Filters








5,296 Hits in 9.6 sec

Identification of temporal association rules from time-series microarray data sets

Hojung Nam, KiYoung Lee, Doheon Lee
<span title="">2009</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/n5zrklrhlzhtdorf4rk4rmeo3i" style="color: black;">BMC Bioinformatics</a> </i> &nbsp;
The proposed TARM method is tested with Saccharomyces cerevisiae cell cycle time-series microarray gene expression data set.  ...  With the fitted parameter set, numbers of temporal association rules with five transcriptional time delays (0, 7, 14, 21, 28 minutes) are extracted from gene expression data of 799 genes, which are pre-identified  ...  This time-series microarray data set has 18 time points with relatively small regular time intervals (7 minutes) between every sampling time point.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-10-s3-s6">doi:10.1186/1471-2105-10-s3-s6</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19344482">pmid:19344482</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2665054/">pmcid:PMC2665054</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/szjavispcfa47ltlso2eg4wlhi">fatcat:szjavispcfa47ltlso2eg4wlhi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170829010922/https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-10-S3-S6?site=http://bmcbioinformatics.biomedcentral.com" 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/87/72/8772e31fe02e9721a880ba35d14eb1e5fa667399.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-10-s3-s6"> <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/PMC2665054" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Data Mining in Clinical Data Sets: A Review

Shomona GraciaJacob, R Geetha Ramani
<span title="2012-12-15">2012</span> <i title="Foundation of Computer Science"> International Journal of Applied Information Systems </i> &nbsp;
Adequate survey and literature has been devoted to Clinical data mining, an active interdisciplinary area of research that is considered the consequent of applying artificial intelligence and data mining  ...  that can further unveil the potential of data mining in the realm of health care and medicine are clearly presented in this review.  ...  This research work is a part of the All India Council for Technical Education(AICTE), India funded Research Promotion Scheme project titled "Efficient Classifier for  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5120/ijais12-450774">doi:10.5120/ijais12-450774</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/chin4kzlmvb57hodqzpg7esgtm">fatcat:chin4kzlmvb57hodqzpg7esgtm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170810044118/http://research.ijais.org/volume4/number6/ijais12-450774.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/23/39/233951bd19c3959b3a054f31596c76db68618f65.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.5120/ijais12-450774"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Relation Extraction of Protein Complexes from Dynamic Protein-Protein Interaction Network

Moslem Mohammadi Jenghara
<span title="2021-12-01">2021</span> <i title="Salvia Medical Sciences Ltd"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ihyerw5bw5ayhhal3suktlyvma" style="color: black;">Journal of Biomedical Physics and Engineering</a> </i> &nbsp;
In this paper, an algorithm is presented to discover the temporal association rule from the dynamic PPIN dataset.  ...  The number of presented proteins of the dynamic network is large at each time point. This number will increase for extraction of multidimensional rules at different times.  ...  [9] presented a temporal association rule mining algorithm for continuous microarray data values.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.31661/jbpe.v0i0.1119">doi:10.31661/jbpe.v0i0.1119</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/34904064">pmid:34904064</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC8649159/">pmcid:PMC8649159</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/etljpz4tavd5pgvw5ehke6l64e">fatcat:etljpz4tavd5pgvw5ehke6l64e</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20220204073737/https://jbpe.sums.ac.ir/article_47221_87fdcf0067610b5b5192de60e5b31e67.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/77/af/77af984fb22372e600643e5834ae1d8561daa4b8.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.31661/jbpe.v0i0.1119"> <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/PMC8649159" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

eXplainable Artificial Intelligence (XAI) for the identification of biologically relevant gene expression patterns in longitudinal human studies, insights from obesity research

Augusto Anguita-Ruiz, Alberto Segura-Delgado, Rafael Alcalá, Concepción M. Aguilera, Jesús Alcalá-Fdez, Benjamin Althouse
<span title="2020-04-10">2020</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ch57atmlprauhhbqdf7x4ytejm" style="color: black;">PLoS Computational Biology</a> </i> &nbsp;
Until date, several machine learning approaches have been proposed for the dynamic modeling of temporal omics data.  ...  In this paper, we present a novel rule-based XAI strategy (including pre-processing, knowledge-extraction and functional validation) for finding biologically relevant sequential patterns from longitudinal  ...  the open data culture.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pcbi.1007792">doi:10.1371/journal.pcbi.1007792</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/32275707">pmid:32275707</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/db3i6u7nk5hgfnhog7vvffqwau">fatcat:db3i6u7nk5hgfnhog7vvffqwau</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20200411093146/https://journals.plos.org/ploscompbiol/article/file?id=10.1371%2Fjournal.pcbi.1007792&amp;type=printable" 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] </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pcbi.1007792"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a>

