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Journal articles on the topic 'Systems Bioinformatics'

Author: Grafiati

Published: 3 June 2025

Last updated: 20 July 2025

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1

Lee, Eunjung, and Doheon Lee. "Systems Bioinformatics Research Trends." Journal of Korean Society of Medical Informatics 14, no. 4 (2008): 313. http://dx.doi.org/10.4258/jksmi.2008.14.4.313.

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2

Lederman, Lynne. "Bioinformatics and Systems Biology." BioTechniques 46, no. 7 (2009): 501–3. http://dx.doi.org/10.2144/000113177.

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3

Ram, Prahlad T., John Mendelsohn, and Gordon B. Mills. "Bioinformatics and systems biology." Molecular Oncology 6, no. 2 (2012): 147–54. http://dx.doi.org/10.1016/j.molonc.2012.01.008.

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4

Suter-Crazzolara, C. "Bioinformatics, Databases and Systems." Briefings in Bioinformatics 1, no. 4 (2000): 417–18. http://dx.doi.org/10.1093/bib/1.4.417.

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5

Fellenberg, Matthias. "Developing integrative bioinformatics systems." BIOSILICO 1, no. 5 (2003): 177–83. http://dx.doi.org/10.1016/s1478-5382(03)02372-2.

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6

Benoît, Gerald. "Bioinformatics." Annual Review of Information Science and Technology 39, no. 1 (2006): 179–218. http://dx.doi.org/10.1002/aris.1440390112.

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7

Samudrala, R. "Structural Bioinformatics." Briefings in Bioinformatics 4, no. 3 (2003): 299–301. http://dx.doi.org/10.1093/bib/4.3.299.

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8

Podkolodnyy, N. L., and O. A. Podkolodnaya. "Ontologies in bioinformatics and systems biology." Vavilov Journal of Genetics and Breeding 19, no. 6 (2016): 652–60. http://dx.doi.org/10.18699/vj15.090.

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9

Shen, Bairong, Hong-Bin Shen, Tianhai Tian, Qiang Lü, and Guang Hu. "Translational Bioinformatics and Computational Systems Medicine." Computational and Mathematical Methods in Medicine 2013 (2013): 1–2. http://dx.doi.org/10.1155/2013/375641.

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10

Podkolodnyy, N. L., and O. A. Podkolodnaya. "Ontologies in bioinformatics and systems biology." Russian Journal of Genetics: Applied Research 6, no. 7 (2016): 749–58. http://dx.doi.org/10.1134/s2079059716070091.

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11

Cho, Sung-Bae, Jonathan H. Chan, and Kyu-Baek Hwang. "Preface: Computational Systems-Biology and Bioinformatics." Procedia Computer Science 23 (2013): 1–4. http://dx.doi.org/10.1016/j.procs.2013.10.002.

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12

XU, YING, and PETER MARKSTEIN. "FOREWORD: ADVANCES IN COMPUTATIONAL SYSTEMS BIOINFORMATICS." Journal of Bioinformatics and Computational Biology 08, no. 02 (2010): v—vii. http://dx.doi.org/10.1142/s0219720010004768.

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13

WITTKOP, TOBIAS, and SEAN D. MOONEY. "INTRODUCTION: ADVANCES IN COMPUTATIONAL SYSTEMS BIOINFORMATICS." Journal of Bioinformatics and Computational Biology 09, no. 02 (2011): v—vi. http://dx.doi.org/10.1142/s0219720011005537.

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14

Chan, Jonathan H., Asawin Meechai, and Chee Keong Kwoh. "Preface: Computational Systems-Biology and Bioinformatics." Procedia Computer Science 11 (2012): 1–3. http://dx.doi.org/10.1016/j.procs.2012.09.001.

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15

Li, Hong, and Hongwen Deng. "Systems genetics, bioinformatics and eQTL mapping." Genetica 138, no. 9-10 (2010): 915–24. http://dx.doi.org/10.1007/s10709-010-9480-x.

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16

Maier, David. "Will Database Systems Fail Bioinformatics, Too?" OMICS: A Journal of Integrative Biology 7, no. 1 (2003): 71–73. http://dx.doi.org/10.1089/153623103322006643.

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17

Jones, David T., Michael J. E. Sternberg, and Janet M. Thornton. "Introduction. Bioinformatics: from molecules to systems." Philosophical Transactions of the Royal Society B: Biological Sciences 361, no. 1467 (2005): 389–91. http://dx.doi.org/10.1098/rstb.2005.1811.

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18

LIN, B., and G. DARYLNORD. "Special Issue on Intelligent Bioinformatics Systems." Expert Systems with Applications 30, no. 1 (2006): 1. http://dx.doi.org/10.1016/j.eswa.2005.09.041.

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19

Sansom, C. "Instant Notes: Bioinformatics." Briefings in Bioinformatics 4, no. 1 (2003): 89–90. http://dx.doi.org/10.1093/bib/4.1.89.

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20

Lloyd, A. "Bioinformatics for Dummies." Briefings in Bioinformatics 4, no. 2 (2003): 197–98. http://dx.doi.org/10.1093/bib/4.2.197.

