{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,16]],"date-time":"2025-10-16T07:01:10Z","timestamp":1760598070698},"reference-count":23,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2021,9,11]],"date-time":"2021-09-11T00:00:00Z","timestamp":1631318400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2021,9,11]],"date-time":"2021-09-11T00:00:00Z","timestamp":1631318400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2021,12]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Background<\/jats:title><jats:p>Proteins are integral part of all living beings, which are building blocks of many amino acids. To be functionally active, amino acids chain folds up in a complex way to give each protein a unique 3D shape, where a minor error may cause misfolded structure. Genetic disorder diseases i.e.<jats:italic>Alzheimer, Parkinson,<\/jats:italic>etc. arise due to misfolding in protein sequences. Thus, identifying patterns of amino acids is important for inferring protein associated genetic diseases. Recent studies in predicting amino acids patterns focused on only simple protein misfolded disease i.e.<jats:italic>Chromaffin Tumor<\/jats:italic>, by association rule mining. However, more complex diseases are yet to be attempted. Moreover, association rules obtained by these studies were not verified by usefulness measuring tools.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>In this work, we analyzed protein sequences associated with complex protein misfolded diseases (i.e.<jats:italic>Sickle Cell Anemia, Breast Cancer, Cystic Fibrosis, Nephrogenic Diabetes Insipidus,<\/jats:italic>and<jats:italic>Retinitis Pigmentosa 4<\/jats:italic>) by association rule mining technique and objective interestingness measuring tools. Experimental results show the effectiveness of our method.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusion<\/jats:title><jats:p>Adopting quantitative experimental methods, this work can form more reliable, useful and strong association rules i. e. dominating patterns of amino acid of complex protein misfolded diseases. Thus, in addition to usual applications, the identified patterns can be more useful in discovering medicines for protein misfolded diseases and thereby may open up new opportunities in medical science to handle genetic disorder diseases.<\/jats:p><\/jats:sec>","DOI":"10.1186\/s12859-021-04341-y","type":"journal-article","created":{"date-parts":[[2021,9,12]],"date-time":"2021-09-12T13:03:46Z","timestamp":1631451826000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":3,"title":["Frequent contiguous pattern mining over biological sequences of protein misfolded diseases"],"prefix":"10.1186","volume":"22","author":[{"given":"Mohammad Shahedul","family":"Islam","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Md. Abul Kashem","family":"Mia","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mohammad Shamsur","family":"Rahman","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mohammad Shamsul","family":"Arefin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pranab Kumar","family":"Dhar","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Takeshi","family":"Koshiba","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2021,9,11]]},"reference":[{"issue":"14","key":"4341_CR1","first-page":"15","volume":"95","author":"S Rajasekaran","year":"2014","unstructured":"Rajasekaran S, Arockiam L. Frequent contiguous pattern mining algorithms for biological data sequences. Int J Comput Appl. 2014;95(14):15\u201320.","journal-title":"Int J Comput Appl"},{"issue":"5","key":"4341_CR2","first-page":"563","volume":"7","author":"G LakshmiPriya","year":"2012","unstructured":"LakshmiPriya G, Hariharan S. A study on predicting patterns over the protein sequence datasets using association rule mining. J Eng Sci Technol. 2012;7(5):563\u201373.","journal-title":"J Eng Sci Technol"},{"key":"4341_CR3","doi-asserted-by":"publisher","first-page":"483","DOI":"10.1038\/416483a","volume":"416","author":"RJ Ellis","year":"2002","unstructured":"Ellis RJ, Pinheiro TJ. Danger\u2014misfolding proteins. Nature. 2002;416:483\u20134.","journal-title":"Nature"},{"key":"4341_CR4","first-page":"1331","volume":"273","author":"TK Chaudhuri","year":"2006","unstructured":"Chaudhuri TK, Paul S. Protein-misfolding diseases and chaperone-based therapeutic approaches. Fed Eur Biochem Soc J. 2006;273:1331\u201349.","journal-title":"Fed Eur Biochem Soc J"},{"key":"4341_CR5","doi-asserted-by":"crossref","unstructured":"Lakshmi Priya G, Hariharan S. An efficient approach for generating frequent patterns without candidate generation. In: International conference on advances in computing, communications and informatics (ICACCI), ICACCI\u201912, August 3\u20135 2012; 2012. p. 1061\u20137.","DOI":"10.1145\/2345396.2345566"},{"issue":"7","key":"4341_CR6","first-page":"13011","volume":"4","author":"S Dhumale","year":"2015","unstructured":"Dhumale S. Predicting patterns over protein sequences using apriori algorithm. Int J Eng Comput Sci. 2015;4(7):13011\u20136.","journal-title":"Int J Eng Comput Sci"},{"key":"4341_CR7","unstructured":"The Chemistry of amino acid. Retrieved from www.biology.arizona.edu\/biochemistry\/problem_sets\/aa\/aa.html (2003)."