Unraveling complex temporal associations in cellular systems across multiple time-series microarray datasets

Wenyuan Li, Min Xu, Xianghong Jasmine Zhou
<span title="">2010</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/p4kk6lusgrhyxecgig72iasi5q" style="color: black;">Journal of Biomedical Informatics</a> </i> &nbsp;
We introduce the novel concept of a "frequent temporal association pattern" (FTAP): a set of genes simultaneously exhibit complex temporal expression patterns recurrently across multiple microarray datasets  ...  ; (2) it is capable of integrating time-series data with different time scales and intervals; and (3) it yields results that are robust against outliers.  ...  With the rapid accumulation of time-series microarray data, this method could soon provide an atlas of temporal association patterns to facilitate more advanced and detailed studies.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.jbi.2009.12.006">doi:10.1016/j.jbi.2009.12.006</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20083231">pmid:20083231</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/5za26rv6kjf4jcaja2w56yk6ai">fatcat:5za26rv6kjf4jcaja2w56yk6ai</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190416065409/https://core.ac.uk/download/pdf/82063564.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/ce/6c/ce6cc8bb1abab7522658fd0256c5109579ac63a4.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.jbi.2009.12.006"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a>

Precedence Temporal Networks to represent temporal relationships in gene expression data

Lucia Sacchi, Cristiana Larizza, Paolo Magni, Riccardo Bellazzi
<span title="">2007</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/p4kk6lusgrhyxecgig72iasi5q" style="color: black;">Journal of Biomedical Informatics</a> </i> &nbsp;
The reconstruction of gene regulatory networks from gene expression time series is nowadays an interesting research challenge.  ...  The extracted networks reflect the capability of the algorithm to clearly reconstruct the timing of the considered gene sets, highlighting different stages in Dictyostelium development and in the cell  ...  We gratefully acknowledge Carlo Combi for his contribution to the formalization of the temporal rule mining algorithm.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.jbi.2007.06.003">doi:10.1016/j.jbi.2007.06.003</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17644489">pmid:17644489</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/kmyzz5hf4zdxrhpqyxbw4owjva">fatcat:kmyzz5hf4zdxrhpqyxbw4owjva</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190327092339/https://core.ac.uk/download/pdf/81960618.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/84/42/844211e6603dfa5b5c2e3de9514f04e1b97288f3.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.jbi.2007.06.003"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a>

Temporal and structural analysis of biological networks in combination with microarray data

Chang Hun You, Lawrence B. Holder, Diane J. Cook
<span title="">2008</span> <i title="IEEE"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/jo4thqpkaje5ddjk5jgvpvyt3a" style="color: black;">2008 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology</a> </i> &nbsp;
We introduce a graph-based relational learning approach using graph-rewriting rules for temporal and structural analysis of biological networks changing over time.  ...  microarray data.  ...  Temporal data mining focuses on discovery of relational aspects in data such as discovery of temporal relations or cause-effect association.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/cibcb.2008.4675760">doi:10.1109/cibcb.2008.4675760</a> <a target="_blank" rel="external noopener" href="https://dblp.org/rec/conf/cibcb/YouHC08.html">dblp:conf/cibcb/YouHC08</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/5ultfcy2hbg25ab6rjnuqfsg2m">fatcat:5ultfcy2hbg25ab6rjnuqfsg2m</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20100606005140/http://www.eecs.wsu.edu/~holder/pubs/YouCIBCB08.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/e6/87/e6875070846e9c91536721b134fd67c0ffa4e5a7.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/cibcb.2008.4675760"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> ieee.com </button> </a>

Reverse-engineering biological networks from large data sets [article]

Joseph L. Natale, David Hofmann, Damian G. Hernández, Ilya Nemenman
<span title="2017-05-25">2017</span> <i > arXiv </i> &nbsp; <span class="release-stage" >pre-print</span>
from large sets of activation data, commonly known as reverse-engineering, has become a routine procedure.  ...  Since the advent of high-throughput data acquisition technologies in fields such as genomics, metabolomics, and neuroscience, the automated inference and reconstruction of such interaction networks directly  ...  Follow the series of prompts in the box to embark on an exploratory challenge with a representative set of actual experimental data.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/1705.06370v2">arXiv:1705.06370v2</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/owto6kvzizbebggfagrrf7itsi">fatcat:owto6kvzizbebggfagrrf7itsi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20191024141427/https://arxiv.org/pdf/1705.06370v2.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/51/1c/511c84326b2407e6d06ba55c39888086eeabb14e.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener" href="https://arxiv.org/abs/1705.06370v2" title="arxiv.org access"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> arxiv.org </button> </a>

