• 5248 Citations
  • 37 h-Index
1980 …2021
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Research Outputs 1980 2019

2016 update on APBioNet's annual international conference on bioinformatics (InCoB)

Schönbach, C., Verma, C., Wee, L. J. K., Bond, P. J. & Ranganathan, S., 22 Dec 2016, In : BMC Genomics. 17, Suppl.13, p. 1-4 4 p., 1036.

Research output: Contribution to journalEditorialResearchpeer-review

Open Access
File
Computational Biology
Genomics
Systems Biology
Manuscripts
Singapore

Ab initio study of the stepwise hydration of NO+

Pullman, A. & Ranganathan, S., 25 May 1984, In : Chemical Physics Letters. 107, 2, p. 107-111 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Hydrates
Hydration
hydration
zero point energy
hydrates

A bioinformatics potpourri

Schönbach, C., Li, J., Ma, L., Horton, P., Sjaugi, M. F. & Ranganathan, S., 19 Jan 2018, In : BMC Genomics. 19, Suppl 1, 6 p., 920.

Research output: Contribution to journalEditorialResearchpeer-review

Open Access
File
Computational Biology
Genomics
Metagenomics
Posters
Precision Medicine

Accelerating the search for the missing proteins in the human proteome

Baker, M. S., Ahn, S. B., Mohamedali, A., Islam, M. T., Cantor, D., Verhaert, P. D., Fanayan, S., Sharma, S., Nice, E. C., Connor, M. & Ranganathan, S., 24 Jan 2017, In : Nature Communications. 8, p. 1-13 13 p., 14271.

Research output: Contribution to journalReview articleResearchpeer-review

Open Access
File
proteome
Proteome
proteins
Proteins
genome

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

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

A comparative structural bioinformatics analysis of inherited mutations in b-D-Mannosidase across multiple species reveals a genotype-phenotype correlation

Huynh, T., Khan, J. M. & Ranganathan, S., 2011, 10th Int. Conference on Bioinformatics - 1st ISCB Asia Joint Conference 2011, InCoB 2011/ISCB-Asia 2011: Computational Biology - Proceedings from Asia Pacific Bioinformatics Network (APBioNet). Schoenbach, C., Nathan, S., Tan, T. W. & Ranganathan, S. (eds.). United Kingdom: Springer, Springer Nature, Vol. 12, Suppl. 3. p. 1-13 13 p. S22

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

Mannosidases
mannosidases
Genetic Association Studies
Bioinformatics
Computational Biology

A comprehensive assessment of N-terminal signal peptides prediction methods

Choo, K. H., Tan, T. W. & Ranganathan, S., 3 Dec 2009, In : BMC Bioinformatics. 10, SUPPL. 15, p. 1-12 12 p., S2.

Research output: Contribution to journalArticleResearchpeer-review

Protein Sorting Signals
Peptides
Prediction
Proteins
Protein

A computational analysis of the electrostatic potentials and relative bond strengths of hydrazine and some of its 1,1‐dimethyl derivatives

Murray, J. S., Sukumar, N., Ranganathan, S. & Politzer, P., 1990, In : International Journal of Quantum Chemistry. 37, 5, p. 611-629 19 p.

Research output: Contribution to journalArticleResearchpeer-review

hydrazine
hydrazines
Electrostatics
Nitrogen
electrostatics

Adaptive immune system

Ranganathan, S., 2013, Encyclopedia of systems biology. Dubitzky, W., Wolkenhauer, O., Cho, K-H. & Yokota, H. (eds.). New York: Springer, Springer Nature, p. 10-11 2 p.

Research output: Chapter in Book/Report/Conference proceedingEntry for encyclopedia/dictionary/reference bookResearch

Open Access
File
Protease Inhibitors
Edetic Acid
Blood
Plasmas
Electrophoresis

Advanced in silico analysis of expressed sequence tag (EST) data for parasitic nematodes of major socio-economic importance

Ranganathan, S., 2014, Bioinformatics in systems biology and cryopreservation in agrobiodiversity. Noor, N. M. (ed.). Selangor: Penerbit Universiti Kebangsaan Malaysia, p. 35-57 23 p.

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

Advanced in silico analysis of expressed sequence tag (EST) data for parasitic nematodes of major socio-economic importance - Fundamental insights toward biotechnological outcomes

Ranganathan, S., Menon, R. & Gasser, R. B., Jul 2009, In : Biotechnology Advances. 27, 4, p. 439-448 10 p.

