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Journal articles on the topic 'Functional similarity'

Author: Grafiati

Published: 4 June 2021

Last updated: 26 July 2025

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1

Yin, Jie, and Ai Lun Wang. "Research on Functional Similarity and Structural Similarity of Mechanical Components." Applied Mechanics and Materials 541-542 (March 2014): 603–7. http://dx.doi.org/10.4028/www.scientific.net/amm.541-542.603.

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The similarity theory is in essence a method based on equation expression. In the application, the model is regarded to be similar to the prototype only if the similarity theorem can be met. But different physical objects have the same equation expression, so the model is always not similar to the prototype. To solve this problem, a new method which studies the similarity of mechanical components from the perspective of function and structure is put forward in this paper, based on the similarity theory and the ‘black box’ concept. The functional similarity criteria and structural similarity cr

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2

Peng, Jiajie, Yadong Wang, and Jin Chen. "Towards integrative gene functional similarity measurement." BMC Bioinformatics 15, Suppl 2 (2014): S5. http://dx.doi.org/10.1186/1471-2105-15-s2-s5.

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3

Pavoine, Sandrine, and Carlo Ricotta. "Functional and phylogenetic similarity among communities." Methods in Ecology and Evolution 5, no. 7 (2014): 666–75. http://dx.doi.org/10.1111/2041-210x.12193.

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4

Schlicker, A., and M. Albrecht. "FunSimMat: a comprehensive functional similarity database." Nucleic Acids Research 36, Database (2007): D434—D439. http://dx.doi.org/10.1093/nar/gkm806.

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5

Al Dallal, J. "Software similarity-based functional cohesion metric." IET Software 3, no. 1 (2009): 46. http://dx.doi.org/10.1049/iet-sen:20080054.

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6

Geerlings, P., G. Boon, C. Van Alsenoy, and F. De Proft. "Density functional theory and quantum similarity." International Journal of Quantum Chemistry 101, no. 6 (2004): 722–32. http://dx.doi.org/10.1002/qua.20329.

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7

WAKELING, DAVID. "EDUCATIONAL PEARL: Biological sequence similarity." Journal of Functional Programming 16, no. 1 (2005): 1–12. http://dx.doi.org/10.1017/s095679680500571x.

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Functional languages provide an excellent framework for formulating biological algorithms in a naive form and then transforming them into an efficient form. This helps biologists understand what matters about programming and brings functional programming into the realm of the practical. In this column, we present an example from our MSc course on bioinformatics and report on our experiences teaching functional programming in this context.

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8

Dalmis, Mehmet Ufuk, and Ata Akin. "Similarity analysis of functional connectivity with functional near-infrared spectroscopy." Journal of Biomedical Optics 20, no. 8 (2015): 086012. http://dx.doi.org/10.1117/1.jbo.20.8.086012.

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9

Beven, K. J., and S. W. Franks. "Functional similarity in landscape scale SVAT modelling." Hydrology and Earth System Sciences 3, no. 1 (1999): 85–93. http://dx.doi.org/10.5194/hess-3-85-1999.

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Abstract. In this study, it is shown that the complexity of Soil Vegetation Atmosphere Transfer (SVAT) models leads to an equifinality of functional behaviour - many parameterizations from many areas of the parameter space lead to very similar responses. Individual parameters derived by calibration (i.e. model inversion) against limited measurements are, therefore, highly uncertain. Due to the non-linear internal behaviour of SVAT models, aggregation of uncertainly known parameter fields to parameterize landscape scale variability in surface fluxes will yield highly uncertain predictions. A di

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10

Huang, Yu-An, Xing Chen, Zhu-Hong You, De-Shuang Huang, and Keith C. C. Chan. "ILNCSIM: improved lncRNA functional similarity calculation model." Oncotarget 7, no. 18 (2016): 25902–14. http://dx.doi.org/10.18632/oncotarget.8296.

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11

FÄUSTLE, S., M. G. FUGINI, and E. DAMIANI. "Retrieval of Reusable Components using Functional Similarity." Software: Practice and Experience 26, no. 5 (1996): 491–530. http://dx.doi.org/10.1002/(sici)1097-024x(199605)26:5<491::aid-spe24>3.0.co;2-n.

