IEEE J Biomed Health Inform - Identifying Similar Cases in Document Networks using Cross-reference Structures.

Tópicos

{ extract(1171) text(1153) clinic(932) }
{ method(1969) cluster(1462) data(1082) }
{ network(2748) neural(1063) input(814) }
{ perform(999) metric(946) measur(919) }
{ featur(3375) classif(2383) classifi(1994) }
{ learn(2355) train(1041) set(1003) }
{ data(2317) use(1299) case(1017) }
{ model(3404) distribut(989) bayesian(671) }
{ error(1145) method(1030) estim(1020) }
{ medic(1828) order(1363) alert(1069) }
{ system(1050) medic(1026) inform(1018) }
{ activ(1452) weight(1219) physic(1104) }
{ system(1976) rule(880) can(841) }
{ bind(1733) structur(1185) ligand(1036) }
{ sequenc(1873) structur(1644) protein(1328) }
{ motion(1329) object(1292) video(1091) }
{ concept(1167) ontolog(924) domain(897) }
{ general(901) number(790) one(736) }
{ data(3963) clinic(1234) research(1004) }
{ gene(2352) biolog(1181) express(1162) }
{ first(2504) two(1366) second(1323) }
{ can(981) present(881) function(850) }
{ use(1733) differ(960) four(931) }
{ estim(2440) model(1874) function(577) }
{ detect(2391) sensit(1101) algorithm(908) }
{ care(1570) inform(1187) nurs(1089) }
{ risk(3053) factor(974) diseas(938) }
{ compound(1573) activ(1297) structur(1058) }
{ record(1888) medic(1808) patient(1693) }
{ research(1218) medic(880) student(794) }
{ signal(2180) analysi(812) frequenc(800) }
{ use(2086) technolog(871) perceiv(783) }
{ high(1669) rate(1365) level(1280) }
{ use(976) code(926) identifi(902) }
{ survey(1388) particip(1329) question(1065) }
{ method(2212) result(1239) propos(1039) }
{ can(774) often(719) complex(702) }
{ imag(1947) propos(1133) code(1026) }
{ data(1737) use(1416) pattern(1282) }
{ inform(2794) health(2639) internet(1427) }
{ measur(2081) correl(1212) valu(896) }
{ imag(1057) registr(996) error(939) }
{ method(1219) similar(1157) match(930) }
{ imag(2830) propos(1344) filter(1198) }
{ imag(2675) segment(2577) method(1081) }
{ patient(2315) diseas(1263) diabet(1191) }
{ take(945) account(800) differ(722) }
{ studi(2440) review(1878) systemat(933) }
{ assess(1506) score(1403) qualiti(1306) }
{ treatment(1704) effect(941) patient(846) }
{ surgeri(1148) surgic(1085) robot(1054) }
{ framework(1458) process(801) describ(734) }
{ problem(2511) optim(1539) algorithm(950) }
{ chang(1828) time(1643) increas(1301) }
{ clinic(1479) use(1117) guidelin(835) }
{ algorithm(1844) comput(1787) effici(935) }
{ method(1557) propos(1049) approach(1037) }
{ data(1714) softwar(1251) tool(1186) }
{ design(1359) user(1324) use(1319) }
{ control(1307) perform(991) simul(935) }
{ model(2220) cell(1177) simul(1124) }
{ method(984) reconstruct(947) comput(926) }
{ search(2224) databas(1162) retriev(909) }
{ featur(1941) imag(1645) propos(1176) }
{ case(1353) use(1143) diagnosi(1136) }
{ howev(809) still(633) remain(590) }
{ studi(1410) differ(1259) use(1210) }
{ research(1085) discuss(1038) issu(1018) }
{ import(1318) role(1303) understand(862) }
{ model(2341) predict(2261) use(1141) }
{ visual(1396) interact(850) tool(830) }
{ perform(1367) use(1326) method(1137) }
{ studi(1119) effect(1106) posit(819) }
{ blood(1257) pressur(1144) flow(957) }
{ spatial(1525) area(1432) region(1030) }
{ health(3367) inform(1360) care(1135) }
{ model(3480) simul(1196) paramet(876) }
{ monitor(1329) mobil(1314) devic(1160) }
{ ehr(2073) health(1662) electron(1139) }
{ state(1844) use(1261) util(961) }
{ patient(2837) hospit(1953) medic(668) }
{ model(2656) set(1616) predict(1553) }
{ age(1611) year(1155) adult(843) }
{ cost(1906) reduc(1198) effect(832) }
{ group(2977) signific(1463) compar(1072) }
{ sampl(1606) size(1419) use(1276) }
{ data(3008) multipl(1320) sourc(1022) }
{ intervent(3218) particip(2042) group(1664) }
{ activ(1138) subject(705) human(624) }
{ time(1939) patient(1703) rate(768) }
{ patient(1821) servic(1111) care(1106) }
{ analysi(2126) use(1163) compon(1037) }
{ health(1844) social(1437) communiti(874) }
{ structur(1116) can(940) graph(676) }
{ cancer(2502) breast(956) screen(824) }
{ drug(1928) target(777) effect(648) }
{ result(1111) use(1088) new(759) }
{ implement(1333) system(1263) develop(1122) }
{ decis(3086) make(1611) patient(1517) }
{ process(1125) use(805) approach(778) }