Research output: Contribution to journalReview articleResearchpeer-review

Expressed Sequence Tags
Computer Simulation
Genes
Economics
Genome

Advances in translational bioinformatics and population genomics in the Asia-Pacific

Ranganathan, S., Tongsima, S., Chan, J., Tan, T. W. & Schönbach, C., 2012, In : BMC Genomics. 13, Suppl 7, p. 1-4 4 p., S1.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Metagenomics
Computational Biology
Precision Medicine
Thailand
Genomics

Advancing standards for bioinformatics activities: persistence, reproducibility, disambiguation and Minimum Information About a Bioinformatics investigation (MIABi)

Tan, T. W., Tong, J. C., Khan, A. M., de Silva, M., Lim, K. S. & Ranganathan, S., 2 Dec 2010, In : BMC Genomics. 11, Supplement 4, p. 1-7 7 p., S27.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Bioinformatics
Computational Biology
bioinformatics
reproducibility
compliance

A hitchhiker's guide to expressed sequence tag (EST) analysis

Nagaraj, S. H., Gasser, R. B. & Ranganathan, S., Jan 2007, In : Briefings in Bioinformatics. 8, 1, p. 6-21 16 p.

Research output: Contribution to journalEditorialResearchpeer-review

Expressed Sequence Tags
Sequence Analysis
Genes
Nucleotides
Functional analysis

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

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

A multi-factor model for caspase degradome prediction

Wee, L. J. K., Tong, J. C., Tan, T. W. & Ranganathan, S., 3 Dec 2009, In : BMC Genomics. 10, SUPPL. 3, p. 1-12 12 p., S6.

Research output: Contribution to journalArticleResearchpeer-review

caspases
Caspases
prediction
Substrates
Cell death

A multi-species comparative structural bioinformatics analysis of inherited mutations in α-D-mannosidase reveals strong genotype-phenotype correlation

Khan, J. M. & Ranganathan, S., 3 Dec 2009, In : BMC Genomics. 10, SUPPL. 3, p. 1-10 10 p., S33.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
mannosidases
alpha-Mannosidase
Genetic Association Studies
Bioinformatics
Computational Biology

An ab initio study of the binding of N2 to Na+ and K+

Pullman, A., Sklenar, H. & Ranganathan, S., 5 Oct 1984, In : Chemical Physics Letters. 110, 4, p. 346-350 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Complexation
Binding energy
Enthalpy
zero point energy
self consistent fields

Analysis and comparison of γ-retroviral vector integration behaviour in human CD34+cells transduced under conditions employed in the French and English SCID-X1 clinical trials

Hallwirth, C. V., Garg, G., Malani, N. V., Peters, T., Hetherington, N., Hyman, J., Kramer, B., Ginn, S. L., Ruan, X., Ranganathan, S., Buckley, M., Bushman, F. D. & Alexander, I. E., Aug 2013, In : Journal of Gene Medicine. 15, 8-9, p. 315-316 2 p.

Research output: Contribution to journalMeeting abstractResearch

An analysis of the transcriptome of Teladorsagia circumcincta: its biological and biotechnological implications

Menon, R., Gasser, R. B., Mitreva, M. & Ranganathan, S., 2012, In : BMC Genomics. 13, Suppl 7, p. 1-17 17 p., S10.

Research output: Contribution to journalArticleResearchpeer-review

Gene Expression Profiling
Proteins
Expressed Sequence Tags
Parasites
Cysteine Proteases

An ethnobotanical study of medicinal plants used by the Yaegl Aboriginal community in northern New South Wales, Australia

Packer, J., Brouwer, N., Harrington, D., Gaikwad, J., Heron, R., Yaegl Community Elders, C. E., Ranganathan, S., Vemulpad, S. & Jamie, J., 6 Jan 2012, In : Journal of Ethnopharmacology. 139, 1, p. 244-255 12 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
South Australia
New South Wales
Medicinal Plants
Plant Preparations
Health Services Research

An integrated transcriptomics and proteomics analysis of the secretome of the helminth pathogen Fasciola hepatica: Proteins associated with invasion and infection of the mammalian host

Robinson, M. W., Menon, R., Donnelly, S. M., Dalton, J. P. & Ranganathan, S., 2009, In : Molecular and Cellular Proteomics. 8, 8, p. 1891-1907 17 p.

