• 5255 Citations
  • 37 h-Index
1980 …2021
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Research Outputs 1980 2019

2007

ESTExplorer: An expressed sequence tag (EST) assembly and annotation platform

Nagaraj, S. H., Deshpande, N., Gasser, R. B. & Ranganathan, S., Jul 2007, In : Nucleic acids research. 35, SUPPL.2, p. 1-5 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Expressed Sequence Tags
Gene Ontology
Workflow
Metabolic Networks and Pathways
Computational Biology

Genomic characterization of Tv-ant-1, a Caenorhabditis elegans tag-61 homologue from the parasitic nematode Trichostrongylus vitrinus

Hu, M., Campbell, B. E., Pellegrino, M., Loukas, A., Beveridge, I., Ranganathan, S. & Gasser, R. B., 1 Aug 2007, In : Gene. 397, 1-2, p. 12-25 14 p.

Research output: Contribution to journalArticleResearchpeer-review

Trichostrongylus
Ants
Caenorhabditis elegans
Adenine Nucleotide Translocator 1
Genes

In silico characterization of immunogenic epitopes presented by HLA-Cw*0401

Tong, J. C., Zhang, Z. H., August, J. T., Brusic, V., Tan, T. W. & Ranganathan, S., 2007, In : Immunome Research. 3, 1, p. 1-8 8 p., 7.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Epitopes
Peptides
Computer Simulation
HLA-C Antigens
Glycoproteins

In silico grouping of peptide/HLA class I complexes using structural interaction characteristics

Tong, J. C., Tan, T. W. & Ranganathan, S., 2007, In : Bioinformatics. 23, 2, p. 177-183 7 p.

Research output: Contribution to journalArticleResearchpeer-review

Leukocytes
Antigens
HLA Antigens
Peptides
Grouping

Intelligent agent system for bio-medical literature mining

Islam, M. T., Bollina, D., Nayak, A. & Ranganathan, S., 2007, ICICT 2007: Proceedings of International Conference on Information and Communication Technology. Kabir, S. M. L. (ed.). Dhaka, Bangladesh: ICICT, p. 57-63 7 p. 4261365

Research output: Chapter in Book/Report/Conference proceedingConference proceeding contributionResearchpeer-review

Open Access
File
Intelligent agents
Biomarkers
Genes
Pattern matching
Bioinformatics

Methods and protocols for prediction of immunogenic epitopes

Tong, J. C., Tan, T. W. & Ranganathan, S., Mar 2007, In : Briefings in Bioinformatics. 8, 2, p. 96-108 13 p.

Research output: Contribution to journalArticleResearchpeer-review

Epitopes
Major Histocompatibility Complex
Peptides
T-cells
Bioinformatics

Oesophagostomum dentatum - Potential as a model for genomic studies of strongylid nematodes, with biotechnological prospects

Gasser, R. B., Cottee, P., Nisbet, A. J., Ruttkowski, B., Ranganathan, S. & Joachim, A., May 2007, In : Biotechnology Advances. 25, 3, p. 281-293 13 p.

Research output: Contribution to journalReview articleResearchpeer-review

Oesophagostomum
Double-Stranded RNA
Strongylida
Swine
Genes
2006

ASGS: an alternative splicing graph web service

Bollina, D., Lee, B. T. K., Tan, T. W. & Ranganathan, S., Jul 2006, In : Nucleic acids research. 34, WEB. SERV. ISS., p. W444-W447 4 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Alternative Splicing
Eukaryota
Exons
Recombinant DNA
Genes

Comparative genomic analysis of glycoylation pathways in yeast, plants and higher eukaryotes

Ranganathan, S., Wongsai, S. & Helena Nevalainen, K. M., 2006, Bioinformatics. Arora, D. K., Berka, R. M. & Singh, G. B. (eds.). Amsterdam: Elsevier, Vol. 6. p. 227-248 22 p. (Applied mycology and biotechnology; vol. 6).