Resumo

Our objective was to explore the creation of document networks based on different thresholds of shared information and different clustering algorithms on those networks to identify document clusters describing similar clinical cases. We created networks from vaccine adverse event report sets using seven approaches for linking reports. We then applied three clustering algorithms (Visualization of Similarities [VOS], Louvain, k-means) to these networks and evaluated their ability to identify known clusters. The report sets included one simulated set and three sets from the Vaccine Adverse Event Reporting System; each was split into training and testing subsets. Training subsets were used to estimate parameter values for the clustering algorithms and testing subsets to evaluate clusters. We created the networks by linking reports based on shared information in the form either of individual Medical Dictionary for Regulatory Activities Preferred Terms (PTs) or of dyads, triplets, quadruplets, quintuplets and sextuplets of PTs; we created another network by weighting the single PT network connections by Lin's information theoretic approach to similarity. We then repeated this entire process using networks based on text mining output rather than structured data. We evaluated report clustering using recall, precision and f-measure. The VOS algorithm outperformed Louvain and k-means in general. The best weighting scheme appeared to be related to the complexity of the known cluster. For example, singleton weighting performed best for an intussusception cluster driven by a single PT. We observed marginal differences between the code- and textual-based clustering. In conclusion, our approach supported identification of similar nodes in a document network.

Resumo Limpo

object explor creation document network base differ threshold share inform differ cluster algorithm network identifi document cluster describ similar clinic case creat network vaccin advers event report set use seven approach link report appli three cluster algorithm visual similar vos louvain kmean network evalu abil identifi known cluster report set includ one simul set three set vaccin advers event report system split train test subset train subset use estim paramet valu cluster algorithm test subset evalu cluster creat network link report base share inform form either individu medic dictionari regulatori activ prefer term pts dyad triplet quadruplet quintuplet sextuplet pts creat anoth network weight singl pt network connect lin inform theoret approach similar repeat entir process use network base text mine output rather structur data evalu report cluster use recal precis fmeasur vos algorithm outperform louvain kmean general best weight scheme appear relat complex known cluster exampl singleton weight perform best intussuscept cluster driven singl pt observ margin differ code textualbas cluster conclus approach support identif similar node document network

