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OJB®
Online
Journal of Bioinformatics
©
(Online J
Bioinformatics©)
Established 1995
ISSN 1443-2250
Spanish
Version
Version
en Espanol
Managing
Editors:
Guerrini VH., DVM, MVSc, MCompSci, PhD (Bioinformatics, IE),
Anna Wallentin Searle BA, MA (SE),
Rachel Durnsford BA (AU).
Scientific
Board:
Ben-Miled Z., BSc, MSc, PhD (Computer
Engineering, USA),
Bodèn M., BSc, MSc,
PhD (Machine learning, 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),
Gao S., BS,
PhD (Bioinformatics, USA),
Harrison
J., BSc, MSc, PhD (Data-mining,
USA),
Hughes
I., BVSc, PhD, (Genetics AU),
Maetschke SR MSc, PhD (Software, learning,
processing, DE),
Jiang Y., BSc, MSc, Msc, PhD, (Data analysis, oncology, USA),
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 (Machine
Learning, USA),
Song M., PhD (Text Mining,
Bioinformatics, Information, USA),
Teasdale RG., BSc, PhD (Computational
Cell Biology, AU),
Thongboonkerd V, MD, FRCPT (Proteomics,
USA).
Wang H., BEng, MSc, PhD (Gene expression, UK)
Wu D BS, PhD (Bioinformatics and drug design, USA),
Yao J MSc,PhD (Plant
genomics, USA ),
Zou M., MSc, PhD (Cancer
Biology and Human Genetics, USA).
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2010 (1)
Phylogenetic Clustering and Comparative Homology Modelling of Nitrobenzene
Nitroreductase from Pseudomonas pseudoalcaligenes JS45 and Comamonas
sp. CNB-1
Monika K, Dowlathabad MR, Spain JC, Kadiyala V.,
11 (1): 38-46, 2010.
Department of Microbiology 2Department of Biotechnology, Sri
Krishnadevaraya University, Anantapur IndiaA and 3School of Civil and
Environmental Engineering, Georgia Institute of Technology, Atlanta, Georgia,
USA.
Submitted May 19, Rev
Dec14, Publish Mar 23 Review Report
csPCR: A
computational tool for the simulation of the Polymerase Chain Reaction
Dasu S,
Williams A, Fofanov Y, Putonti C.,
11 (1): 34-37, 2010.
Department(s) of Computer Science and Biology, University of
Houston, Department(s) of Biology, Bioinformatics and Computer Science,
Loyola University Chicago, USA
Submitted Jan 9, Rev
Jan14, Publish Mar 18 Review Report
Structural and docking analysis of HIV-1 integrase and Transportin-SR2
interaction: Is this a more general and specific route for
retroviral nuclear import and its regulation?
Shityakov
S, Rethwilm A, Dandekar T.,
11 (1): 19-33, 2010.
Institute for Virology and Immunobiology, University of
Wurzburg, Versbacher Str. 7, 97078 Wurzburg, Germany Dept. of
Bioinformatics, Biocenter University of Wurzburg, 97074
Wurzburg,Germany,
Submitted Jan 2, Rev
Jun 7, Publish Mar 18 Review Report
Beyond
single p-value cut-offs: Methods to improve decision making in GO
enrichment analysis of microarray experiments
De Haan JR,
Wehrens R, Bauerschmidt S , Van Schaik RC, Piek E, Buydens LMC.,
11 (1): 1-18, 2010.
Institute for Molecules and Materials, Analytical Chemistry,
Department of Applied Biology, Centre for Molecular and Biomolecular
Informatics, Nijmegen Centre for Molecular Life Sciences, Radboud
University
Nijmegen and
Schering-Plough, The Netherlands.
Submitted May 18, Rev
Jun 9, re-submitted Jan 7, Publish Feb28 Review
Report
2009 (2)
Analysis
of clustered microRNA in biological pathways
Mookherjee
S, Sinha M, Mukhopadhyay S, Bhattacharyya NP, Mohanty PK.,
10 (2): 280-296, 2009.