},{"key":"4341_CR8","unstructured":"Chemistry of amino acids and protein\u00a0structure. Retrieved May 12, 2018, from https:\/\/www.khanacademy.org\/test-prep\/mcat\/biomolecules\/amino-acids-and-proteins1\/a\/chemistry-of-amino-acids-and-protein-structure (n. d.)."},{"issue":"9364","key":"4341_CR9","doi-asserted-by":"publisher","first-page":"1194","DOI":"10.1016\/S0140-6736(03)12975-3","volume":"361","author":"J Bradbury","year":"2003","unstructured":"Bradbury J. Chaperones: keeping a close eye on protein folding. The Lancet. 2003;361(9364):1194\u20135.","journal-title":"The Lancet"},{"key":"4341_CR10","unstructured":"UniProtKB\u2014P68871 (HBB_HUMAN). https:\/\/www.uniprot.org\/uniprot\/P68871. Accessed 15 Sept 2017."},{"key":"4341_CR11","unstructured":"UniProtKB\u2014P38398\u00a0(BRCA1_HUMAN). Retrieved September 25, 2020, from https:\/\/www.uniprot.org\/uniprot\/P38398"},{"key":"4341_CR12","unstructured":"UniProtKB\u2014P13569 (CFTR_HUMAN). https:\/\/www.uniprot.org\/uniprot\/P13569. Accessed 25 Sept 2020."},{"key":"4341_CR13","unstructured":"UniProtKB\u2014P30518\u00a0(V2R_HUMAN). https:\/\/www.uniprot.org\/uniprot\/P30518. Accessed 15 Sept 2017."},{"key":"4341_CR14","unstructured":"UniProtKB\u2014P08100 (OPSD_HUMAN). https:\/\/www.uniprot.org\/uniprot\/P08100. Accessed 15 Sept 2017."},{"key":"4341_CR15","unstructured":"Mining Frequent Itemsets\u2014Apriori Algorithm. http:\/\/software.ucv.ro\/~cmihaescu\/ro\/teaching\/AIR\/docs\/Lab8-Apriori.pdf. (n. d.). Accessed 29 Sept 2017."},{"issue":"2","key":"4341_CR16","first-page":"74","volume":"6","author":"N Bhargava","year":"2016","unstructured":"Bhargava N, Shukla M. Survey of interestingness measures for association rules mining: data mining, data science for business perspective. IRACST Int J Comput Sci Inf Technol Secur. 2016;6(2):74\u201380.","journal-title":"IRACST Int J Comput Sci Inf Technol Secur"},{"key":"4341_CR17","first-page":"66","volume":"6","author":"C Ju","year":"2015","unstructured":"Ju C, Bao F, Xu C, Fu X. A novel method of interestingness measures for association rules mining based on profit. Discrete Dyn Nat Soc. 2015;6:66.","journal-title":"Discrete Dyn Nat Soc"},{"key":"4341_CR18","doi-asserted-by":"publisher","unstructured":"Islam MS, Saha S, Rahman S, Kashem Mia MA. Pattern identification on protein sequences of neurodegenerative diseases using association rule mining. In: Proceedings of the seventh international conference on advances in computing, electronics and communication (ACEC 2018), Kuala Lumpur, Malaysia. ISBN: 978-1-63248-157-3. 2018. https:\/\/doi.org\/10.15224\/978-1-63248-157-3-12.","DOI":"10.15224\/978-1-63248-157-3-12"},{"key":"4341_CR19","first-page":"66","volume":"6","author":"C Ju","year":"2015","unstructured":"Ju C, Bao F, Xu C, Fu X. A novel method of interestingness measures for association rules mining based on profit. Discrete Dyn Nat Soc. 2015;6:66.","journal-title":"Discrete Dyn Nat Soc"},{"issue":"5","key":"4341_CR20","first-page":"503","volume":"30","author":"Y Li","year":"2011","unstructured":"Li Y, Wu C, Wang K. A new interestingness measures for Ming association rules. J China Soc Sci Tech Inf. 2011;30(5):503\u20137.","journal-title":"J China Soc Sci Tech Inf"},{"key":"4341_CR21","doi-asserted-by":"crossref","unstructured":"Kang TH, Yoo JS, Kim HY. Mining frequent contiguous sequence patterns in biological sequences. In: Proceedings of 7th IEEE international conference on bioinformatics and bioengineering (BIBE\u201908), Athens, Oct 8\u201310, 2008. Pp. 723\u20138.","DOI":"10.1109\/BIBE.2007.4375640"},{"key":"4341_CR22","unstructured":"What are proteins made of? (n.d.). http:\/\/whoami.sciencemuseum.org.uk\/whoami\/findoutmore\/yourbody\/whatdoyourcellsdo\/whatisacellmadeof\/whatareproteinsmadeof. Accessed 26 Oct 2017."},{"key":"4341_CR23","unstructured":"UoW. Finding patterns in biological sequences, Technical report CS-2000-22 University of Waterloo, ON, Canada; 2000."}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-021-04341-y.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1186\/s12859-021-04341-y\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-021-04341-y.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,9]],"date-time":"2023-01-09T00:50:27Z","timestamp":1673225427000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/s12859-021-04341-y"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,9,11]]},"references-count":23,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2021,12]]}},"alternative-id":["4341"],"URL":"https:\/\/doi.org\/10.1186\/s12859-021-04341-y","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2021,9,11]]},"assertion":[{"value":"5 May 2021","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"23 August 2021","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"11 September 2021","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"Not applicable.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Ethics approval and consent to participate"}},{"value":"Not applicable.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Consent for publication"}},{"value":"Not applicable.","order":4,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"435"}}