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OJB®
Online
Journal
of
Bioinformatics
©
(Online J Bioinformatics©)
Established
1995
ISSN 1443-2250
Editor-In-Chief: Guerrini VH DVM, MVSc, MCompSci, PhD (Bioinformatics, IE), Associate Editor: Durnsford RG MA (AU), Scientific Board : Ben-Miled Z BSc, MSc, PhD (Computer Engineering, USA), Bodèn M BSc, MSc, PhD (Machine learning and biological sequence analysis, AU), Böhringer S MD, BSc, MSc, PhD (Genetic analysis, DE), Bourne DWA BPharm, PhD (Pharmacokinetics, USA), Ceraj I DipEng, MSc (Software engineering, MIT, USA), Colomb RM BSc, PhD (Informatics, CA), Daggard G BSc, PhD (Genetics, AU), Dressel U BSc, Hons, PhD (Genetics, DE), Dubitzky W Dipl Ing, MSc, DPhil (Bioinformatics, DE), Filippich LJ BSc, BVSc, PhD (Genetics, AU), Harrison J BSc, MSc, PhD (Data-mining, USA), Hughes I. BVSc, PhD, (Genetics AU), Maetschke SR MSc, PhD (Software development, machine learning, data mining, optimization, Image and signal processing, DE), Lea R BSc, PhD (Genetic analysis, AU), Lund EM DVM, MPH, PhD ( Informatics, USA), Olsson BE BSc, MSc, PhD (Bioinformatics, SE), O'Kane KC BS PhD (Bioinformatics, USA), Shen L BSc, PhD (Advanced Machine Learning, USA), Song M PhD (Text Mining, Bioinformatics, Information Retrieval and Information Visualization, USA), Teasdale RG BSc, PhD (Computational Cell Biology, AU), Thongboonkerd V, MD, FRCPT (Proteomics, USA). Wang H BEng, MSc, PhD (Gene expression analysis , Biomarker detection, Gene ontology, Prediction of Protein-Protein interaction networks, machine learning and artificial intelligence, UK), Yao J MSc,PhD (Plant genomics, USA ), Zou M MSc, PhD (Cancer Biology and Human Genetics, USA).
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Lecca P.
9 (1): 30-43,
2008
The Microsoft Research-University of Trento Centre for
Computational and System Biology, Trento, Italy.
Submitted March 13 Reviewed
March 27, Accepted April 8, publish April 30 Review
Reports
A
comparison of information on molecular
interactions available in full-length publications versus abstracts
Mahadevan U, Bhate J, Raghunath A,
Kashyap S, Dey PC, Prakash N, Bhat B, Mol L, Wong, L
9 (1): 21-29,
2008
Molecular
Connections Pvt. Ltd., Bangalore, India and Institute for Infocomm
Research (I2R), Singapore.
Submitted November 18 Reviewed
September 23, Accepted January 17 Review
Reports
Elucidating
the role of CREBBP co-activator in erythroid differentiation by
literature mining and analysis
Iyer J,
Raghunath A, Bhate J, Wong L,
9 (1): 12-20, 2008
Molecular
Connections Pvt. Ltd, Basavanagudi, Bangalore, India, and National
Institute of Singapore, Singapore.
Submitted December 27 Reviewed
January 23, Accepted January 25 Review
Reports
Kumari A1, Patade VY, Suprasanna P, 9 (1): 1-11, 2008
Molecular
evolution of archaeal
CRISPR and
Cas genes
Chatterjee R, Dutta A, Chaudhuri K, 8 (2): 189-204, 2007
Molecular & Human Genetics Division Indian Institute of Chemical Biology, Jadavpur, Kolkata-700 032, India.
Submitted October 12 Reviewed
November 15 Published November 29 Review
Reports
Structure
and function prediction of a hypothetical protein
(Q307B9_SPIPL) of Spirulina platensis
(Nordstedt) Geitler
Lakshmi PTV, Uma Maheswari S,
Annamalai A, 8
(2): 179-188, 2007.
Phytomatics
Laboratory, Department
of Bioinformatics,
Montreal
Submitted August
15 Reviewed
August 28 Published September 23 Review
Reports
Constructing phylogeny from whole genome
alignment
Chan
PY, Lam TW, Liu CM, Yiu
SM 8
(2) : 165-178, 2007
Department
of Computer Science, The
Vlachakis D, Brancale A 8
(2) : 154-164, 2007
Shape-to-String Mapping: A Novel
Approach To Clustering Time-Index
Biomics Data
Antoine W, Miernyk JA 8
(2) : 139-153, 2007
Submitted June
20 Reviewed July
5-6 Revised July 14 Published July 16 Review
Reports
In-silico
TAT-PTD prediction for cell penetrating peptides.