Centre for Applied Mathematics and Computational Science,
2Structural Genomics Section, Crystallography and Molecular Biology
Division, Theoretical Condensed Matter
Physics Division, Saha
Institute of Nuclear Physics,1/AF Bidhan Nagar, Kolkata, 700064 India.
Submitted Oct 8, Rev
Oct 16, Publish Nov 27 Review Report
In
Silico
analysis of translation initiation sites from P. falciparum
Patakottu
BR, Mamidipally C, Patankar S, Noronha S.,
10 (2): 259-279, 2009.
Department of Biosciences and Bioengineering, and Chemical
Engineering, Indian Institute of Technology, Mumbai, India.
Submitted Oct 5, Rev
Oct 13, Publish Nov 17 Review Report
Effect
of iron deprivation on expression of sphingomyelase in pathogenic
serovar Lai
Velineni
S, Ramadevi S, Asuthkar S, Sritharan M.,
10 (2): 241-258, 2009.
Department of
Animal Sciences, University of Hyd erabad, Hyderabad, India;
Informatics Division, GVK Biosciences Pvt Ltd, Hyderabad, India.
Submitted Jul 10, Rev
Oct 3, Publish Oct 30
Review
Report
An
algorithm for edit distance of genome rearrangement based on
seriate-block mutation
Zhang S, Lai J .,
10 (2): 233-240, 2009.
Department of Computer Science, Guangzhou Maritime College
and School of Information Science and Technology, Sun Yat-sen
University,
Guangzhou, P.R. China.
Submitted Sep 16, Rev
Oct 1, Publish Oct 28 Review
Report
Single
nucleotide polymorphisms (SNPs) and indels in expressed sequence tag
libraries of turmeric (Curcuma longa L.)
Chandrasekar A, Riju A, Sithara K, Anoop S ,
Santhosh J Eapen .,
10 (2): 224-232, 2009.
Bioinformatics Centre, Indian Institute of Spices Research, Marikunnu
P.O, Calicut – 673012, Kerala, India
Submitted Jun 18, Sep
15, Publish Oct 15 Review
Report
Prolyzer:
A wireless application for physico-chemical analysis of protein
sequences
Pabla SS, Pabla SS, Sajja SP.,
10 (2): 218-223, 2009.
Department
of Computer Science, Sardar Patel University, India
Submitted Nov 28,
Reviewed Aug 15, Publish Sept 15 Review Report
GENOVA:
A rapid genome vizualization and functional genomics software applied
to strain comparisons in Staphylococcus
aureus
Liang
C, Wolz C, Herbert S, Bernhard J, Engelmann S, Hecker
M, Götz F, Dandekar T.,
10 (2): 201-217, 2009.
Department of Bioinformatics,
University of Würzburg Am Hubland, Würzburg , Institute of
Medical Microbiology and Hygiene, Clinical
University of Tübingen, Department of Microbial Genetics,
University of Tübingen, Institute of Microbiology, University of
Greifswald,
EMBL, Heidelberg, Germany.
Submitted Jul 17,
Reviewed Jul 29, Publish August 15
Review Report
Identification
of active gene modules during pancreatic development
Gao S, Wang X.,
10
(2):191-200, 2009.
Department of Physics & the
Comprehensive
Diabetes
Center,
University of
Alabama at
Birmingham,
Birmingham,
AL,
35294,
USA.
Submitted Jul
18, Reviewed Jul 22, Publish August 10
Review
Report
Use of
computational and structural bioinformatic strategies in controlling
fusarium wilt in cotton
Prabhakaran
S, Srividya V, Bharathi N, Jayakanthan M, Manikanda Boopathi N,
10 (2):180-190, 2009.
Department of Plant Molecular Biology and Biotechnology, CPMB, Tamil
Nadu Agricultural University,
Coimbatore 641003,
India.
Submitted Jun
21, Reviewed Jul 3, Publish July 23
Review
Report
2009 (1)
DyeML:
XML-based format for handling natural organic dyes
Aghoutane B, Benslimane R, Chenfour N, Elbannay O, Meknassi M., 10 (1):156-164, 2009
Laboratoire
de Transmission et Traitement de l’information (LTTI), Ecole Supérieure
de Technologie and UFR Informatique Avancée, Faculté des sciences Dhar
el mehraz, Fez, Morocco.
