

A HLA-DRB supertype chart with potential overlapping peptide binding function
A. Mohanapriya et al., 4(7) 300-309 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Lead expansion and virtual screening of Indinavir derivate HIV-1 protease inhibitors using pharmacophoric - shape similarity scoring function
S. Shityakov & T. Dandekar, 4(7) 295-299 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Virtual screening of AmpC / β – lactamase for antimicrobial resistance in Pseudomonas aeruginosa

R. Farmer et al., 4(7) 290-294 (2010) PDF, HTML-ABSTRACT

 

Hypothesis

Identification and modeling of drug target for Clostridium perfringens SM101

G. Chhabra et al., 4(7) 278-289 (2010) PDF, HTML-ABSTRACT

 

Database

A database for inborn errors of metabolism in the Indian state of Andhra Pradesh
S. A. A. Latheef, 4(7) 276-277 (2010) PDF, HTML-ABSTRACT

 

Web Server

FAIR - A server for internal sequence repeats

R. Senthilkumar et al., 4(7) 271-275 (2010) PDF, HTML-ABSTRACT

 

Volume 4, Issue 7 (2010)

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Volume 4, Issue 6 (2009)

Database

An integrated database to enhance the identification of SNP markers for rice

C. K. Kim et al., 4(6) 269-270 (2009) PDF, HTML-ABSTRACT

 

Database

A Database for anti-diabetic plants with clinical/ experimental trials
S. Singh et al., 4(6) 263-268 (2009) PDF, HTML-ABSTRACT

 

Prediction Model
Relationship between human oral lichen planus and oral squamous cell carcinoma at a genomic level: a data-mining study
L. Giacomelli et al., 4(6) 258-262 (2009) PDF, HTML-ABSTRACT

 

Prediction Model
LCK, survivin and PI-3K in the molecular biomarker profiling of oral lichen planus and oral squamous cell carcinoma

O. Oluwadara et al., 4(6) 249-257 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Dataset of potential targets for Mycobacterium tuberculosis H37Rv through comparative genome
analysis

S. M. Asif et al., 4(6) 245-248 (2009) PDF, HTML-ABSTRACT

 

Hypothesis
A modeled structure for amidase-03 from Bacillus anthracis

R. D. Sharma et al., 4(6) 242-244 (2009) PDF, HTML-ABSTRACT

 

Hypothesis
Amino acid sequence divergence of Tat protein (exon1) of subtype B and C HIV-1 strains: Does it have implications for vaccine development?
A. J. Kandathil et al., 4(6) 237-241 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Comparative study of antioxidants as cancer preventives through inhibition of HIF-1 alpha activity

J. Upadhyay et al., 4(6) 233-236 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Prediction of functional engrailed homology-1 protein motif from sequence

D. S. Dalafave, 4(6) 229-232 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Model based design of inhibitors for c-jun
P. Chauhan & M. Shakya, 4(6) 223-228 (2009) PDF, HTML-ABSTRACT

 

Volume 4, Issue 6 (2009)

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Volume 4, Issue 5 (2009)

Hypothesis

Molecular cloning, sequence analysis and homology modelling of galE encoding UDP galactose 4 epimerase of Aeromonas hydrophila

S. Agarwal et al., 4(5) 216-222 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

A study of interface roughness of heteromeric obligate and non-obligate protein-protein complexes

I. Bera & S. Ray, 4(5) 210-215 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Binding of 2CA1P (nocturnal inhibitor) to the active site of RubisCO using Genetic Algorithm (GA)

M Ounissi et al., 4(5) 206-209 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

A decision tree model for the prediction of homodimer folding mechanism

A. Suresh et al., 4(5) 197-205 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Targeting pseudoknots in H5N1 hemagglutinin using designed aptamers
P. Dhar et al., 4(5) 193-196 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Curcuminoids as inhibitors of thioredoxin reductase: A receptor based pharmacophore study with distance mapping of the active site
D. V. Singh & K. Misra, 4(5) 187-192 (2009) PDF, HTML-ABSTRACT

