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Extraction of substructures of proteins essential to their biological functions by a data mining technique

K Satou, T Ono, Y Yamamura, E Furuichi, S Kuhara, T Takagi
<span title="">1997</span> <i > <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/q33b3suvffclbkvfvrsg3ljwjm" style="color: black;">Proceedings. International Conference on Intelligent Systems for Molecular Biology</a> </i> &nbsp;
To this problem, we apply a technique known as data mining for discovering associations across protein sequence, structure, and function.  ...  We were able to find various association rules on the substructures essential to some protein functions.  ...  Hiroshi Noguchi at the Japan Advanced Institute of Science and Technology (JAIST) for providing the Apriori program which is used in this paper after modifications. This work was supported in part  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/9322046">pmid:9322046</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/lyaogpqgdfhubkkesmaqykrllu">fatcat:lyaogpqgdfhubkkesmaqykrllu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20151026144411/http://www.aaai.org/Papers/ISMB/1997/ISMB97-039.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/2c/a3/2ca3e3250feee31bd94ec28ce4d11bfcf9eb68b2.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a>

Guest Editors' Introduction: Special Issue on Mining Biological Data

Wei Wang, Jiong Yang
<span title="">2005</span> <i title="Institute of Electrical and Electronics Engineers (IEEE)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ht3yl6qfebhwrg7vrxkz4gxv3q" style="color: black;">IEEE Transactions on Knowledge and Data Engineering</a> </i> &nbsp;
The sixth paper, "Literature Extraction of Protein Functions Using Sentence Pattern Mining" by Jung-Hsien Chiang and Hsu-Chun Yu, proposes the method of sentence pattern mining to extract protein functions  ...  To facilitate functional annotation of proteins by utilizing the huge amounts of biomedical literature and transforming the knowledge into easily accessible database formats, the text mining technique  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/tkde.2005.128">doi:10.1109/tkde.2005.128</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/o3vmjyzy3ncplknsce52diieo4">fatcat:o3vmjyzy3ncplknsce52diieo4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170830165204/https://www.computer.org/csdl/trans/tk/2005/08/k1019.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/f1/d0/f1d0087d5d74d55a8e7ba219fa35bb50a7b8e373.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/tkde.2005.128"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> ieee.com </button> </a>

Mining Substructures in Protein Data

Fedja Hadzic, Tharam S. Dillon, Amandeep S. Sidhu, Elizabeth Chang, Henry Tan
<span title="">2006</span> <i title="IEEE"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/gckg3mzs4fhxhbrvmbsa54bccm" style="color: black;">Sixth IEEE International Conference on Data Mining - Workshops (ICDMW&#39;06)</a> </i> &nbsp;
This approach is shown to be a viable technique for mining protein data.  ...  This aspect will be demonstrated by providing an analysis of the extracted frequent subtrees with respect to discovering interesting protein information.  ...  A critical problem in biological data analysis is to classify biological sequences and structures based on their critical features and functions.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/icdmw.2006.114">doi:10.1109/icdmw.2006.114</a> <a target="_blank" rel="external noopener" href="https://dblp.org/rec/conf/icdm/HadzicDSCT06.html">dblp:conf/icdm/HadzicDSCT06</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/7ebzkdbbnvg2pd7uiqhxhbbqai">fatcat:7ebzkdbbnvg2pd7uiqhxhbbqai</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20070901210417/http://staff.it.uts.edu.au/~henryws/publications/hadzicf_dmb_06.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/88/2e/882e1e33d5c3d1598aca182277e6267532be8c53.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/icdmw.2006.114"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> ieee.com </button> </a>

A Survey of Graph Mining Techniques for Biological Datasets [chapter]

S. Parthasarathy, S. Tatikonda, D. Ucar
<span title="">2010</span> <i title="Springer US"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/z6l23qz6lbahndyc65abg7sqju" style="color: black;">Managing and Mining Graph Data</a> </i> &nbsp;
The field of bioinformatics has emerged as important application area in this context. Examples abound ranging from the analysis of protein interaction networks to the analysis of phylogenetic data.  ...  Mining structured information has been the source of much research in the data mining community over the last decade.  ...  Acknowledgments The authors wish to acknowledge the support of NSF CAREER Grant IIS-0347662.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/978-1-4419-6045-0_18">doi:10.1007/978-1-4419-6045-0_18</a> <a target="_blank" rel="external noopener" href="https://dblp.org/rec/series/ads/ParthasarathyTU10.html">dblp:series/ads/ParthasarathyTU10</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/aeu53r3dbzd67d5whkjypv64uq">fatcat:aeu53r3dbzd67d5whkjypv64uq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20100716103534/http://www.cse.ohio-state.edu/~tatikond/papers/chapter.biological.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/22/26/2226625f8382b9bef55286275d1d7387d46cf299.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/978-1-4419-6045-0_18"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