Submitted Feb
24, Reviewed May 22, Publish April 15
Review
Report
Designing
of drug for removal of methylation from Tcf21 gene in lung cancer
Gupta SK, Singh A, Srivastava M.,
10 (1):149-155, 2009
Department
of Bioinformatics, UIET, CSJM University and DOEACC center of
Bioinformatics, India.
Submitted Apr
27, Reviewed May 16, Publish April 15
Review Report
Towards
establishing the molecular function of Pfam Domain DUF294 by sequence
analysis and homology modeling
Gononesekere NCW, Beaudry S, Tasovsky I 10
(1):125-133, 2009
Department of Chemistry and Biochemistry and Department of Biology, University of Northern
Iowa, Cedar Falls, U.S.A.
Submitted Apr
23, Reviewed May 1, revised May 4, Publish May 30 Review
Report
Phylogenetic analysis, homology modeling, molecular dynamics and
structure based designing of new inhibitors against cinnamyl alcohol
dehydrogenase
(CAD) cloned and
sequenced from a
leguminous tree subabul (Leucena
leucocephala)
Sekhar NP, Kumar RD, Sirisha VL,
Prashant S Kavi Kishor PB 10
(1):103-124, 2009
Department of Genetics, Osmania University,
Hyderabad, India.
Submitted Apr
17, Reviewed Apr 24, Accepted Apr 26, Publish May 30
Review Report
Prediction
of 3- dimensional structure of GL12 of
Homo Sapiens
Sreekanth P, Narayan J
10 (1):98-102, 2009
Bioinformatics Centre, Amity Institute of
Biotechnology,
Amity University,
India.
.
Submitted Aug
15, Reviewed March 24, Accepted Mar 26, Publish April 30
Review Report
In silico identification of
small interfering RNA (siRNA) in the putative genes of White Spot
Syndrome virus
Singh V, Somvanshi P
10 (1):93-97, 2009
Bioinformatics
Centre,
Biotech
Park,
Lucknow,
India.
Submitted Aug
21, Reviewed March 19, Accepted Mar 20, Publish April 21
Review Report
Genetic
algorithm self-adaptive mutation rate for DNA folding (GASAMR)
Mezher MA, Khader AT
10 (1):82-92, 2009
School of
Engineering and Design, School of
Computer Science, UB8 3PH, West London, UK Brunel University, 11800,
Universiti Sains Malaysia, Penang, Malaysia.
Submitted Feb
1, Reviewed March 11, Accepted Mar 14, Publish April 18
Review
Report
A
statistical method for verification of rareness in DNA sequences using
sequence encoding
Meena K, Menaka K, Sundar TV,
Subramanian KR
10 (1):74-81, 2009
Departments of
Computer Science, I.T. & Applications and M.C.A.,
Shrimati Indira Gandhi College and Postgraduate and Research Department
of Physics, National College,
India.
Submitted Nov
1, Reviewed March 9, Accepted Mar 11, Publish April 15
Review Report
Multiple
contrast test for detecting monotonic dose-relationship and
FDR-adjusted confidence intervals for selected parameters in a
microarray setting
Lin D, Shkedy Z, Burzykowski T,
Yekutieli D, De Bondt A,
Göhlmann WHH, Talloen W, Bijnens
L,
10 (1):67-73, 2009
Hasselt University, I-BioStat, Universitaire Campus, Diepenbeek,
Belgium, Department of Statistics and Operation Research, School of
Mathematical Sciences, Tel Aviv
University,
Ramat Aviv, Israel,
J&JPRD - Biometrics
and Clinical
Informatics, Beerse, Belgium..
Submitted Mar
1, Reviewed March 9, Accepted Mar 11, Publish April 2
Review
Report
Prediction
0f 3-dimensional structure of ORF3 protein of genotype 1 hepatitis E
virus
Rathi B, Naik S, Sarangi AN, Aggarwal R,
10 (1):60-66, 2009
Biomedical Informatics Centre, Sanjay Gandhi Postgraduate Institute of
Medical Sciences,
Lucknow 226014,
India.