Research output: Chapter in Book/Report/Conference proceedingChapterResearchpeer-review

Golgi Apparatus
Eukaryota
Glycosylation
Yeasts
Schizosaccharomyces

Deduction of functional peptide motifs in scorpion toxins

Tan, P. T. J., Ranganathan, S. & Brusic, V., Jun 2006, In : Journal of Peptide Science. 12, 6, p. 420-427 8 p.

Research output: Contribution to journalArticleResearchpeer-review

Scorpions
Ion Channels
Peptides
Chemical Databases
Databases

Establishing bioinformatics research in the Asia Pacific

Ranganathan, S., Tammi, M., Gribskov, M. & Tan, T. W., 18 Dec 2006, In : BMC Bioinformatics. 7, SUPPL.5, p. 1-4 4 p., S1.

Research output: Contribution to journalEditorialResearchpeer-review

Open Access
File
Bioinformatics
Computational Biology
bioinformatics
Research
India

Modeling the bound conformation of Permphigus Vulgaris-associated peptides to MHC Class II DR and DQ Alleles

Tong, J. C., Bramson, J., Kanduc, D., Chow, S., Sinha, A. A. & Ranganathan, S., 2006, In : Immunome Research. 2, 1, 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Desmoglein 3
Conformation
Peptides
Conformations
Alleles

MPID-T: database for sequence-structure-function information on T-cell receptor/peptide/MHC interactions

Joo, C. T., Kong, L., Tin, W. T. & Ranganathan, S., 2006, In : Applied Bioinformatics. 5, 2, p. 111-114 4 p.

Research output: Contribution to journalArticleResearchpeer-review

T-cells
major histocompatibility complex
T-Cell Antigen Receptor
Major Histocompatibility Complex
Peptides

OMIA (Online Mendelian Inheritance in Animals): an enhanced platform and integration into the Entrez search interface at NCBI.

Lenffer, J., Nicholas, F. W., Castle, K., Rao, A., Gregory, S., Poidinger, M., Mailman, M. D. & Ranganathan, S., 1 Jan 2006, In : Nucleic Acids Research. 34, Database issue, p. D599–D601 3 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Genetic Databases
Information Centers
Information Services
Biotechnology
Genes

Prediction of desmoglein-3 peptides reveals multiple shared T-cell epitopes in HLA DR4- and DR6- associated Pemphigus vulgaris

Tong, J. C., Tan, T. W., Sinha, A. A. & Ranganathan, S., 18 Dec 2006, In : BMC Bioinformatics. 7, SUPPL.5, p. 1-11 11 p., S7.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
HLA-DR6 Antigen
Desmoglein 3
pemphigus (skin disease)
HLA-DR4 Antigen
Epitopes

Prediction of HLA-DQ3.2β ligands: Evidence of multiple registers in class II binding peptides

Tong, J. C., Zhang, G. L., Tan, T. W., August, J. T., Brusic, V. & Ranganathan, S., 15 May 2006, In : Bioinformatics. 22, 10, p. 1232-1238 7 p.

Research output: Contribution to journalArticleResearchpeer-review

Peptides
Ligands
Prediction
Scoring
Binders

SCORPION2: a database for structure-function analysis of scorpion toxins

Tan, P. T. J., Veeramani, A., Srinivasan, K. N., Ranganathan, S. & Brusic, V., 1 Mar 2006, In : Toxicon. 47, 3, p. 356-363 8 p.

Research output: Contribution to journalArticleResearchpeer-review

Scorpions
Databases
Poisons
Ion Channels
Scaffolds

SVM-based prediction of caspase substrate cleavage sites

Wee, L. J. K., Tan, T. W. & Ranganathan, S., 18 Dec 2006, In : BMC Bioinformatics. 7, SUPPL.5, p. 1-9 9 p., S14.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
caspases
Caspases
Support vector machines
Support Vector Machine
Substrate
2005

Accurate prediction of scorpion toxin functional properties from primary structures

Tan, P. T. J., Srinivasan, K. N., Seah, S. H., Koh, J. L. Y., Tan, T. W., Ranganathan, S. & Brusic, V., Sep 2005, In : Journal of Molecular Graphics and Modelling. 24, 1, p. 17-24 8 p.