Perspectives on Supercomputing and Artificial Intelligence Applications in Drug Discovery

<span title="">2020</span> <i title="FSAEIHE South Ural State University (National Research University)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ut52ymkqynfbhjyzwhwl44xhvq" style="color: black;">Supercomputing Frontiers and Innovations</a> </i> &nbsp;
micrometer scale space, an example of how a macrocosm object gets into microcosm world.  ...  The evolution results in big data accumulated in life sciences and the fields of drug discovery.  ...  Acknowledgements The author would like to thank the National Key R&D Program of China (2017YFB0203403), the National Natural Science Foundation of China (81870608), the science and technology program of  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.14529/jsfi200302">doi:10.14529/jsfi200302</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/577xucm4sbdmvbg5oymt4vp2ym">fatcat:577xucm4sbdmvbg5oymt4vp2ym</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201109025202/https://superfri.org/superfri/article/download/325/370" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d5/24/d5247d69adaa21994b7d600f48d2c85692f353fe.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.14529/jsfi200302"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a>

A primer to frequent itemset mining for bioinformatics

S. Naulaerts, P. Meysman, W. Bittremieux, T. N. Vu, W. Vanden Berghe, B. Goethals, K. Laukens
<span title="2013-10-26">2013</span> <i title="Oxford University Press (OUP)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/op7ztx4fhvairowgqifu7dnvsi" style="color: black;">Briefings in Bioinformatics</a> </i> &nbsp;
Owing to these and other interesting properties, these techniques have proven their value in biological data analysis.  ...  Frequent itemset mining is a popular group of pattern mining techniques designed to identify elements that frequently co-occur.  ...  These techniques have proven their value in a wide range of knowledge extraction problems.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bib/bbt074">doi:10.1093/bib/bbt074</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/24162173">pmid:24162173</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4364064/">pmcid:PMC4364064</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/khstm5as2jah5fhsskvjrivoku">fatcat:khstm5as2jah5fhsskvjrivoku</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201107051925/https://doc.anet.be/docman/docman.phtml?file=.irua.74aae0.9639.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/2c/aa/2caaac169bff1d88a2d9be6fb018e0d6e763f30b.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bib/bbt074"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> oup.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4364064" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Association Rule Mining and Medical Application: A Detailed Survey

K. Pazhanikumar, S. Arumugaperumal
<span title="2013-10-18">2013</span> <i title="Foundation of Computer Science"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/b637noqf3vhmhjevdfk3h5pdsu" style="color: black;">International Journal of Computer Applications</a> </i> &nbsp;
Association rule mining is one of the well established fields in data mining. This paper has surveyed the research papers in this field from 1993 to 2013.  ...  This also provides brief overview of current trends of association and frequent pattern mining and medical applications.  ...  It mined the associations of functional regions of two interacting proteins to help PPI prediction.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5120/13967-1698">doi:10.5120/13967-1698</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vus3n7z3hnebxfwac37b5daqvm">fatcat:vus3n7z3hnebxfwac37b5daqvm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180723012928/https://research.ijcaonline.org/volume80/number17/pxc3891698.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/74/a5/74a567a720e99936426b17555b8bf605cf88a491.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5120/13967-1698"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Functional gene clustering via gene annotation sentences, MeSH and GO keywords from biomedical literature

Jeyakumar Natarajan, Jawahar Ganapathy
<span title="2007-12-30">2007</span> <i title="Biomedical Informatics"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/iztfdaqh6bclfpgb2mitxtn5sm" style="color: black;">Bioinformation</a> </i> &nbsp;
To improve keyword extraction for annotational clustering and other types of analyses, we have developed a novel text mining approach, which is based on keywords identified at the level of gene annotation  ...  Gene function annotation remains a key challenge in modern biology. This is especially true for high-throughput techniques such as gene expression experiments.  ...  Gene clustering Clustering is a data mining technique that groups or clusters data components (typically represented as numeric vectors) according to their similarity or dissimilarity.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.6026/97320630002185">doi:10.6026/97320630002185</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/18305827">pmid:18305827</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2241933/">pmcid:PMC2241933</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/6m3o7d5pz5gtdfrojicgnqvhky">fatcat:6m3o7d5pz5gtdfrojicgnqvhky</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180720073709/http://www.bioinformation.net/002/004400022007.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/e9/3a/e93a3c22f38036c2a7f01a34d85816d8ad66cdd7.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.6026/97320630002185"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2241933" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Structural mining of molecular biology data