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21

Mooney, S. "Bioinformatics for Geneticists." Briefings in Bioinformatics 5, no. 2 (2004): 209–10. http://dx.doi.org/10.1093/bib/5.2.209.

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22

Mandel, J. "Representing bioinformatics causality." Briefings in Bioinformatics 5, no. 3 (2004): 270–83. http://dx.doi.org/10.1093/bib/5.3.270.

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23

Sczyrba, A., S. Konermann, and R. Giegerich. "Two interactive Bioinformatics courses at the Bielefeld University Bioinformatics Server." Briefings in Bioinformatics 9, no. 3 (2008): 243–49. http://dx.doi.org/10.1093/bib/bbm063.

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24

Chen, Luonan, and Michael K. Ng. "Guest Editorial: Bioinformatics and Computational Systems Biology." IEEE/ACM Transactions on Computational Biology and Bioinformatics 9, no. 4 (2012): 945–46. http://dx.doi.org/10.1109/tcbb.2012.76.

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25

Merelli, E., G. Armano, N. Cannata, et al. "Agents in bioinformatics, computational and systems biology." Briefings in Bioinformatics 8, no. 1 (2006): 45–59. http://dx.doi.org/10.1093/bib/bbl014.

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26

Yao, T. "Bioinformatics and Systems Biology - towards Integrative Biology." Yearbook of Medical Informatics 14, no. 01 (2005): 535–37. http://dx.doi.org/10.1055/s-0038-1638448.

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27

Subramaniam, Shankar, Eoin Fahy, Shakti Gupta, et al. "Bioinformatics and Systems Biology of the Lipidome." Chemical Reviews 111, no. 10 (2011): 6452–90. http://dx.doi.org/10.1021/cr200295k.

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28

Likić, Vladimir A., Malcolm J. McConville, Trevor Lithgow, and Antony Bacic. "Systems Biology: The Next Frontier for Bioinformatics." Advances in Bioinformatics 2010 (February 9, 2010): 1–10. http://dx.doi.org/10.1155/2010/268925.

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Biochemical systems biology augments more traditional disciplines, such as genomics, biochemistry and molecular biology, by championing (i) mathematical and computational modeling; (ii) the application of traditional engineering practices in the analysis of biochemical systems; and in the past decade increasingly (iii) the use of near-comprehensive data sets derived from ‘omics platform technologies, in particular “downstream” technologies relative to genome sequencing, including transcriptomics, proteomics and metabolomics. The future progress in understanding biological principles will incre

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29

Heath, L. S., and N. Ramakrishnan. "The emerging landscape of bioinformatics software systems." Computer 35, no. 7 (2002): 41–45. http://dx.doi.org/10.1109/mc.2002.1016900.

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30

Jayakar, Meghna B., and Shruthi Subhash. "Graph-Based Approaches in Bioinformatics." Ecology, Environment and Conservation 31, April Suppl. Issue (2025): 349–57. https://doi.org/10.53550/eec.2025.v31i03s.057.

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In the field of Bioinformatics, graph-based analysis is essential for comprehending intricate biological systems. The paper emphasizes the different meanings assigned to edges and non-edges in network interactions. After defining key terms from graph theory and bioinformatics, the discussion focuses on the role of Transcriptional Regulatory Networks (TRNs) and Protein-Protein Interaction (PPIs) Networks. The paper examines the application of graph theory in studying various biological systems. Examples include DNA sequence graphs, Signal Transduction Networks, Metabolic and Biochemical Pathway

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31

Shevtsov, V., A. Ismailova, U. Aitimova, and O. Khapilina. "APPLICATION OF INFORMATION SYSTEMS AND TOOLS IN BIOINFORMATICS." Scientific Journal of Astana IT University, no. 9 (March 30, 2022): 14–21. http://dx.doi.org/10.37943/aitu.2022.59.49.002.

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Abstract. The pace at which scientific data is produced and disseminated has never been ashigh as it is currently. Modern sequencing technologies make it possible to obtain the genomeof a specific organism in a few days, and the genome of a bacterial organism in less than a day,and therefore researchers from the field of life science are faced with a huge amount of datathat needs to be analyzed. In this connection, various fields of science are converging with eachother, giving rise to new disciplines. So, bioinformatics is one of these fields, it is a scientificdiscipline that has been active

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32

Edwards, Marion, and Roger E. Cooley. "Expertise in expert systems: knowledge acquisition for biological expert systems." Bioinformatics 9, no. 6 (1993): 657–65. http://dx.doi.org/10.1093/bioinformatics/9.6.657.

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33

Singer, Jochen, Anja Irmisch, Hans-Joachim Ruscheweyh, et al. "Bioinformatics for precision oncology." Briefings in Bioinformatics 20, no. 3 (2017): 778–88. http://dx.doi.org/10.1093/bib/bbx143.

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34

Llold, A. "An Introduction to Bioinformatics." Briefings in Bioinformatics 1, no. 1 (2000): 106. http://dx.doi.org/10.1093/bib/1.1.106.