Research output: Contribution to journalArticleResearchpeer-review

Bioinformatics
functional analysis
annotations
Functional analysis
predictions

Bioinformatics Education-Perspectives and Challenges

Ranganathan, S., 2005, In : PLoS Computational Biology. 1, 6, p. 0447-0448 2 p., e52.

Research output: Contribution to journalComment/opinionResearchpeer-review

Open Access
File

Cloning and molecular characterization of the first aquatic hyaluronidase, SFHYA1, from the venom of stonefish (Synanceja horrida)

Ng, H. C., Ranganathan, S., Chua, K. L. & Khoo, H. E., 14 Feb 2005, In : Gene. 346, p. 71-81 11 p.

Research output: Contribution to journalArticleResearchpeer-review

Hyaluronoglucosaminidase
Venoms
Molecular Cloning
Amino Acid Sequence
Complementary DNA

MVC Architecture in Bioinformatics web applications and its Java implementation

Ranganathan, S., Bollina, D. & Lee, B. T. K., 2005, iiWAS 2005: the Seventh International Conference on Information Integration and Web-based Applications & Services : September 19-21, 2005, Kuala Lumpur, Malaysia. Kotsis, G., Tanier, D., Bressan, S., Ibrahim, I. K., Mokhtar & Salimah (eds.). Austrian Computer Society, p. 759-764 6 p.

Research output: Chapter in Book/Report/Conference proceedingConference proceeding contributionResearchpeer-review

Bioinformatics
Servers
Web services
Genes
Recombinant DNA

SGS: splicing graph server

Bollina, D., Lee, B. T. K. & Ranganathan, S., 2005, Proceedings of the 2005 International Joint Conference of InCoB, AASBi and KSBi. Lee, D., Wong, L., Kim, D-W., Kim, S., Tan, T. W. & Lee, K-H. (eds.). Korea: InCoB, AASBi and KSBi, p. 47-50 4 p.

Research output: Chapter in Book/Report/Conference proceedingConference proceeding contributionResearchpeer-review

SPdb - A signal peptide database

Choo, K. H., Tan, T. W. & Ranganathan, S., 13 Oct 2005, In : BMC Bioinformatics. 6, p. 1-8 8 p., 249.

Research output: Contribution to journalArticleResearchpeer-review

Protein Sorting Signals
Peptides
Databases
Proteins
Protein Transport
2004

Aligning mRNA/EST data to geneomic sequences: a novel approach

Ranganathan, S., 2004, p. 24-24. 1 p.

Research output: Contribution to conferenceAbstractResearch

Alternative Splicing: Bridging the Gap Between the Genome and the Transcriptome

Ranganathan, S., 2004, p. 51-51. 1 p.

Research output: Contribution to conferenceAbstractResearch

Classification of BNIP2-Cdc42GAP homology domain family

Tan, T. W., Tan, K. H., Ranganathan, S. & Low, B. C., 2004, p. 14-14. 1 p.

Research output: Contribution to conferenceAbstractResearch

DEDB: a database of Drosophila melanogaster exons in splicing graph form

Lee, B. T. K., Tan, T. W. & Ranganathan, S., 7 Dec 2004, In : BMC Bioinformatics. 5, p. 1-8 8 p., 189.

Research output: Contribution to journalArticleResearchpeer-review

Alternative Splicing
Drosophilidae
Drosophila melanogaster
Exons
Genes

Delineation of modular proteins: domain boundary prediction from sequence information.

Kong, L. & Ranganathan, S., Jun 2004, In : Briefings in Bioinformatics. 5, 2, p. 179-192 14 p.