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12

Glass, Kimberly, Edward Ott, Wolfgang Losert, and Michelle Girvan. "Implications of functional similarity for gene regulatory interactions." Journal of The Royal Society Interface 9, no. 72 (2012): 1625–36. http://dx.doi.org/10.1098/rsif.2011.0585.

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If one gene regulates another, those two genes are likely to be involved in many of the same biological functions. Conversely, shared biological function may be suggestive of the existence and nature of a regulatory interaction. With this in mind, we develop a measure of functional similarity between genes based on annotations made to the Gene Ontology in which the magnitude of their functional relationship is also indicative of a regulatory relationship. In contrast to other measures that have previously been used to quantify the functional similarity between genes, our measure scales the str

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13

Pool, Thomas K., Julien Cucherousset, Stéphanie Boulêtreau, Sébastien Villéger, Angela L. Strecker, and Gaël Grenouillet. "Increased taxonomic and functional similarity does not increase the trophic similarity of communities." Global Ecology and Biogeography 25, no. 1 (2015): 46–54. http://dx.doi.org/10.1111/geb.12384.

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14

Chen, Qingfeng, Zhao Zhe, Wei Lan, et al. "Identifying MiRNA-disease association based on integrating miRNA topological similarity and functional similarity." Quantitative Biology 7, no. 3 (2019): 202–9. http://dx.doi.org/10.1007/s40484-019-0176-7.

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15

Schwilk, Dylan W., and David D. Ackerly. "Limiting similarity and functional diversity along environmental gradients." Ecology Letters 8, no. 3 (2005): 272–81. http://dx.doi.org/10.1111/j.1461-0248.2004.00720.x.

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16

Goo, Yoon Hoe. "BOUNDEDNESS IN FUNCTIONAL DIFFERENTIAL SYSTEMS VIA t∞-SIMILARITY." Journal of the Chungcheong Mathematical Society 29, no. 2 (2016): 347–59. http://dx.doi.org/10.14403/jcms.2016.29.2.347.

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17

Schlicker, Andreas, and Mario Albrecht. "FunSimMat update: new features for exploring functional similarity." Nucleic Acids Research 38, suppl_1 (2009): D244—D248. http://dx.doi.org/10.1093/nar/gkp979.

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18

Webster, Jason, and Ione Fine. "Investigating functional organization with Grouping by Response Similarity." Journal of Vision 16, no. 12 (2016): 506. http://dx.doi.org/10.1167/16.12.506.

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19

Cheol Jeong, Jong, and Xuewen Chen. "A New Semantic Functional Similarity over Gene Ontology." IEEE/ACM Transactions on Computational Biology and Bioinformatics 12, no. 2 (2015): 322–34. http://dx.doi.org/10.1109/tcbb.2014.2343963.

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20

Campbell, Stephen J., Nicola D. Gold, Richard M. Jackson, and David R. Westhead. "Ligand binding: functional site location, similarity and docking." Current Opinion in Structural Biology 13, no. 3 (2003): 389–95. http://dx.doi.org/10.1016/s0959-440x(03)00075-7.

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21

Goel, Manisha, Deepti Jain, Kanwal J. Kaur, et al. "Functional Equality in the Absence of Structural Similarity." Journal of Biological Chemistry 276, no. 42 (2001): 39277–81. http://dx.doi.org/10.1074/jbc.m105387200.

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22

Yu, Guangchuang, and Qing-Yu He. "Functional similarity analysis of human virus-encoded miRNAs." Journal of Clinical Bioinformatics 1, no. 1 (2011): 15. http://dx.doi.org/10.1186/2043-9113-1-15.

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23

Almrayat, Sondus, Rana Yousef, and Ahmad Sharieh. "Evaluating the Impact of GUI Similarity between Android Applications to Measure their Functional Similarity." International Journal of Computer Applications 178, no. 21 (2019): 31–38. http://dx.doi.org/10.5120/ijca2019919075.

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24

ANTONIADIS, ANESTIS, XAVIER BROSSAT, JAIRO CUGLIARI, and JEAN-MICHEL POGGI. "CLUSTERING FUNCTIONAL DATA USING WAVELETS." International Journal of Wavelets, Multiresolution and Information Processing 11, no. 01 (2013): 1350003. http://dx.doi.org/10.1142/s0219691313500033.