Submitted Jan
6, Reviewed March 6, Accepted Mar 11, Publish April 2
Review Report
A
systematic approach to understanding E.
coli responses to oxygen: from raw microarray data to pathways
and published abstracts
Maleki-Dizaji S,
Holcombe M, Rolfe MD, Fisher P Green
J,
Poole RK,
Graham
AI,
SYSMO-SUMO
consortium,
10
(1):51-59, 2009
Department
of Computer Science, The
University of
Sheffield,
Sheffield
S1 4DP,
United Kingdom.
Department of Molecular Biology and Biotechnology, The
University of
Sheffield ,
Sheffield
S10 2TN,
United
Kingdom.
Department of
Computer Science, The University
of
Manchester,
Manchester
M13 9PL,
United Kingdom.
Submitted Feb
13, Reviewed Feb 15, Accepted Feb 16, Publish March 3
Review Report
In silico identification of tandem
inter/intra-generic genetic elements (TIGE) using a random nucleotide
generating Perl program: A potential approach for
locating
structure-function regions of recently sequenced genomes
Jha PK, Stashenko
P,
10
(1):40-50, 2009
Division
of Cytokine Biology, The Forsyth Institute, Harvard medical School
Affiliate in Oral and Craniofacial Science, Boston, Massachussets, USA
Submitted Jan 23,
Reviewed Jan 29, Accepted Feb 1, Publish Feb 15
Review Report
Derivation of a protein marker from heat denatured protein
aggregate
Lahiri T, Mishra H, Kumar U,
Misra K,
10
(1):29-39, 2009
Division of Bioinformatics and
Allied Sciences, Indian Institute of Information technology, Allahabad,
India
Submitted
Sep 27, reviewed Jan 15, accepted Jan 15, publish Feb
15
Review Report
Identification of potential targets and lead molecules for
designing inhibitory drugs against Chlamydophila
pneumoniae
Reddy EH,
Satpathy GR,
10 (1): 14-28, 2009
Department of Biotechnology and
Medical Engineering, National Insitute of
Technology, Rourkela-769008,
India.
Submitted
Nov 28, reviewed Jan 5, accepted Jan 10, published Jan
30
Review
Report
Padmavathi GV, Nataraj Sekhar P, Saralakumari D
10
(1):1-13, 2009
Department of Biochemistry,
Sri
Krishnadevaraya
University, Anantapur, India, and Katholic University, (leuven,
Belgium
Submitted
Dec 3, reviewed Dec 23, Accepted Jan 4, published Jan
30 Review Report
2008 (2)
Kushwaha H, Gupta N, Singh VK, Kumar A, Yadav
D
9 (2):130-145, 2008
Department of Molecular Biology and Genetic Engineering,
College of
Basic Sciences and Humanities,
G.B.
Pant
University of Agriculture and
Technology,
Pantnagar
(UttaraKhand),
India
Submitted
Jul29, reviewed Sep 1, accepted
Nov 25, published Dec 30
Review Report
Sucaet Y, Magrath
C
9 (2):121-129, 2008
Biological and Environmental Science,
Troy
University,
Troy,
AL
36082,
USA
Submitted October 3, reviewed October 17,
accepted October 23, published October 30
Review
Report
Homology
based 3D-structure modeling of glucose specific Sesbania
stem lectin
Saxena S, Das
HR,
Das D, Biswas
S
9 (2):113-120, 2008
Proteomics and Structural Biology Laboratory,
Institute of
Genomics and Integrative
Biology,
Delhi
University Campus,
Mall Road
110007,
India
Submitted August 2, reviewed August 20,
accepted August 21, published August 28
Review
Report
Hu Zhi-Liang,
Bao J, Reecy
JM
9 (2):108-112, 2008
Department
of Animal Science, Iowa State University, 2255 Kildee Hall and
Department of Computer Science, Iowa State University, 226
Atanasoff Hall, Ames, Iowa 50011-
3150,
USA
Submitted August 2, Reviewed August 20,
Accepted August 21, published August 28
Review
Report
Bijarnia RK, Kaur T, Naik PK, Singla SK, Tandon C
9 (2):92-107, 2008
Department of Biotechnology and Bioinformatics,
Jaypee
University
of
Information Technology, Waknaghat,
Solan and Department of Biochemistry,
Panjab
University, India
Submitted February 26, Reviewed May 23,
Accepted August 10, publish August 25
Review
Report