Research output: Contribution to journalArticleResearchpeer-review

Proteins
Databases
Molecular Sequence Annotation
Protein Engineering
Sequence Homology

Drosophila melanogaster Exon Database

Lee, B. T. K., Ranganathan, S. & Tan, T. W., 2004, p. 14-14. 1 p.

Research output: Contribution to conferenceAbstractResearch

Flexible Docking of Pemphigus Vulgaris Peptides to MHC Class II DR and DQ Alleles

Tong, J. C., Ranganathan, S., Bramson, J., Kanduc, D. & Sinha, A., 2004, p. 40-40. 1 p.

Research output: Contribution to conferenceAbstractResearch

Mapping Alternate splice variants onto protein structures using biocomputing methods

Ranganathan, S., Gopalan, V. & Madhwacharyula, C. L., 2004, p. 3-3. 1 p.

Research output: Contribution to conferenceAbstractResearch

Modeling the structure of bound peptide ligands to major histocompatibility complex

Tong, J. C., Tan, T. W. & Ranganathan, S., Sep 2004, In : Protein Science. 13, 9, p. 2523-2532 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Major Histocompatibility Complex
Ligands
Peptides
Peptide Receptors

Representing Transcript Diversity in the Drosophila Melanogaster Genome using Splicing Graphs

Ranganathan, S., Lee, B. T. K. & Tan, T. W., 2004, p. 30-30. 1 p.

Research output: Contribution to conferenceAbstractResearch

SDPMOD: an automated comparative modeling server for small disulfide-bonded proteins

Kong, L., Kwong Lee, B. T., Tong, J. C., Tan, T. W. & Ranganathan, S., 1 Jul 2004, In : Nucleic acids research. 32, Suppl 2, p. W356-W359 4 p.

Research output: Contribution to journalArticleResearchpeer-review

Disulfides
Proteins
Proline
Pharmaceutical Preparations
Research

SigPep: A Database for Signal Peptides

Choo, K. H., Ranganathan, S. & Tan, T. W., 2004, p. 12-12. 1 p.

Research output: Contribution to conferenceAbstractResearch

The integrin αLβ2 hybrid domain serves as a link for the propagation of activation signal from its stalk regions to the I-like domain

Tng, E., Tan, S. M., Ranganathan, S., Cheng, M. & Law, S. K. A., 24 Dec 2004, In : Journal of Biological Chemistry. 279, 52, p. 54334-54339 6 p.

Research output: Contribution to journalArticleResearchpeer-review

Lymphocyte Function-Associated Antigen-1
Integrins
Chemical activation
Intercellular Adhesion Molecule-1
Adhesion

Wormsplice: An alternative splicing database of C. Elegans using splicing graphs

Bollina, D. & Ranganathan, S., 2004, p. 7-7. 1 p.

Research output: Contribution to conferenceAbstractResearch

Xpro: database of eukaryotic protein-encoding genes

Gopalan, V., Tan, T. W., Lee, B. T. K. & Ranganathan, S., 1 Jan 2004, In : Nucleic acids research. 32, Database issue, p. D59-D63 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Protein Databases
Introns
Nucleic Acid Databases
Databases
Genes
2003

A common site within factor H SCR 7 responsible for binding heparin, C-reactive protein and streptococcal M protein

Giannakis, E., Jokiranta, T. S., Male, D. A., Ranganathan, S., Ormsby, R. J., Fischetti, V. A., Mold, C. & Gordon, D. L., 1 Apr 2003, In : European Journal of Immunology. 33, 4, p. 962-969 8 p.

Research output: Contribution to journalReview articleResearchpeer-review

Complement Factor H
C-Reactive Protein
Heparin
Complement Inactivating Agents
Vaccinia

Antisense suppression of a cytokinin-binding protein from Petunia causes excessive branching and reduces adventitious shoot bud induction in vitro

Kumar, P. P., Kumar, B. D. & Ranganathan, S., 2003, Plant biotechnology 2002 and beyond: proceedings of the 10th IAPTC&B Congress June 23–28, 2002 Orlando, Florida, U.S.A.. Vasil, I. K. (ed.). Dordrech: Springer, Springer Nature, p. 285-287 3 p.