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We present two strategies for detecting patterns and clusters in high-dimensional time-dependent functional data. The use on wavelet-based similarity measures, since wavelets are well suited for identifying highly discriminant local time and scale features. The multiresolution aspect of the wavelet transform provides a time-scale decomposition of the signals allowing to visualize and to cluster the functional data into homogeneous groups. For each input function, through its empirical orthogonal wavelet transform the first strategy uses the distribution of energy across scales to generate a re

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25

Chen, Qingfeng, Zhao Zhe, Wei Lan, et al. "Erratum to: Identifying miRNA-disease association based on integrating miRNA topological similarity and functional similarity." Quantitative Biology 8, no. 3 (2020): 277. http://dx.doi.org/10.1007/s40484-020-0220-7.

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26

Xu, Vicki, and Catherine Plowright. "Floral Categorization by Bumblebees: The Perceptual and the Functional." Animal Behavior and Cognition 9, no. 3 (2022): 316–35. http://dx.doi.org/10.26451/abc.09.03.05.2022.

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This study examines generalization and perceptual similarity judgments in bumblebees (Bombus impatiens) and addresses whether category formation of floral stimuli is based upon perceptual floral features alone or foraging experiences from reward associations. Previous experiments have found that bees transfer learning based on category membership, but little is known as to how membership is formed. Two experiments using twelve bumblebee colonies examined a) if bees were able to generalize between flowers with little or no perceptual similarity, and b) if bees were able to change which features

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27

ALEXANDROV, KIRILL, BORIS SOBOLEV, DMITRY FILIMONOV, and VLADIMIR POROIKOV. "RECOGNITION OF PROTEIN FUNCTION USING THE LOCAL SIMILARITY." Journal of Bioinformatics and Computational Biology 06, no. 04 (2008): 709–25. http://dx.doi.org/10.1142/s021972000800359x.

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The functional annotation of amino acid sequences is one of the most important problems in bioinformatics. Different programs have been successfully applied for recognition of some functional classes; nevertheless, many functional groups still cannot be predicted with the required accuracy. We developed a new method for protein function recognition using the original approach of sequence description. Each sequence of the training set is compared with the query sequence, and the local similarity scores are calculated for the query sequence positions and used as input data for the original class

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28

Chen, Xing, Yu-An Huang, Xue-Song Wang, Zhu-Hong You, and Keith C. C. Chan. "FMLNCSIM: fuzzy measure-based lncRNA functional similarity calculation model." Oncotarget 7, no. 29 (2016): 45948–58. http://dx.doi.org/10.18632/oncotarget.10008.

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29

GOO, YOON HOE. "BOUNDEDNESS IN NONLINEAR FUNCTIONAL DIFFERENTIAL SYSTEMS VIA t∞-SIMILARITY." Pure and Applied Mathematics 22, no. 3 (2015): 215–27. http://dx.doi.org/10.7468/jksmeb.2015.22.3.215.

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30

Wang, Shyue-Liang, Jenn-Shing Tsai, and Tzung-Pei Hong. "Discovering functional dependencies from similarity-based fuzzy relational databases." Intelligent Data Analysis 5, no. 2 (2001): 131–49. http://dx.doi.org/10.3233/ida-2001-5204.

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31

Liu, Fang, Bojun Yang, Zhonghang Bai, and Runhua Tan. "Research on product combinatorial design based on functional similarity." International Journal of Design Engineering 1, no. 3 (2008): 333. http://dx.doi.org/10.1504/ijde.2008.023768.

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32

CHOI, SANG IL, and YOON HOE GOO. "BOUNDEDNESS IN PERTURBED FUNCTIONAL DIFFERENTIAL SYSTEMS VIA t∞-SIMILARITY." Korean Journal of Mathematics 23, no. 2 (2015): 269–82. http://dx.doi.org/10.11568/kjm.2015.23.2.269.

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33

Pakeman, Robin J., and Rob J. Lewis. "Functional similarity analysis highlights ecosystem impacts and restoration needs." Applied Vegetation Science 21, no. 2 (2018): 258–66. http://dx.doi.org/10.1111/avsc.12353.