 

Database

A database for human Y chromosome protein data

P. P. Kathikeyan et al., 4(5) 184-186 (2009) PDF, HTML-ABSTRACT

 

Database

Cry-Bt identifier: A biological database for PCR detection of Cry genes present in transgenic plants

V. K. Singh et al., 4(5) 182-183 (2009) PDF, HTML-ABSTRACT

 

Web Server

JUZBOX: A web server for extracting biomedical words from the protein sequence

B. Paul et al., 4(5) 179-181 (2009) PDF, HTML-ABSTRACT

 

Web Server

CFP: a web-server for constructing sequence-based protein conformational flexibility profiles

I. B. Kuznetsov & S. Rackovsky, 4(5) 176-178 (2009) PDF, HTML-ABSTRACT

 

Volume 4, Issue 5 (2009)

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Volume 4, Issue 4 (2009)

 

Views & Challenges

Book review on Bioinformation Discovery: Data to knowledge in Biology
S. J. Bhore, 4(4) 175 (2009) PDF, HTML-ABSTRACT

 

Database

GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles
A. P. Davis et al., 4(4) 173-174 (2009) PDF, HTML-ABSTRACT

 

Database
ShewRegDB: Database and visualization environment for experimental and predicted regulatory information in Shewanella oneidensis MR-1
M. H. Syed et al., 4(4) 169-172 (2009) PDF, HTML-ABSTRACT

 

Hypothesis
Predicting highly-connected hubs in protein interaction networks by QSAR descriptors
M.  Hsing et al., 4(4) 164-168 (2009) PDF, HTML-ABSTRACT

 

Hypothesis
SSR repeat dynamics in mitochondrial genomes of five domestic animal species
S. K. Shakyawar et al., 4(4) 158-163 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Molecular interactions between Bos taurus interferon-τ1c and human Type I interferon receptor

V. S. Jamwal et al., 4(4) 155-157 (2009) PDF, HTML-ABSTRACT

 

Hypothesis
High GC content: Critical parameter for predicting stress regulated miRNAs in Arabidopsis thaliana
M. Akaash et al., 4(4) 151-154 (2009) PDF, HTML-ABSTRACT

Hypothesis
Genome subtraction for novel target definition in Salmonella typhi
B. Rathi et al., 4(4) 143-150 (2009) PDF, HTML-ABSTRACT

Hypothesis
A model for the evaluation of domain based classification of GPCR
T. Kumari et al., 4(4) 138-142 (2009) PDF, HTML-ABSTRACT

Hypothesis
Identification of differentially expressed gene modules between two-class DNA microarray data
Y. Okada & T. Inoue, 4(4) 134-137 (2009) PDF, HTML-ABSTRACT
 

Volume 4, Issue 4 (2009)

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Volume 4, Issue 3 (2009)

Software

CARON – Average RMSD of NMR structure ensembles
K Sikic & O Carugo, 4(3) 132-133 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Sequence and structural analysis of 4SNc-tudor domain protein from Takifugu Rubripes
J Zheng et al., 4(3) 127-131 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

A docking model of human ribonucleotide reductase with flavin and phenosafranine
PL Priya & P Shanmughavel, 4(3) 123-126 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Identification of SNP in ginger  using expressed sequence tags
A Chandrasekar et al., 4(3) 119-122 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Identification of host encoded microRNAs interacting with novel swine-origin influenza A (H1N1) virus and swine influenza virus
T He et al., 4(3) 112-118 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Types of interfaces for homodimer folding and binding
V Karthikraja et al., 4(3) 101-111 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Recognition of protein complexation based on hydrophobicity distribution
M Banach & I Roterman, 4(3) 98-100 (2009) PDF, HTML-ABSTRACT

 

Hypothesis

Phylogenetic analysis of surface proteins of novel H1N1 virus isolated from 2009 pandemic
M Danishuddin et al., 4(3) 94-97 (2009) PDF, HTML-ABSTRACT