Research output: Contribution to journalArticleResearchpeer-review

Fasciola hepatica
Helminths
Pathogens
Proteomics
Parasites

A novel multiplexed immunoassay identifies CEA, IL-8 and prolactin as prospective markers for Dukes' stages A-D colorectal cancers

Mahboob, S., Ahn, S. B., Cheruku, H. R., Cantor, D., Rennel, E., Fredriksson, S., Edfeldt, G., Breen, E. J., Khan, A., Mohamedali, A., Muktadir, M. G., Ranganathan, S., Tan, S. H., Nice, E. & Baker, M. S., 2015, In : Clinical Proteomics. 12, 1, p. 1-12 12 p., 10.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Carcinoembryonic Antigen
Interleukin-8
Immunoassay
Prolactin
Colorectal Neoplasms

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

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

APBioNet's annual International Conference on Bioinformatics (InCoB) returns to India in 2018

Ahmad, S., Gromiha, M. M., Raghava, G. P. S., Schönbach, C. & Ranganathan, S., 18 Apr 2019, In : BMC Genomics. 19, Suppl. 9, 4 p., 266.

Research output: Contribution to journalConference paperResearchpeer-review

Open Access
File
Computational Biology
India
Genomics
Public Opinion
Indonesia

APBioNet-transforming bioinformatics in the Asia-Pacific Region

Khan, A. M., Tan, T. W., Schönbach, C. & Ranganathan, S., 31 Oct 2013, In : PLoS Computational Biology. 9, 10, p. 1-3 3 p., e1003317.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Applications of machine learning in GPCR bioactive ligand discovery

Jabeen, A. & Ranganathan, S., Apr 2019, In : Current Opinion in Structural Biology. 55, p. 66-76 11 p.

Research output: Contribution to journalReview articleResearchpeer-review

Odorant Receptors
Ligands
Drug Discovery
Chemical Databases
Drug Industry

A practical, bioinformatic workflow system for large data sets generated by next-generation sequencing

Cantacessi, C., Jex, A. R., Hall, R. S., Young, N. D., Campbell, B. E., Joachim, A., Nolan, M. J., Abubucker, S., Sternberg, P. W., Ranganathan, S., Mitreva, M. & Gasser, R. B., 1 Sep 2010, In : Nucleic acids research. 38, 17, p. e171 1 p.

Research output: Contribution to journalArticleResearchpeer-review

Workflow
Computational Biology
Oesophagostomum
Research Personnel
Boidae

A practical guide to structure-based prediction of MHC-binding peptides

Ranganathan, S. & Tong, J. C., 2007, In : Methods in molecular biology (Clifton, N.J.). 409, p. 301-308 8 p.

Research output: Contribution to journalArticleResearchpeer-review

Major Histocompatibility Complex
Peptides
Ligands
Structural Models
Alleles

A proposed minimum skill set for university graduates to meet the informatics needs and challenges of the "-omics" era

Tan, T. W., Lim, S. J., Khan, A. M. & Ranganathan, S., 3 Dec 2009, In : BMC Genomics. 10, SUPPL. 3, p. 1-6 6 p., S36.

Research output: Contribution to journalArticleResearchpeer-review

Informatics
Bioinformatics
Computational Biology
bioinformatics
biologists

Ascaris suum draft genome

Jex, A. R., Liu, S., Li, B., Young, N. D., Hall, R. S., Li, Y., Yang, L., Zeng, N., Xu, X., Xiong, Z., Chen, F., Wu, X., Zhang, G., Fang, X., Kang, Y., Anderson, G. A., Harris, T. W., Campbell, B. E., Vlaminck, J., Wang, T. & 10 othersCantacessi, C., Schwarz, E. M., Ranganathan, S., Geldhof, P., Nejsum, P., Sternberg, P. W., Yang, H., Wang, J., Wang, J. & Gasser, R. B., 24 Nov 2011, In : Nature. 479, 7374, p. 529-533 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Ascaris suum
Ascaris
Genome
Ascariasis
Necator

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

A site for direct integrin αvβ6·uPAR interaction from structural modelling and docking

Sowmya, G., Khan, J. M., Anand, S., Ahn, S. B., Baker, M. S. & Ranganathan, S., Mar 2014, In : Journal of Structural Biology. 185, 3, p. 327-335 9 p.

Research output: Contribution to journalArticleResearchpeer-review

Plasminogen
Urokinase-Type Plasminogen Activator
Integrins
Integrin alpha Chains
Immunoprecipitation

A systematic bioinformatics approach to identify high quality mass spectrometry data and functionally annotate proteins and proteomes

Islam, M., Mohamedali, A., Ahn, S. B., Nawar, I., Baker, M. S. & Ranganathan, S., 2017, Proteome bionformatics. Keerthikumar, S. & Mathivanan, S. (eds.). New York: Humana Press Inc., p. 163-176 14 p. (Methods in Molecular Biology; vol. 1549).