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34

Smith, Ronald L., Erik Gottlieb, Lisa M. Kucharski, and Michael E. Maguire. "Functional Similarity between Archaeal and Bacterial CorA Magnesium Transporters." Journal of Bacteriology 180, no. 10 (1998): 2788–91. http://dx.doi.org/10.1128/jb.180.10.2788-2791.1998.

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ABSTRACT The constitutively expressed CorA Mg2+ transporter is the major Mg2+ influx system of Salmonella typhimurium and Escherichia coli. Genomic sequence data indicated the presence of a homolog in the archaeal organismMethanococcus jannaschii. The putative M. jannaschii CorA was expressed in an Mg2+-transport-deficient strain of S. typhimurium to determine its functional characteristics. The archaeal CorA homolog is a functional Mg2+ uptake system when expressed in S. typhimurium and has properties which are highly similar to those of the normal CorA transporter of S. typhimurium despite h

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35

Maji, Pradipta, and Ekta Shah. "Significance and Functional Similarity for Identification of Disease Genes." IEEE/ACM Transactions on Computational Biology and Bioinformatics 14, no. 6 (2017): 1419–33. http://dx.doi.org/10.1109/tcbb.2016.2598163.

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36

Lee, Chengteh, and Shep Smithline. "An Approach to Molecular Similarity using Density Functional Theory." Journal of Physical Chemistry 98, no. 4 (1994): 1135–38. http://dx.doi.org/10.1021/j100055a015.

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37

Kurtz, Donald M. "Structural similarity and functional diversity in diiron-oxo proteins." JBIC Journal of Biological Inorganic Chemistry 2, no. 2 (1997): 159–67. http://dx.doi.org/10.1007/s007750050120.

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38

McAdams, Daniel A., Robert B. Stone, and Kristin L. Wood. "Functional Interdependence and Product Similarity Based on Customer Needs." Research in Engineering Design 11, no. 1 (1999): 1–19. http://dx.doi.org/10.1007/s001630050001.

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39

Nakatani, Hiroshi, Isao Kobayashi та Tsuguo Miyauchi. "Functional similarity of sea urchin and mammalian α-amylases". Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology 115, № 3 (1996): 389–92. http://dx.doi.org/10.1016/s0305-0491(96)00131-9.

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40

Fukami-Kobayashi, Kaoru, Shirou Tomoda, and Mitiko Gō. "Evolutionary clustering and functional similarity of RNA-binding proteins." FEBS Letters 335, no. 2 (1993): 289–93. http://dx.doi.org/10.1016/0014-5793(93)80749-k.

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41

Younas, Muhammad, D. N. A. Jawawi, Imran Ghani, and Muhammad Arif Shah. "Extraction of non-functional requirement using semantic similarity distance." Neural Computing and Applications 32, no. 11 (2019): 7383–97. http://dx.doi.org/10.1007/s00521-019-04226-5.

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42

Wang, Xinlei, Junchang Xin, Zhongyang Wang, Luxuan Qu, Jiani Li, and Zhiqiong Wang. "Graph kernel of brain networks considering functional similarity measures." Computers in Biology and Medicine 171 (March 2024): 108148. http://dx.doi.org/10.1016/j.compbiomed.2024.108148.

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43

Li, Lei, Zhen Gao, Yu-Tian Wang, et al. "SCMFMDA: Predicting microRNA-disease associations based on similarity constrained matrix factorization." PLOS Computational Biology 17, no. 7 (2021): e1009165. http://dx.doi.org/10.1371/journal.pcbi.1009165.

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miRNAs belong to small non-coding RNAs that are related to a number of complicated biological processes. Considerable studies have suggested that miRNAs are closely associated with many human diseases. In this study, we proposed a computational model based on Similarity Constrained Matrix Factorization for miRNA-Disease Association Prediction (SCMFMDA). In order to effectively combine different disease and miRNA similarity data, we applied similarity network fusion algorithm to obtain integrated disease similarity (composed of disease functional similarity, disease semantic similarity and dise

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44

Quinn, Paul C., and Ramesh S. Bhatt. "Transfer and Scaffolding of Perceptual Grouping Occurs Across Organizing Principles in 3- to 7-Month-Old Infants." Psychological Science 20, no. 8 (2009): 933–38. http://dx.doi.org/10.1111/j.1467-9280.2009.02383.x.