Resumos Similares

J Am Med Inform Assoc - A flexible framework for recognizing events, temporal expressions, and temporal relations in clinical text. ( 0,728732564075621 )
J Am Med Inform Assoc - Large-scale evaluation of automated clinical note de-identification and its impact on information extraction. ( 0,669447203356231 )
Comput Methods Programs Biomed - Classification of intelligence quotient via brainwave sub-band power ratio features and artificial neural network. ( 0,660568399297138 )
J Biomed Inform - A new clustering method for detecting rare senses of abbreviations in clinical notes. ( 0,651460695044567 )
J Biomed Inform - Comparison of automated and human assignment of MeSH terms on publicly-available molecular datasets. ( 0,649973048292945 )
AMIA Annu Symp Proc - Identifying discourse connectives in biomedical text. ( 0,649195186649121 )
J Am Med Inform Assoc - A comprehensive study of named entity recognition in Chinese clinical text. ( 0,648735187998913 )
J Biomed Inform - Enhancing clinical concept extraction with distributional semantics. ( 0,629890730468065 )
J Am Med Inform Assoc - Hybrid methods for improving information access in clinical documents: concept, assertion, and relation identification. ( 0,624865944474133 )
IEEE Trans Pattern Anal Mach Intell - A Link-Based Approach to the Cluster Ensemble Problem. ( 0,619822762559134 )
AMIA Annu Symp Proc - Using ontology network structure in text mining. ( 0,614640804535286 )
AMIA Annu Symp Proc - Word Sense Disambiguation of clinical abbreviations with hyperdimensional computing. ( 0,613565982907159 )
Appl Clin Inform - Automating case definitions using literature-based reasoning. ( 0,609236019351603 )
Inform Health Soc Care - A model based on multi-features to enhance healthcare and medical document retrieval. ( 0,606806705999593 )
J Am Med Inform Assoc - Vaccine adverse event text mining system for extracting features from vaccine safety reports. ( 0,606806661325136 )
J Am Med Inform Assoc - A study of machine-learning-based approaches to extract clinical entities and their assertions from discharge summaries. ( 0,603890491351658 )
Artif Intell Med - Vicinal support vector classifier using supervised kernel-based clustering. ( 0,602769034501014 )
J Am Med Inform Assoc - Automatic discourse connective detection in biomedical text. ( 0,60156815739076 )
J Am Med Inform Assoc - A supervised framework for resolving coreference in clinical records. ( 0,59980822708251 )
J Am Med Inform Assoc - Pneumonia identification using statistical feature selection. ( 0,594950895260449 )
Comput Math Methods Med - Feature selection for better identification of subtypes of Guillain-Barr? syndrome. ( 0,590291049554837 )
J Am Med Inform Assoc - Evaluating the utility of syndromic surveillance algorithms for screening to detect potentially clonal hospital infection outbreaks. ( 0,586453694628195 )
Int J Med Inform - De-identification of clinical narratives through writing complexity measures. ( 0,585376958956971 )
Health Informatics J - University of California, Irvine-Pathology Extraction Pipeline: the pathology extraction pipeline for information extraction from pathology reports. ( 0,585138045917592 )
AMIA Annu Symp Proc - TagLine: Information Extraction for Semi-Structured Text in Medical Progress Notes. ( 0,583068396900024 )
Appl Clin Inform - Comparing the effectiveness of computerized adverse drug event monitoring systems to enhance clinical decision support for hospitalized patients. ( 0,582782444112603 )
AMIA Annu Symp Proc - Using hierarchical mixture of experts model for fusion of outbreak detection methods. ( 0,582711325477193 )
Neural Comput - Recurrent kernel machines: computing with infinite echo state networks. ( 0,581553291101743 )
J Am Med Inform Assoc - Machine-learned solutions for three stages of clinical information extraction: the state of the art at i2b2 2010. ( 0,577516071600695 )
J Med Syst - Application of attribute weighting method based on clustering centers to discrimination of linearly non-separable medical datasets. ( 0,575225770691803 )
AMIA Annu Symp Proc - Natural language processing for lines and devices in portable chest x-rays. ( 0,573678692713779 )
J Biomed Inform - Dynamic categorization of clinical research eligibility criteria by hierarchical clustering. ( 0,572513228106318 )
Int J Med Inform - Detection of infectious symptoms from VA emergency department and primary care clinical documentation. ( 0,566556316072127 )
J Am Med Inform Assoc - MITRE system for clinical assertion status classification. ( 0,56198709294741 )
J Am Med Inform Assoc - Assessing the role of a medication-indication resource in the treatment relation extraction from clinical text. ( 0,560260509063552 )
J Chem Inf Model - New Markov-autocorrelation indices for re-evaluation of links in chemical and biological complex networks used in metabolomics, parasitology, neurosciences, and epidemiology. ( 0,559621726358354 )
J Biomed Inform - Quantifying the determinants of outbreak detection performance through simulation and machine learning. ( 0,55943132045942 )
Artif Intell Med - Automatic detection of epileptic seizures on the intra-cranial electroencephalogram of rats using reservoir computing. ( 0,558990437990398 )