Decision Making Association Rules for Recognition of Differential Gene Expression Profiles [chapter]

C. Rubio-Escudero, Coral del Val, O. Cordón, I. Zwir
<span title="">2006</span> <i title="Springer Berlin Heidelberg"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/2w3awgokqne6te4nvlofavy5a4" style="color: black;">Lecture Notes in Computer Science</a> </i> &nbsp;
This methodology was successfully applied to a study of inflammation and host response to injury data set derived from the analysis of longitudinal blood microarray profiles of human volunteers treated  ...  We encode the results of this methodology in decision making association rules able to decide which method or method-aggregation is optimal to retrieve a set of genes exhibiting a common profile.  ...  To create such set of decision association rules we perform the following steps over a set of microarray gene expression data (Fig. 1) .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/11875581_135">doi:10.1007/11875581_135</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/fncgo664lvhmtm7hrw4tsxbzuq">fatcat:fncgo664lvhmtm7hrw4tsxbzuq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20070612151423/http://sci2s.ugr.es/publications/ficheros/crubio-IDEAL2006.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/6d/65/6d6566e3e473f4df8fb95e4b0d6d77ab70c7cb23.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1007/11875581_135"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> springer.com </button> </a>

Short time-series microarray analysis: Methods and challenges

Xuewei Wang, Ming Wu, Zheng Li, Christina Chan
<span title="">2008</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/xua5vbjwszdirewaoqnikiu5zm" style="color: black;">BMC Systems Biology</a> </i> &nbsp;
Most temporal microarray data only contain a limited number of time points, giving rise to short-time-series data, which imposes challenges for traditional methods of extracting meaningful information.  ...  To obtain useful information from the wealth of short-time series data requires addressing the problems that arise due to limited sampling.  ...  C.C is supported in part by the National Institute of Health (1R01GM079688-01), National Science Foundation (BES 0425821), and the MSU Foundation on the Center for Systems Biology.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1752-0509-2-58">doi:10.1186/1752-0509-2-58</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/18605994">pmid:18605994</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2474593/">pmcid:PMC2474593</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/c5ro4kggd5e5nmzqdepc6m3y74">fatcat:c5ro4kggd5e5nmzqdepc6m3y74</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170829200958/https://bmcsystbiol.biomedcentral.com/track/pdf/10.1186/1752-0509-2-58?site=http://bmcsystbiol.biomedcentral.com" 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/d4/72/d47231620e1f881827490c7f2ab8ebb601a27733.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1752-0509-2-58"> <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/PMC2474593" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Predictive data mining in clinical medicine: a focus on selected methods and applications

Riccardo Bellazzi, Fulvia Ferrazzi, Lucia Sacchi
<span title="2011-02-11">2011</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/agmngghlr5hyrpto64zks3fhry" style="color: black;">Wiley Interdisciplinary Reviews Data Mining and Knowledge Discovery</a> </i> &nbsp;
This review describes the main features of predictive clinical data mining and focus on two specific aspects of particular interest: the methods able to deal with temporal data and the efforts performed  ...  The current challenge is to exploit data mining to build models able to take into account the dynamic and temporal nature of clinical care and to exploit the variety of information available at the bedside  ...  Temporal sequences of events can thus originate both from administrative data and from properly preprocessed time series data.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/widm.23">doi:10.1002/widm.23</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/n6juaunarbcclkfur3ojwb6zpq">fatcat:n6juaunarbcclkfur3ojwb6zpq</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170809075936/http://cwds.uw.edu/sites/default/files/Bellazzi%20et%20al.%20-%202011%20-%20Predictive%20data%20mining%20in%20clinical%20medicine%20a%20foc.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/d4/3e/d43eb5be86d312af070c4dc1a31f75792e414dce.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/widm.23"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> wiley.com </button> </a>

Reverse-Engineering Biological Networks From Large Data Sets [article]