Research output: Chapter in Book/Report/Conference proceedingConference proceeding contributionResearchpeer-review

Database on neurotoxins from snakes

Joyce, S. P. Y., Steffanie, K. C. Y., Ramkishen, P. N., Armugam, A., Ranganathan, S. & Jeyaseelan, K., Dec 2003, In : Journal of Neurochemistry. 87, S1, p. 139-139 1 p.

Research output: Contribution to journalMeeting abstractResearchpeer-review

MGAlignIt: A web service for the alignment of mRNA/EST and genomic sequence

Lee, B. T. K., Tan, T. W. & Ranganathan, S., 2003, In : Nucleic acids research. 31, 13, p. 3533-3536 4 p.

Research output: Contribution to journalArticleResearchpeer-review

MGAlignlt: A web service for the alignment of mRNA/EST and genomic sequences

Lee, B. T. K., Tan, T. W. & Ranganathan, S., 1 Jul 2003, In : Nucleic acids research. 31, 13, p. 3533-3536 4 p.

Research output: Contribution to journalArticleResearchpeer-review

Expressed Sequence Tags
Biological Phenomena
Messenger RNA
Gene Order
Essential Genes

Molecular Modeling on the web

Ranganathan, S., 2003, Biocomputing: Computer Tools for Biologists. Stuart M. Brown (ed.). Westborough, MA: Biotechniques Press, Eaton Publishing, p. 411-417 7 p.

Research output: Chapter in Book/Report/Conference proceedingChapterResearchpeer-review

MPID: MHC-Peptide Interaction Database for sequence-structure-function information on peptides binding to MHC molecules

Govindarajan, K. R., Kangueane, P., Tan, T. W. & Ranganathan, S., 1 Feb 2003, In : Bioinformatics. 19, 2, p. 309-310 2 p.

Research output: Contribution to journalArticleResearchpeer-review

Structure-function
Major Histocompatibility Complex
Peptides
Molecules
Databases

The S-Star Trial Bioinformatics course: An on-line learning success

Lim, Y. P., Höög, J. O., Gardner, P., Ranganathan, S., Andersson, S., Subbiah, S., Tan, T. W., Hide, W. & Weiss, A. S., Jan 2003, In : Biochemistry and Molecular Biology Education. 31, 1, p. 20-23 4 p.

Research output: Contribution to journalArticleResearchpeer-review

Bioinformatics
Computational Biology
Distance Education
Stars
Distance education

XdomView: Protein domain and exon position visualization

Vivek, G., Tan, T. W. & Ranganathan, S., 1 Jan 2003, In : Bioinformatics. 19, 1, p. 159-160 2 p.

Research output: Contribution to journalArticleResearchpeer-review

Exons
Visualization
Genes
Gene
Proteins
2002

A male-specific (cysteine-rich) protein of Oesophagostomum dentatum (Strongylida) with structural characteristics of a serine protease inhibitor containing two trypsin inhibitor-like domains

Boag, P. R., Ranganathan, S., Newton, S. E. & Gasser, R. B., 1 Nov 2002, In : Parasitology. 125, 5, p. 445-455 11 p.

Research output: Contribution to journalArticleResearchpeer-review

Strongylida
Oesophagostomum dentatum
Oesophagostomum
Serine Proteinase Inhibitors
Trypsin Inhibitors

APBioNet: the Asia-Pacific regional consortium for bioinformatics

Ranganathan, S., Subbiah, S. & Tan, T. W., 2002, In : Appl Bioinformatics. 1, 2, p. 101-105 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Bioinformatics
Computational Biology
bioinformatics
Genomics
genomics