D.J. Cook, L.B. Holder, S. Su, R. Maglothin, I. Jonyer
<span title="">2001</span> <i title="Institute of Electrical and Electronics Engineers (IEEE)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/pmtdj6zv2fdcvholrbp6p43mxm" style="color: black;">IEEE Engineering in Medicine and Biology Magazine</a> </i> &nbsp;
Once a substructure is discovered, the substructure is used to simplify the data by replacing instances of the substructure with a pointer to the newly discovered substructure.  ...  Once identified, these substructures can be used to simplify the data by replacing instances of the substructure with a pointer to the newly discovered concept.  ...  Holder is currently an associate professor in the Department of Computer S c i e n c e a n d E n g ineering at the Univer- Istvan Jonyer is a Ph.D. student in the Computer Science and Engineering Department  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/51.940050">doi:10.1109/51.940050</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/11494772">pmid:11494772</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/mprzjt3csvhhtli2py6nnoaige">fatcat:mprzjt3csvhhtli2py6nnoaige</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20150320061631/http://eecs.wsu.edu/~holder/pubs/CookEMB01.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/9d/e7/9de7aaf34852ae6162025a01924d6a94a625be3a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/51.940050"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> ieee.com </button> </a>

Prediction of Potential Lead Molecules through Systematic Integration of Multi-omics Datasets - A Mini-Review

<span title="">2017</span> <i title="Radiance Research Academy"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/s5lg4nnygzau5d2gajch3h44la" style="color: black;">International Journal of Current Research and Review</a> </i> &nbsp;
The systematic integration of multi-omics data from various data/knowledge bases through computational techniques enables to identify potential lead molecules and study the therapeutic properties.  ...  Prediction of a novel or potential lead molecules for a therapeutic drug target without adverse effects is a challenging task in the drug designing, discovery, and development process.  ...  and most popular technique for extraction of knowledge from the datasets.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.7324/ijcrr.2017.9194">doi:10.7324/ijcrr.2017.9194</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/kqjztlnuqfgztmbg5gru3rxqqy">fatcat:kqjztlnuqfgztmbg5gru3rxqqy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20180605012812/http://ijcrr.com/uploads/2340_pdf.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/d6/f5/d6f54b2835bdb43b5579aee3b89c1c8d86d29f5a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.7324/ijcrr.2017.9194"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> Publisher / doi.org </button> </a>

Overview of Biomedical Relations Extraction using Hybrid Rule-based Approaches

Rabiah A. Kadir, Behrouz Bokharaeian
<span title="">2013</span> <i title="EJournal Publishing"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/i2kbowktuvc7vfvdaoxyvly5hy" style="color: black;">Journal of Industrial and Intelligent Information</a> </i> &nbsp;
Therefore, there is a need for knowledge discovery and text mining tools in this field. A lot of works have been done on relation extraction in biomedical field.  ...  However, in this work we will discuss the overview a combination of three methods called as hybrid rule-based to extract complex and simple relations.   ...  their biological function [1, 2, 3] .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.12720/jiii.1.3.169-173">doi:10.12720/jiii.1.3.169-173</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/7re3kfqdbfcmjerh74wdh6bvty">fatcat:7re3kfqdbfcmjerh74wdh6bvty</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170809222739/http://www.jiii.org/uploadfile/2013/1029/20131029120235926.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/1e/35/1e352306ac03192ca7e9149b312e1cfeca929573.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.12720/jiii.1.3.169-173"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Molecular Substructure Mining Approaches for Computer-Aided Drug Discovery A Review