2008 (1)
Tripathy KP, Roy S, Khan F
Shasany AK, Sharma A, Khanuja
SPS 9 (1):78-91, 2008
Bioinformatics and In Silico Biology
Division, Central Institute of Medicinal and Aromatic Plants (CSIR),
Lucknow,
India
Submitted June 7, Reviewed May 23, Accepted July 10,
publish July 26
Review
Report
Murthy BSN, Pandit MW, Singh L. 9
(1):60-77, 2008
Centre for Cellular and Molecular Biology,
Uppal Road,
Hyderabad – 500 007;
India
Submitted
March 11 Reviewed May 13, Accepted June 16, publish June 26
Review
Report
In
silico experiments on a faulty
ubiquitin-proteasome system in the pathogenesis of Parkinson's
disease
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
In
silico analysis of P5CS gene evolution in
plants
Kumari A1, Patade VY, Suprasanna
P, 9 (1): 1-11, 2008
Plant Cell Culture Technology Section, Nuclear Agriculture &
Biotechnology Division, Bhabha Atomic
Research Centre,
Trombay, Mumbai 400 084.
India.
Submitted
August 3 Reviewed August 23, December 16
Published January 12
Review
Reports
2007 (2)
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,
Bharathiar University,
Tamil
Nadu, India, and
School of
Dietetics and Human Nutrition,
McGill
University,
Macdonald Campus,
Montreal,
Quebec, Canada.
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
University of
Hong Kong,
Hong Kong
Submitted July
14 Reviewed August 14, 22 Revised August 24 Published August 28
Review
Reports
The 3D
structure of the Japanese Encephalitis helicase,
using homology based molecular modelling
techniques
Vlachakis D, Brancale
A
8 (2) :
154-164, 2007
Welsh
School of Pharmacy, Cardiff University, King Edward VII Avenue,
Cardiff, CF10 3XF, United Kingdom
Submitted August 2 Reviewed August 5 Revised
August 6 Published August 14
Review
Reports
Shape-to-String
Mapping: A Novel Approach To Clustering
Time-Index
Biomics Data
Antoine W, Miernyk JA
8 (2) : 139-153,
2007
Department of Biochemistry USDA, Agricultural Research Service, Plant
Genetics Research Unit and Interdisciplinary Plant Group, University of
Missouri, Columbia, USA
Submitted June
20 Reviewed July 5-6 Revised July
14 Published July 16
Review
Reports
2007 (1)
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, Himachal, Pradesh, India
Binding
Modes, binding Affinities and ADME Screening of HIV-1 NNRTI Inhibitor:
Efavirnez and its analogues.
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.
A
Unified Framework for Finding Differentially Expressed Genes in MPTP
Mouse Model for
Parkinson’s Disease
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.
In
silico Cis-regulatory
Element Analysis of Seed Storage Protein Promoters Cloned from
Different Cultivars of Wheat, Rice and Oat
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)
National
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 KKS, Lim LHS ,
Dimyati K, Merican AF, 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
Ege
University Faculty of Science,
Department of Statistics,
Bornova,
Turkey
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
Database
and
interactome map of genes involved in oral
cancer
Gadewal
NS,
Zingde SM
8 (1) : 41-44, 2007
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 8 (1) : 1-7, 2007
Department
of Biosciences, Sri Sathya Sai Institute of Higher Learning, Prasanthinilayam, Department of Bioinformatics, Sathyabama
Institute of
Science and Technology,
Chennai-600119
TN,
India
and Department of Nutrition,
University of
North Carolina,
Chapel Hill,
NC
27599
USA.
2006 (2)
Plant
promoter prediction tool and isolation of a promoter from
Porteresis coarctata
Mahalakshmi S,
Krishna
NC, Rao
KV, Reddy VD 7 (2) : 118 - 139, 2006
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,
University
Hospital
Essen, Hufelandstr.