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35

Lloyd, A. "Bioinformatics: Methods and Protocols." Briefings in Bioinformatics 1, no. 2 (2000): 204–5. http://dx.doi.org/10.1093/bib/1.2.204.

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36

Dear, S. "Developing Bioinformatics Computer Skills." Briefings in Bioinformatics 2, no. 4 (2001): 405–7. http://dx.doi.org/10.1093/bib/2.4.405.

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37

Parsons, J. "Editorial: Bioinformatics and economics." Briefings in Bioinformatics 3, no. 4 (2002): 328–30. http://dx.doi.org/10.1093/bib/3.4.328.

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38

Loewe, L. "Global computing for bioinformatics." Briefings in Bioinformatics 3, no. 4 (2002): 377–88. http://dx.doi.org/10.1093/bib/3.4.377.

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39

Bianchi, L., and P. Lio. "Forensic DNA and bioinformatics." Briefings in Bioinformatics 8, no. 2 (2006): 117–28. http://dx.doi.org/10.1093/bib/bbm006.

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40

Brusic, V. "The growth of bioinformatics." Briefings in Bioinformatics 8, no. 2 (2006): 69–70. http://dx.doi.org/10.1093/bib/bbm008.

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41

Brusic, V., and S. Ranganathan. "Critical technologies for bioinformatics." Briefings in Bioinformatics 9, no. 4 (2008): 261–62. http://dx.doi.org/10.1093/bib/bbn025.

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42

de Ridder, D., J. de Ridder, and M. J. T. Reinders. "Pattern recognition in bioinformatics." Briefings in Bioinformatics 14, no. 5 (2013): 633–47. http://dx.doi.org/10.1093/bib/bbt020.

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43

Lehvasaiho, H. "Bioinformatics, Biocomputing and Perl: An Introduction to Bioinformatics Computing Skills and Practice." Briefings in Bioinformatics 5, no. 4 (2004): 391–93. http://dx.doi.org/10.1093/bib/5.4.391.

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44

Fernandez, Dennis, and Mary Chow. "Feature — Intellectual Property Strategy in Bioinformatics and Biochips." Asia-Pacific Biotech News 07, no. 02 (2003): 66–70. http://dx.doi.org/10.1142/s0219030303000181.

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Intellectual property rights are essential in today's technology-driven age. A strong intellectual property protection strategy is crucial in the bioinformatics and biochips technology spaces as monetary and temporal resources are tremendous in finding a blockbuster drug or gene therapy, as well as in deploying advanced biosensor and other medical systems. Current problems and intellectual property practice in the genomic space are presented and analyzed. Various strategy and solutions are proposed to guide bioinformatic and biochip companies in forming an aggressive strategy to protect one's

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45

Toni, Tina, and Michael P. H. Stumpf. "Simulation-based model selection for dynamical systems in systems and population biology." Bioinformatics 26, no. 1 (2009): 104–10. http://dx.doi.org/10.1093/bioinformatics/btp619.

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46

Buttler, David, Matthew Coleman, Terence Critchlow, et al. "Querying multiple bioinformatics information sources." ACM SIGMOD Record 31, no. 4 (2002): 59–64. http://dx.doi.org/10.1145/637411.637421.

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47

Bruskiewich, R., T. Metz, and G. McLaren. "Bioinformatics and crop information systems in rice research." International Rice Research Notes 31, no. 1 (2006): 5–12. https://doi.org/10.5281/zenodo.7001799.

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This article 'Bioinformatics and crop information systems in rice research' appeared in the International Rice Research Notes series, created by the International Rice Research Institute (IRRI) to expedite communication among scientists concerned with the development of improved technology for rice and rice-based systems. The series is a mechanism to help scientists keep each other informed of current rice research findings. The concise scientific notes are meant to encourage rice scientists to communicate with one another to obtain details on the research reported.

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48

Wilkinson, D. J. "Bayesian methods in bioinformatics and computational systems biology." Briefings in Bioinformatics 8, no. 2 (2006): 109–16. http://dx.doi.org/10.1093/bib/bbm007.

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49

Oyang, Yen-Jen. "Center for Systems and Bioinformatics — National Taiwan University." Asia-Pacific Biotech News 10, no. 24 (2006): 1430–31. http://dx.doi.org/10.1142/s0219030306002163.

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50

Narain, Prem. "Statistical Genomics and Bioinformatics." Journal of Horticultural Sciences 5, no. 2 (2010): 85–93. http://dx.doi.org/10.24154/jhs.v5i2.453.

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Some important and interesting topics in the newly emerging disciplines of Statistical genomics andbioinformatics have been discussed briefly in relation to plants with possible references to fruit crops. This paper is therefore divided into two parts relating to the two disciplines, respectively. In the first part, mapping of quantitative trait loci (QTL), association mapping, mapping of gene expression transcripts (eQTL), marker-assisted selection, and a systems approach to quantitative genetics have been dealt with. In the second part, generation of databases, annotation, annotated sequence

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