Tandon C, Aggarwal A, Goel P, Sengupta D, Naik P, 8 (1) : 115-138, 2007
Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, Waknaghat, Distt.-Solan, Himachal. Pradesh, India.
Sengupta D, Verma D, Naik PK 8 (1) : 99-114, 2007
Department of Bioinformatics and Biotechnology, Jaypee University of Information Technology, Waknaghat, Distt.-Solan, Himachal Pradesh, India.
Shaik J, Yeasin
M 8 (1) :
84-98, 2007
CVPIA LAB, Department of Electrical and Computer Engineering,
University
of Memphis,
Memphis, Tennessee, 38152, United States.
Yadav D, Singh VK, Singh NK 8 (1) : 75-83, 2007
Department of Molecular Biology and Genetic Engineering, College of Basic Sciences and Humanities G.B. pant University of Agriculture and Technology, Pantnagar (Uttarakhand) 2National Research Center
on Plant Biotechnology Indian Agriculture Research Institute, New Delhi 110012
In
Silico Identification of Antioxidant
gene G6PD in Caenorhabditis
elegans
Jitendra N, Prachi S, Alpana V, Shakti S 8 (1) : 61-74, 2007
Bioinformatics
Centre, AIB, Amity University, Noida, UP, INDIA
An Indigenous Integration System for
Biodiversity Databases
Sarinder KKS1, Lim LHS1
, Dimyati K2,
Merican AF1 8 (1) : 56-60, 2007
Institute
of Biological Sciences, Faculty of Science, University of Malaya, and
Department of Electrical Engineering, Faculty of Engineering,
University of
Malaya.
Unbalanced
Factorial Design: Type I, II and III Sums of Squares
Boyacioglu
H,
Baskan O 8 (1) :
56-55, 2007
Comparative
analysis of MMFF94x and AMBER99
force fields using aspartic-serine-metallo proteases and
Sugar-Binding Proteins as different data
sets.
Singh
H,
Marla SS, Verma D 8 (1) :
45-55, 2007
Biotechnology
and Bioinformatics Department, Jaypee University of Information
Technology,
Waknaghat, Solan (H.P.) India 173215
Gadewal NS, Zingde SM
Bioinformatics
centre (BTIS
Sub-DIC) and Advanced Centre for Treatment Research and Education in
Cancer, Tata Memorial Centre, Kharghar, Navi Mumbai, 410210, India
PIDA: A new algorithm for pattern
identification
Putonti C, Pettitt BM, Reid JG, Fofanov Y 8 (1) : 30-40, 2007
Departments of Computer Science,
Biology and Biochemistry, and Chemistry, University of Houston, Houston
Texas, USA
Plasma proteome knowledgebase: exploring
disease biomarker correlations
Iyer J, Srinivas VM,
Khamari L, Sequeira JM, Das N, Periasamy UR, Bhate 8 (1) : 18-29, 2007
Molecular
Connections Pvt. Ltd., Bangalore, India
A comparison of information on molecular
interactions available in full-length publications versus abstracts
Mahadevan U,
Bhate J, Raghunath A,
Kashyap S, Dey PC, Prakash N, Bhat B, Zachariah LL,
Wong, L
8 (1) : 8-17,
2007
Molecular
Connections Pvt. Ltd., Bangalore, India, and National Institute of
Singapore, Republic of Singapore
In silico
tools for evaluation of conservation homology among interleukins.
Krupanidhi
S, Madhukar SS, Doughman SD
Department of
Biosciences, Sri Sathya Sai Institute of Higher
Learning, Prasanthinilayam, Department of
Bioinformatics, Sathyabama
Department of
Nutrition,
Plant
promoter prediction tool and isolation of a promoter from Porteresis
coarctata
Mahalakshmi S,
Centre
for Plant
Molecular Biology, Osmania University,
Hyderabad,
India and SR Software, Jubilee Hills, Hyderabad, India
A flexible spot
recognition method for SNP
microarray systems
Huang CY, Liu L
7 (2) : 101-117,
2006
Center for Pharmacogenomics and Complex Disease Research,
University of Medicine & Dentistry of New Jersey, Newark, NJ 07101,
USA and Department
of Applied Mathematics, Chung Yuan Christian
University, Chung-Li, Taiwan
32023, ROC
A computer-intensive method to analyse
microarray experiments with
a very small number of replications in case of heteroscedasticity
Muhammad
MA, Neuhäuser M 7 (2) : 90-100, 2006
Institute for Medical Informatics, Biometry and Epidemiology,
of Applied Science, Südallee 2, D-53424 Remagen, Germany.