 

Database

CytokineDB: a database collecting biological information
S Costantini et al., 4(3) 92-93 (2009) PDF, HTML-ABSTRACT

 

Views & Challenges
Expanding HIV-1 epidemic  aggravate therapeutics and vaccine development program in India
U Neogi, 4(3) 90-91 (2009) PDF, HTML-ABSTRACT
 

Volume 4, Issue 3 (2009)

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Volume 4, Issue 2 (2009)

Views & Challenges
A perspective on Healthcare related web Interfaces
RC Tripathi & N Singh, 4(2) 87-89 (2009)
PDF, HTML-ABSTRACT

Software
A utility script for automating and integrating AutoDock and other associated programs for Virtual Screening
V Sharma et al., 4(2) 84-86 (2009)
PDF, HTML-ABSTRACT

Database
HNHDb: A database on pattern based classification of HNH domains reveals functional relevance of sequence patterns and domain associations
A Veluchamy et al., 4(2) 80-83 (2009)
PDF, HTML-ABSTRACT

Database
Phyto-mellitus: a phyto-chemical database for diabetes
SK Middha et al., 4(2) 78-79 (2009)
PDF, HTML-ABSTRACT

Database
MIC Database: A Collection of antimicrobial compounds from literature
PA Babu et al., 4(2) 75-77 (2009)
PDF, HTML-ABSTRACT

Database
INPACDB: Indian plant anticancer compounds database
U Vetrivel et al., 4(2) 71-74 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Predicted metal binding sites for phytoremediation
A Sharma et al., 4(2) 66-70 (2009)
PDF, HTML-ABSTRACT

Hypothesis
On finding poorly translated codons based on their usage frequency
L Ponnala, 4(2) 63-65 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Molecular dynamics simulation of human Thiopurine S-methyltransferase complexed with 6-mercaptopurine model
W Mokmak et al., 4(2) 59-62 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Phylogenetic analysis of antibiotic producing Streptomyces strains
V Singh et al., 4(2) 53-58 (2009)
PDF, HTML-ABSTRACT

 

Volume 4, Issue 2 (2009)

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Volume 4, Issue 1 (2009)

Views & Challenges
The Influenza-A mystery: Insight from Bioinformatics resources and analysis
AU Khan, 4(1) 52 (2009)
PDF, HTML-ABSTRACT

Database
Genomic Target Database (GTD): A database of potential targets in human pathogenic bacteria
D Barh et al., 4(1) 50-51 (2009)
PDF, HTML-ABSTRACT

Software
GSTaxClassifier: a genomic signature based taxonomic classifier for metagenomic data analysis
F Yu et al., 4(1) 46-49 (2009)
PDF, HTML-ABSTRACT
 

Hypothesis
HIV reverse transcriptase: Structural interpretation of drug resistant genetic variants from India
AJ Kandathil et al., 4(1) 36-45 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Identification of mutations at the antigenic and glycosylation sites in hemagglutinin protein of H5N1 strain
P Salahuddin & AU Khan, 4(1) 30-35 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Insight to pyrazinamide resistance in Mycobacterium tuberculosis by molecular  docking
AN Unissa et al., 4(1) 24-29 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Mitochondrial antioxidant defense in radio-resistant Lepidopteran insect cells
S Suman et al., 4(1) 19-23 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Characterization of allergenic epitopes of Ory s1 protein from Oryza sativa and its homologs
R Sharma et al., 4(1) 12-18 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Structural prediction and analysis of VIH-related peptides from selected Crustacean species
GPC Nagaraju et al., 4(1) 6-11 (2009)
PDF, HTML-ABSTRACT

Hypothesis
Identification and characterization of merozoite surface protein 1 epitope
SP Singh & BN Mishra, 4(1), 1-5 (2009)
PDF, HTML-ABSTRACT
 

Volume 4, Issue 1 (2009)

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                                                                                                            ISSN 0973-2063  ##  Last updated on Apr 25, 2010

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