55,
D-45122 Essen and
Department
of Mathematics and Technique,
RheinAhrCampus,
Koblenz
. University
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,
Sri
Krishnadevaraya
University,
Anantapur-AP
India
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
Khan F,
Singh SP, Mishra BN
7 (2) : 57-68, 2006
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 on Occupational
and
Environmental
Toxicology,
Oregon
Health &
Science University, Oregon, USA
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,
Solan,
India.
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,
University of
Georgia,
Athens,
Georgia
USA.
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),
Cambridge, Massachusets,
USA.
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,
University
Hospital,
Essen and Department of
Botany, Faculty of Biology,
Technical
University,
Darmstadt,
Germany.
2005(2)
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,
McGill
University,
Montreal
Quebec,
Canada.
The
Effect of Inverse Document Frequency Weights on DNA Sequence Retrieval
O'Kane KC
6 (2)
162-173, 2005
Department of Computer Science, The
University of
Northern Iowa,
Cedar Falls,
Iowa
50613-0507,
USA.
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. Department of Computer Science and
Mathematics, Ariel Academic College in
Yudea
and Samaria
and ELTA Systems Ltd.
Israel
In
silico identification of cis-regulatory elements in Mesorhizobium
loti
Khan F, Agrawal S, Mishra BN 6 (2) : 129-141, 2005
Department of Biotechnology, Institute of Engineering & Technology and Jawahar Lal Nehru Center of Advanced Research, Bangalore, India.
DNA microarray
model for computation of absolute gene expression level
Xu, M 6 (2) : 121-128, 2005
Gene21st,
19 Belcourt Rd.
Worcester,
MA
01605,
USA.
MIPE an XML format to facilitate the storage
and exchange of PCR-related data
Aerts JA, Veenendaal T
6 (2)
: 114-120, 2005.
Bioinformatics Group, Roslin
Institute,
United Kingdom,
Animal Breeding and Genetics Group,
Wageningen
University, The
Netherlands.
2005
(1)
Automated
Long
Oligo Design on Consensus Regions of
Similar Genomes
Schretter C, Milinkovitch
MC 6 (1) 107 -113, 2005
Unit of Evolutionary Genetics (UEG), Institute of
Molecular Biology and Medicine (IBMM),
Université Libre de Bruxelles
(ULB).
Combining
Kernel Dimension-Reduction with Regularized Classifiers for Tissue
Categorization
Shen L, Tan EC
6 (1) : 91-106, 2005
School
of Computer Engineering, Nanyang
Technological University, Singapore, 639798.
In
silico identification and modelling of a
putative iron-regulated TonB-dependant
outer membrane
receptor
protein from the
genome
of
Leptospira
interrogans
serovar Lai
Sritharan M, Ramadevi S, Pasupala
N, Asuthkar S, Tajne
S
6 (1) : 74-90, 2005
Department
of Animal Sciences, University of Hyderabad, Hyderabad, India;
Informatics Division, GVK Biosciences Pvt
Ltd, Hyderabad, India
Eulerian Superpath
Approach to Correct Sequencing Error in Shotgun Assembly
Shi W, Zhou W, Zheng W 6 (1) : 65-73,
2005
School of
Information Technology,
Deakin University,
Australia,
Institute of High Performance Computing, Department of Computer
Science and Technology
Tsinghua
University,
China.
From
prediction of subcellular localization to functional classification:
Discrimination of DNA-
packing
and other nuclear proteins
Höglund A, Dönnes P, Adolph HW,
Kohlbacher O
6 (1)
: 51-64, 2005
Department(s) of Simulation of Biological Systems,
WSI/ZBIT, Eberhard
Karls University Tübingen,
Sand 14, D-72076 Tübingen and Biochemistry
and
Center for
Bioinformatics,
Saarland
University,
D-66041, Saabrücken, Germany
Substitution of polymorphic amino acids in proteins:Predicting functional alterations using
amino acid properties.
Baksi K,
Bhattacharyya NP.