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Previous research has demonstrated that organizational principles become functional over different time courses of development: Lightness similarity is available at 3 months of age, but form similarity is not readily in evidence until 6 months of age. We investigated whether organization would transfer across principles and whether perceptual scaffolding can occur from an already functional principle to a not-yet-operational principle. Six- to 7-month-old infants (Experiment 1) and 3- to 4-month-old infants (Experiment 2) who were familiarized with arrays of elements organized by lightness sim

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45

Pesaranghader, Ahmad, Stan Matwin, Marina Sokolova, and Robert G. Beiko. "simDEF: definition-based semantic similarity measure of gene ontology terms for functional similarity analysis of genes." Bioinformatics 32, no. 9 (2015): 1380–87. http://dx.doi.org/10.1093/bioinformatics/btv755.

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46

Mahsa, Jamal Vishkaei, Baraani-Dastjerdi Ahmad, and Jamshidi Kamal. "AN ARCHITECTURE FOR WEB SERVICE SIMILARITY EVALUATION BASED ON THEIR FUNCTIONAL AND QOS ASPECTS." International Journal on Web Service Computing (IJWSC) 2, no. 2 (2011): 01–12. https://doi.org/10.5281/zenodo.3966746.

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By increasing popularity of SOC, using Web services in applications has increased too. SOC creates a loosely coupled environment in which the actual execution environment might differ significantly from the one with the presupposed conditions during application design. Therefore, although an appropriate Web service might have been selected, by passing time, the Web service may not be efficient enough or may not be applicable under specific conditions. For service-oriented systems to be flexible and self-adaptive, it is necessary to automatically select and use a similar service instead of the

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47

Mahsa, Jamal Vishkaei, Baraani-Dastjerdi Ahmad, and Jamshidi Kamal. "AN ARCHITECTURE FOR WEB SERVICE SIMILARITY EVALUATION BASED ON THEIR FUNCTIONAL AND QOS ASPECTS." International Journal on Web Service Computing (IJWSC) 2, no. 2 (2011): 01–12. https://doi.org/10.5281/zenodo.3361169.

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By increasing popularity of SOC, using Web services in applications has increased too. SOC creates a loosely coupled environment in which the actual execution environment might differ significantly from the one with the presupposed conditions during application design. Therefore, although an appropriate Web service might have been selected, by passing time, the Web service may not be efficient enough or may not be applicable under specific conditions. For service-oriented systems to be flexible and self-adaptive, it is necessary to automatically select and use a similar service instead of the

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48

Fischer, Felícia M. "On the uniqueness of functional redundancy." On the uniqueness of functional redundancy 2, no. 23 (2023): 1–3. https://doi.org/10.1038/s44185-023-00029-z.

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Functional redundancy is increasingly being considered in ecological studies as a key component of biodiversity, potentially associated with the ability of ecosystems to buffer environmental perturbations. The recent paper by Eisenhauer et al.1 (hereafter "E23"), however, raises some concerns about the ecological relevance of redundancy and its potential misuses. E231 suggests overall, that the concept is problematic because (1) the effects of functional redundancy are questionable, (2) the use of this term is potentially "dangerous" by implying that species are expendable, and (3) that the te

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49

Yang, Peng, and Yi-Min Deng. "Evaluating behavioral process similarity of mechanical products in redesign for functional adaptability." Proceedings of the Institution of Mechanical Engineers, Part C: Journal of Mechanical Engineering Science 231, no. 12 (2016): 2211–22. http://dx.doi.org/10.1177/0954406216631576.

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Functional adaptability makes a product not only multifunctional but also compact in structure and flexible in application. An adaptable-function mechanical product generally demonstrates various degrees of similarity in its behavioral processes for different adaptable functions. Evaluation of this similarity is an important aspect of research for the design of such products, especially for redesigning existing products towards functional adaptability. Until present there lacks research on the design and development of this specific kind of products, including the work on the similarity evalua

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50

Wang, Dong, Juan Wang, Ming Lu, Fei Song, and Qinghua Cui. "Inferring the human microRNA functional similarity and functional network based on microRNA-associated diseases." Bioinformatics 26, no. 13 (2010): 1644–50. http://dx.doi.org/10.1093/bioinformatics/btq241.

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