In
silico Homology
modeling and Structure assessment of Holo (Acyl Carrier
Protein) synthetase from Treponema
pallidum
Dowlathabad MR,
Venkata RD, Rallapalli R 7
(2)
: 85 - 89, 2006
Department of
Biotechnology, Bioinformatics Laboratory and Department of
Microbiology,
Structural
Classification of Protein Using Surface Roughness Index
Singha
S1, Lahiri T1,
Dasgupta AK, Chakrabarti P
7 (2)
: 74-84, 2006
Department of Biotechnology, Institute of Engineering & Technology,
U. P. Technical University, Sitapur Road,
Lucknow, India
Genomic predictions for T Lymphocyte
epitopes on Plasmodium falciparum (Malaria)
Singh SP, Khan
F Mishra BN 7 (2)
:
69-73, 2006
Department of Biotechnology,
Institute of Engineering & Technology, U. P. Technical University,
Sitapur
Road, Lucknow-226021 (U.P.) India
Conservation
of the regulatory pho-box in acetoacetyl-CoA
reductase promoters
across bacterial PHB
biosynthetic
metabolic
pathway
Department of Biotechnology, Institute of Engineering & Technology, U. P. Technical University, Sitapur Road, Lucknow-226021 (U.P.) India
2006 (1)
Extending
the
Dynamic Range of Signal Intensities in DNA Microarrays
Choi D, O’Malley JP, Lasarev
MR, Lapidus J, Lu X, Pattee
P, Nagalla SR 7
(1) : 46-56, 2006
Division of
Biostatistics, Department of Public Health and Preventive Medicine, Center for Biomarker Discovery, Department of Pediatrics, Center
for Research
onOccupational and Environmental
Toxicology,
Comparative
structure analysis of Chorismate
synthase
Marla S , Yalamanchili HK, Gelli
P, Singh HK, Praveen G, Ghatta G, Srikanth
S, Goutham K. 7 (1) :
35-45, 2006
Biotechnology and Bioinformatics Department, JayaPrakash University of Information
technology,
Statistical Potential
Determining
Protein Interaction Sites
Williams
G 7 (1) : 32-34, 2006
Wolfson
Centre for Age Related Diseases, The Wolfson Wing, Hodgkin Building,
Kings
College London, United Kingdom
Classification
of incipient Alzheimer patients using gene expression data: Dealing
with
potential misdiagnosis
Robbins K, Joseph S, Zhang W, Rekaya
R,
Bertrand JK 7 (1) :
22-31, 2006
Department
of Animal and Dairy
Science, and Statistics,
Clusterer: extendable java application for
sequence
grouping and cluster analyses
Klepac-Ceraj
V, Ceraj I, Polz
MF, 7
(1) 15-21, 2006
Information Services
and Technology, and Department of Civil and Environmental Engineering, Massachusets Institute of
Technology (MIT),
A
correction
for expression value dependencies in Affymetrix
Broemel F, Kruse E, Neuhäuser
M, Dürig J, JÖckel KH,
7 (1) : 1-14, 2006
Institute for Medical Informatics, Biometry and Epidemiology, and
Department of
Hematology,
Boosting
Speed of MS/MS Peptide Sequencing via Database Search by Spectral
Profile
Comparison
Liu
J, Carrillo B, Yanofsky C, Beaudrie C, Morales F, Kearney R 6
(2) 174-183, 2005
Department
of Biomedical
Engineering,
The
Effect of
Inverse Document Frequency Weights on DNA Sequence Retrieval
O'Kane
KC 6
(2) 162-173, 2005
Department of Computer Science, The
Binding
of fork head protein to DNA partly determined by base cooperation.
Mach V 6
(2) 149-161, 2005
Institute
of Entomology, Czech Academy of Sciences, České
Budějovice, Czech Republic.
Analysis
of n-nary
tract frequency in the genome
Ophir
D,
Department
of Computer Science and Mathematics, Ariel Academic College in Yudea and Samaria and ELTA Systems Ltd.
In silico identification of cis-regulatory
elements in Mesorhizobium loti
Khan F, Agrawal S, Mishra BN 6 (2) : 129-1