C.N. Nicolaou, C.S. Pattichis
<span title="2006-12-31">2006</span> <i title="Zenodo"> Zenodo </i> &nbsp;
Substructure mining is a well-established technique used frequently in drug discovery. Its aim is to discover and characterize interesting 2D substructures present in chemical datasets.  ...  expert medicinal chemists who tend to view, organize and treat chemical compounds as a collection of their substructural parts.  ...  Section III reviews some milestone techniques as well as the present state of the art methods for substructure mining.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.2567369">doi:10.5281/zenodo.2567369</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/4vqfcjvfafauxkfei6bslez6vu">fatcat:4vqfcjvfafauxkfei6bslez6vu</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20201229191057/https://zenodo.org/record/2567369/files/Molecular%20Substructure%20Mining%20Approaches%20for%20Computer-Aided%20Drug%20Discovery%20A%20Review.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/76/78/767805c36467516ecf9c80b87b2889586791c4b5.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5281/zenodo.2567369"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> zenodo.org </button> </a>

Data mining methodologies for pharmacovigilance

Mei Liu, Michael E. Matheny, Yong Hu, Hua Xu
<span title="2012-12-10">2012</span> <i title="Association for Computing Machinery (ACM)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/5ptshywu7rdklpcx3m6sfans3e" style="color: black;">SIGKDD Explorations</a> </i> &nbsp;
In the pre-marketing stages of a drug, PhV primarily focuses on predicting potential ADRs using preclinical characteristics of the compounds (e.g., drug targets, chemical structure) or screening data (  ...  In the postmarketing stage, PhV has traditionally involved in mining spontaneous reports submitted to national surveillance systems.  ...  Protein Target-based Approach Drugs typically work by activating or inhibiting the function of a protein, which in turn results in therapeutic benefits to a patient.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1145/2408736.2408742">doi:10.1145/2408736.2408742</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/kkrx4ixd6fhf5lwnjqme3lynqi">fatcat:kkrx4ixd6fhf5lwnjqme3lynqi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20150921191944/http://www.sigkdd.org:80/sites/default/files/issues/14-1-2012-06/V14-01-05-Liu.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/7b/59/7b59b9898d07b68e8d0147a2004a6433a536b25a.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1145/2408736.2408742"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> acm.org </button> </a>

A ligand-based computational drug repurposing pipeline using KNIME and Programmatic Data Access: case studies for rare diseases and COVID-19

Alzbeta Tuerkova, Barbara Zdrazil
<span title="2020-11-25">2020</span> <i title="Springer Science and Business Media LLC"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/5aubiwi6v5beng6iqzj577kiaa" style="color: black;">Journal of Cheminformatics</a> </i> &nbsp;
AbstractBiomedical information mining is increasingly recognized as a promising technique to accelerate drug discovery and development.  ...  The workflow includes a targeted download of data through web services, data curation, detection of enriched structural patterns, as well as substructure searches in DrugBank and a recently deposited data  ...  semester 2020 at the University of Vienna in testing and applying the developed tutorial and KNIME workflow.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s13321-020-00474-z">doi:10.1186/s13321-020-00474-z</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/33250934">pmid:33250934</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC7686838/">pmcid:PMC7686838</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/qbso5ob6gfbt3eswjo5atyjexi">fatcat:qbso5ob6gfbt3eswjo5atyjexi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210421194628/https://jcheminf.biomedcentral.com/track/pdf/10.1186/s13321-020-00474-z.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/8c/61/8c611336724a23702c7ce6f5f698ce9c81faa9db.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s13321-020-00474-z"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7686838" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Predicting drug side-effect profiles: a chemical fragment-based approach

Edouard Pauwels, Véronique Stoven, Yoshihiro Yamanishi
<span title="">2011</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/n5zrklrhlzhtdorf4rk4rmeo3i" style="color: black;">BMC Bioinformatics</a> </i> &nbsp;
These predictions are performed with simultaneous extraction of correlated ensembles formed by a set of chemical substructures shared by drugs that are likely to have a set of side-effects.  ...  A unique feature of the proposed method is its ability to extract correlated sets of chemical substructures (or chemical fragments) and side-effects.  ...  VS -has made substantial contributions to the biological interpretations, and has been responsible for drafting some parts of the manuscript.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-12-169">doi:10.1186/1471-2105-12-169</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21586169">pmid:21586169</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3125260/">pmcid:PMC3125260</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/jbfg3sbfznc3nne24wjsp4zah4">fatcat:jbfg3sbfznc3nne24wjsp4zah4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190416133200/https://core.ac.uk/download/pdf/51229131.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/db/c4/dbc4951067fcfbaea023a7b9b39e105bc4079f17.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-12-169"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> springer.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3125260" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>
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