Joseph Lane Natale, David Hofmann, Damián G. Hernández, Ilya Nemenman
<span title="2017-05-28">2017</span> <i title="Cold Spring Harbor Laboratory"> bioRxiv </i> &nbsp; <span class="release-stage" >pre-print</span>
from large sets of activation data, commonly known as reverse-engineering, has become a routine procedure.  ...  Since the advent of high-throughput data acquisition technologies in fields such as genomics, metabolomics, and neuroscience, the automated inference and reconstruction of such interaction networks directly  ...  Follow the series of prompts in the box to embark on an exploratory challenge with a representative set of actual experimental data.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/142034">doi:10.1101/142034</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/b4aowavcwfd3hnob4e6uu2yhsi">fatcat:b4aowavcwfd3hnob4e6uu2yhsi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190427001213/https://www.biorxiv.org/content/biorxiv/early/2017/05/28/142034.full.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/3a/93/3a931501cfedab3f953177f1034ae2895144f605.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1101/142034"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> biorxiv.org </button> </a>

Features of Big Data and sparsest solution in high confidence set [chapter]

Jianqing Fan
<span title="2014-03-26">2014</span> <i title="Chapman and Hall/CRC"> Past, Present, and Future of Statistical Science </i> &nbsp;
Features of Big Data problems encountered in economics and earth sciences, time series from hundreds or thousands of regions are collected.  ...  This chapter summarizes some of the unique features of Big Data analysis. These features are shared neither by low-dimensional data nor by small samples.  ...  Acknowledgement This project was supported by the National Institute of General Medical Sciences of the National Institutes of Health through Grants R01-GM072611 and R01-GMR01GM100474.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1201/b16720-48">doi:10.1201/b16720-48</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/rzhahwkngbacfmurg7fsqorqr4">fatcat:rzhahwkngbacfmurg7fsqorqr4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170616185357/http://orfe.princeton.edu/~jqfan/papers/14/HC-Sparse.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/4f/2d/4f2d5184baca55d41295b41fa6e7b6e96c89a716.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1201/b16720-48"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Discovering time-lagged rules from microarray data using gene profile classifiers

Cristian A Gallo, Jessica A Carballido, Ignacio Ponzoni
<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;
Results: This paper aims at reconstructing gene regulatory networks from multiple genome-wide microarray time series datasets.  ...  The method is capable of inferring potential time-delay relationships with any span of time between genes from various time series datasets given as input.  ...  Acknowledgements This work was supported by the research project PIP 112-2009-0100322 founded by the CONICET (National Research Council of Argentina) and by the research project PGI 24/ZN15 founded by  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-12-123">doi:10.1186/1471-2105-12-123</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/21524308">pmid:21524308</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3111372/">pmcid:PMC3111372</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/mjqty32i3bfirdckuwt3p2vi5q">fatcat:mjqty32i3bfirdckuwt3p2vi5q</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170824164426/https://link.springer.com/content/pdf/10.1186%2F1471-2105-12-123.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/7e/72/7e7258a8ed17e502ffcb9ed3752923667462dfd5.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/1471-2105-12-123"> <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/PMC3111372" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

The Transcriptional Response to Encystation Stimuli in Giardia lamblia Is Restricted to a Small Set of Genes

Laura Morf, Cornelia Spycher, Hubert Rehrauer, Catharine Aquino Fournier, Hilary G. Morrison, Adrian B. Hehl
<span title="2010-08-06">2010</span> <i title="American Society for Microbiology"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/6ec5x3ljznbijf2rtf6dn2u5ta" style="color: black;">Eukaryotic Cell</a> </i> &nbsp;
This makes reliable identification of encystation factors difficult.  ...  A comparative analysis revealed a core set of only 18 encystation genes and showed that a majority of genes was indeed upregulated as a side effect of inducing conditions.  ...  We are grateful to Therese Michel for technical assistance and to Weihong Qi from the FGCZ for her help with data analysis.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1128/ec.00100-10">doi:10.1128/ec.00100-10</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20693303">pmid:20693303</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2950437/">pmcid:PMC2950437</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/qzqkj63wmffijjh5kr2v2fp3nm">fatcat:qzqkj63wmffijjh5kr2v2fp3nm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190428064845/https://ec.asm.org/content/eukcell/9/10/1566.full.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/cb/10/cb109d4e54417c7c6f220fd6be9382f29a007fda.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1128/ec.00100-10"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> asm.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2950437" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>
&laquo; Previous Showing results 1 &mdash; 15 out of 5,296 results