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

Workflow
Proteome
Computational Biology
Proteomics
Mass Spectrometry

A transcriptomic analysis of the adult stage of the bovine lungworm, Dictyocaulus viviparus

Ranganathan, S., Nagaraj, S. H., Hu, M., Strube, C., Schnieder, T. & Gasser, R. B., 5 Sep 2007, In : BMC Genomics. 8, p. 1-13 13 p., 311.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
Dictyocaulus
Expressed Sequence Tags
Transcriptome
Infertility
Genes

A workflow for mutation extraction and structure annotation

Kanagasabai, R., Choo, K. H., Ranganathan, S. & Baker, C. J. O., Dec 2007, In : Journal of Bioinformatics and Computational Biology. 5, 6, p. 1319-1337 19 p.

Research output: Contribution to journalArticleResearchpeer-review

Workflow
Visualization
Ontology
Mutation
Pipelines

Bioinformatic analysis of abundant, gender-enriched transcripts of adult Ascaris suum (Nematoda) using a semi-automated workflow platform

Cantacessi, C., Zou, F. C., Hall, R. S., Zhong, W., Jex, A. R., Campbell, B. E., Ranganathan, S., Sternberg, P. W., Zhu, X. Q. & Gasser, R. B., Oct 2009, In : Molecular and Cellular Probes. 23, 5, p. 205-217 13 p.

Research output: Contribution to journalArticleResearchpeer-review

Ascaris suum
Nematoda
Workflow
Caenorhabditis elegans
Computational Biology

Bioinformatics and systems biology research update from the 15th International Conference on Bioinformatics (InCoB2016)

Schönbach, C., Verma, C., Bond, P. J. & Ranganathan, S., 22 Dec 2016, In : BMC Bioinformatics. 17, Suppl.19, p. 1-4 4 p., 524.

Research output: Contribution to journalEditorialResearchpeer-review

Open Access
File
Systems Biology
Bioinformatics
Computational Biology
Update
Genomics

Bioinformatics approaches for improving seminal plasma proteome analysis

Noor, Z. & Ranganathan, S., 1 Oct 2019, In : Theriogenology. 137, p. 43-49 7 p.

Research output: Contribution to journalConference paperResearchpeer-review

seminal plasma
Proteome
proteome
Semen
Computational Biology

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

Bioinformatics for immunomics

Flower, D. D. R. (ed.), Davies, M. (ed.) & Ranganathan, S. (ed.), 2010, New York: Springer, Springer Nature. 187 p. (Immunomics reviews)

Research output: Book/ReportEdited Book/AnthologyResearch

medical research
biology

Bioinformatics meets parasitology

Cantacessi, C., Campbell, B. E., Jex, A. R., Young, N. D., Hall, R. S., Ranganathan, S. & Gasser, R. B., May 2012, In : Parasite Immunology. 34, 5, p. 265-275 11 p.

Research output: Contribution to journalReview articleResearchpeer-review

Parasitology
Computational Biology
Parasites
Technology
Transcriptome

Bioinformatics research in the Asia Pacific: a 2007 update

Ranganathan, S., Gribskov, M. & Tan, T. W., 2008, In : BMC Bioinformatics. 9, Suppl. 1, p. 1-4 4 p., S1.

Research output: Contribution to journalEditorialResearchpeer-review

Open Access
File
Bioinformatics
Computational Biology
Update
Research
Hong Kong

Biological data integration using network models

Kumar, G. & Ranganathan, S., 2014, Biological knowledge discovery handbook: preprocessing, mining and postprocessing of biological data. Elloumi, M. & Zomaya, A. Y. (eds.). Hoboken, New Jersey: John Wiley & Sons, p. 155-173 19 p. (Wiley series on bioinformatics : Computational techniques and engineering.).

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

Proteins
Data Mining
Information Storage and Retrieval
Computational Biology
Databases

Biomarker information extraction tool (BIET) development using natural language processing and machine learning

Islam, M. T., Shaikh, M., Nayak, A. & Ranganathan, S., 2010, ICWET 2010 - International Conference and Workshop on Emerging Trends in Technology 2010, Conference Proceedings. New York: ACM, p. 121-126 6 p.

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

Biomarkers
Learning systems
Semantics
Processing
Classifiers