6 (1) : 42-50, 2005
Crystallography and Molecular Biology Division, Saha Institute of Nuclear Physics, Kolkata 700 064,
India.
Morphometric and Distance Computational Software
for evolutionary studies.
Carvajal-Rodríguez A, Rodríguez MG
6
(1) : 34-41, 2005.
Departamento de Bioquímica, Genética
e Inmunología, Facultad
de Ciencias,
Universidad de Vigo,
36310
VIGO,
Spain
Support
vector machines and bioinformatics
Sethi RJ 6 (1) : 22-33, 2005.
Computer Science and Engineering Department and
Marlan &
Rosemary
Bourns
College of Engineering,
University of California-Riverside,
USA
A
novel method to predict protein subcellular localizations
Huang J, Shi F, 6 (1) : 8-21, 2005.
Schools of Computer Science, Science, Mathematics and Statistics,
Huazhong
Agricultural
University,
Wuhan,
Hubei
province, P.R. China.
MolVRML: build VRML models of 3D molecular
structures
Zou Y, 6 (1) :1-7,
2005.
School of
Computer Science and
Information Technology,
RMIT
University, VIC 3001
Australia
2004
Prediction
of transcriptional regulation by Dlx and
Msx homeodomain
proteins
Swarnalatha M, Jutur PP, Amouda V,
Mathur PP, Reddy AR 5 : 132-145, 2004
Bioinformatics Centre, Department of Biochemistry and
Molecular Biology, School of Life Sciences, Pondicherry
University, Pondicherry, India
In silico gene identification and homology modeling
of
Chorismate synthase in Clostridium
difficile
Sunita T, Ramadevi S 5 :129-131, 2004.
Informatics Division, GVK
Biosciences
Pvt Ltd,
Hyderabad,
India
MCM-Based
clustering for time-course gene expression data
Wu
FX, Zhang WJ, Kusalik AJ 5
:102-128, 2004
Division of Biomedical Engineering, Department of
Computer Science,
University of
Saskatchewan,
Saskatoon,
Canada
Parallel
DNA fragment assembly algorithm based on Eulerian
superpath
Zheng W, Shi W,
Zhou W 5 : 91-101, 2004
Institute
of
High Performance Computing
Department of Computer Science and
Technology Tsinghua
University,
China and
School of
Information Technology,
Deakin
University,
Australia.
Bayesian
mixture modelling of species divergence
Adam
A, Mengersen
K, Baker P 5 : 69-90, 2004.
INSEE,
CREST, Paris, France, Queensland University of Technology and CMIS,
CSIRO, Australia
Reliability of RNA secondary structure
prediction with XNAfold
Zou Y 5 :
59-68, 2004.
School of
Agriculture and Food
Systems,
University of
Melbourne and
School of
Computer Science and
Information Technology,
RMIT
University VIC 3001
Australia.
Wave analysis of microarray
expression as predictor of gene expression in tumors.
Gupta A, Agrawal S 5 : 49-58, 2004.
Indian Institute of Information Technology
Allahabad, Deoghat
Jhalwa Campus,
RajRooppur
Road,
India
Phylogenetic
clustering and secondary structural analysis of Plant
Terpenoid Synthases
Singh IV, Agrawal S, Khan F,
Mishra BN 5 : 32-48, 2004.
Department of Biotechnology,
Institute of
Engineering &
Technology, Uttar Pradesh and Bioinformatics
Division Indian Institute of Information Technology,
Allahabad,
India
GASP: a new genetic
algorithm
(based on) surviving
probability.
Carvajal-Rodríguez A 5 :
23-31, 2004.
Departamento de Bioquímica, Genética e Inmunología, Facultad
de Ciencias Universidad de Vigo, 36200 VIGO, Spain
Prediction of protein homo-oligomers by incorporating
quasi-sequence-order effect
Zhang SW, Pan Q, Zhang HC, Wu YH, Shi JU
5 :
13-22, 2004.
Department of Automatic Control,
Northwestern
Polytechnical
University,
Xi’an
710072, People’s Republic of
China
Molecular
phylogenetics and
functional evolution of major RNA recognition domains of recently
cloned
and characterized
autoimmune
RNA-binding
particle
Suleymanoglu
E 5: 1-12, 2004.
Institute of
Biochemistry, University of Vienna, Medical Faculty, Vienna Biocenter,
Dr. Bohr-Gasse 9/3, A-1030, Vienna, Austria
2003
Identification of GltC transcription
factor binding DNA motifs and its novel co-regulated genes in
nitrogen
fixing bacteria
Khan F, Agrawal S,
Mishra BN 4:106-114, 2003
Biotechnology Program, Institute of Engineering & Technology,Sitapur road, Lucknow-22,
India.
Matching
carbohydrate-binding domains in Arabidopsis thaliana genome:
development of a lectin database
Moreno FB, Facó F, Ceccatto
VM, Sampaio AH, Costa ABS,
Freitas JLT, Nogueira LL, Lima ME,
Lima-Filho JL,
Cavada BS, 4:96-105,
2003
Departamento de Bioquímica e Biologia
Molecular, Universidade Federal do
Ceará, Fortaleza-CE
Campus do Pici, Universidade
Estadual do Ceará
(UECE) ,
Departamento
de
Engenharia
de
Pesca, Universidade
Federal do Ceará, Fortaleza-CE,
Universidade Federal do
Pernambuco (UFPE), Universidade
Federal do
Pernambuco(UFPE),
Brazil.
2002
In
Silico Markovian
Bioinformatics for predicting 1Ha-NMR chemical shifts in
mouse Epidermis
Growth Factor(mEGF).
Díaz HG, De Armas RR, Uriarte
E. 3:83-95, 2002.
Chemical
Bio-actives
Center,
Department of Chemistry,
Central
University of "Las Villas"
54830,
Cuba.
Department of Organic Chemistry, Faculty
of Pharmacy,
University of Santiago de
Compostela
15706,
Spain
Simple
Object Access Protocol (SOAP) for Bioinformatic
Software Interoperability
Xia Y, Stinner RE, Wang X. 3:74-82, August
2002.
NSF
Center
for
IPM
North Carolina
State
University,
Raleigh, NC 27695-7553, 2
Department of Plant Pathology
North Carolina State
University
Raleigh,
NC
27695,
USA.
BAO,
A Biological and Chemical Ontology For
Information Integration
Ben-Miled Z, Webster YW, Nianhua
L,
Bukres O, Nayar AK, Martin J,
Oppelt R. 3:60-73, June 2002
Electrical Engineering Department,
Purdue
School of
Eng.
&: Tech. Computer &: Information Science, Purdue
School of
Science, Lilly Corporate
Center,
Eli
Lilly and
Company,
USA.
A software package for drawing ideograms
automatically.
BÖhringer S, GÖdde R,
BÖhringer
D, Schulte T, Epplen JT 3 : 51-59, May
2002.
Department of molecular human genetics, Ruhr University
Bochum, Department of ophthalmology,
University clinics, Düsseldorf, Germany
The
corporate information factory as a Bioinformatics framework
Casey,
RM 3:42-50, April 2002.
Agilent
Technologies, Inc. Information Technology, Agilent
Technologies, Inc. Headquarters
395 Page Mill Rd.
Palo Alto,
CA
94306, USA
2001
An unsupervised neural network approach for discovery of
gene expression patterns in B-cell
lymphoma
.
Azuaje F, 2:26-41,
2001.
Department of Computer Science,
Trinity College,
Ireland
Development of a web-based informatics educational exercize
in genomics.
Flower R 2:22-25, 2001
A/Professor, Department of Haematology and
Transfusion Medicine, University of Sydney and Principal Scientist,
PaLMS Transfusion Services, Northern Sydney Health
1996-2000
Bioinformatics and Extended Markup
Language (XML).
Guerrini VH, Jackson D 1:12-21,
2000.
Distributed Systems Technology Centre (DSTC) Pty. Ltd and school of
Veterinary Science, University of
Queensland, St Lucia, Queensland 4172, Australia.
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Phylogenetic Clustering and Comparative Homology Modelling of Nitrobenzene
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