J Am Med Inform Assoc - Text mining for the Vaccine Adverse Event Reporting System: medical text classification using informative feature selection. ( 0,558710044426406 )
J. Med. Internet Res. - Developing a disease outbreak event corpus. ( 0,555378336182968 )
AMIA Annu Symp Proc - Developing a section labeler for clinical documents. ( 0,554418167837251 )
AMIA Annu Symp Proc - Detecting abbreviations in discharge summaries using machine learning methods. ( 0,554254440538945 )
IEEE Trans Neural Netw Learn Syst - Improved Fault Classification in Series Compensated Transmission Line: Comparative Evaluation of Chebyshev Neural Network Training Algorithms. ( 0,554120992047862 )
J Biomed Inform - An ontology-based similarity measure for biomedical data-application to radiology reports. ( 0,552852411873793 )
J Am Med Inform Assoc - Comprehensive temporal information detection from clinical text: medical events, time, and TLINK identification. ( 0,552073551166242 )
Int J Neural Syst - Adaptive k-means algorithm for overlapped graph clustering. ( 0,55133742570156 )
J Am Med Inform Assoc - Functional evaluation of out-of-the-box text-mining tools for data-mining tasks. ( 0,550741616187041 )
J Am Med Inform Assoc - An end-to-end system to identify temporal relation in discharge summaries: 2012 i2b2 challenge. ( 0,550313809105633 )
AMIA Annu Symp Proc - Knowledge-based method for determining the meaning of ambiguous biomedical terms using information content measures of similarity. ( 0,549993427278989 )
J Biomed Inform - Evaluating measures of semantic similarity and relatedness to disambiguate terms in biomedical text. ( 0,549454710009564 )
J Am Med Inform Assoc - Evaluating temporal relations in clinical text: 2012 i2b2 Challenge. ( 0,548698192440094 )
J Biomed Inform - NCBI disease corpus: a resource for disease name recognition and concept normalization. ( 0,548635852928731 )
AMIA Annu Symp Proc - Throw the bath water out, keep the baby: keeping medically-relevant terms for text mining. ( 0,548604601883431 )
AMIA Annu Symp Proc - Extracting semantic lexicons from discharge summaries using machine learning and the C-Value method. ( 0,548511512922509 )
J Biomed Inform - Disambiguation of ambiguous biomedical terms using examples generated from the UMLS Metathesaurus. ( 0,548286786569494 )
J Am Med Inform Assoc - Knowledge-based biomedical word sense disambiguation: an evaluation and application to clinical document classification. ( 0,547928497086331 )
Comput Methods Programs Biomed - BioAnnote: a software platform for annotating biomedical documents with application in medical learning environments. ( 0,547517535916099 )
AMIA Annu Symp Proc - A literature-based assessment of concept pairs as a measure of semantic relatedness. ( 0,547204795126394 )
Int J Med Inform - Bootstrapping a de-identification system for narrative patient records: cost-performance tradeoffs. ( 0,543816891496971 )
Int J Comput Assist Radiol Surg - CT dataset anisotropy management for oral implantology planning software. ( 0,543564652586366 )
J Am Med Inform Assoc - Comparison of a semi-automatic annotation tool and a natural language processing application for the generation of clinical statement entries. ( 0,542045802148695 )
AMIA Annu Symp Proc - Using UMLS lexical resources to disambiguate abbreviations in clinical text. ( 0,542026330918715 )
J Am Med Inform Assoc - Named entity recognition of follow-up and time information in 20,000 radiology reports. ( 0,540530144101498 )
J Biomed Inform - Lessons learnt from the DDIExtraction-2013 Shared Task. ( 0,54035368651493 )
J Biomed Inform - Automatically extracting information needs from complex clinical questions. ( 0,539660748243647 )
J Am Med Inform Assoc - 2010 i2b2/VA challenge on concepts, assertions, and relations in clinical text. ( 0,538943230156023 )
AMIA Annu Symp Proc - Automated identification of medical concepts and assertions in medical text. ( 0,538255982058199 )
AMIA Annu Symp Proc - Extracting temporal information from electronic patient records. ( 0,537969145810794 )
BMC Med Inform Decis Mak - Text summarization as a decision support aid. ( 0,537929205899257 )
Int J Med Inform - Detecting temporal expressions in medical narratives. ( 0,537835983341679 )
Comput Biol Chem - Multi objective SNP selection using pareto optimality. ( 0,537776738607066 )
J Am Med Inform Assoc - Learning regular expressions for clinical text classification. ( 0,536734314281495 )
Comput Math Methods Med - Computational models of neuron-astrocyte interactions lead to improved efficacy in the performance of neural networks. ( 0,536246312462422 )
J Am Med Inform Assoc - MedXN: an open source medication extraction and normalization tool for clinical text. ( 0,53621322579465 )
Med Decis Making - Developing appropriate methods for cost-effectiveness analysis of cluster randomized trials. ( 0,535994842530302 )
J Am Med Inform Assoc - Automated concept-level information extraction to reduce the need for custom software and rules development. ( 0,534933793419809 )
Int J Health Geogr - Maximum linkage space-time permutation scan statistics for disease outbreak detection. ( 0,534092121429329 )
J Biomed Inform - Ontology-guided feature engineering for clinical text classification. ( 0,533929376174342 )
J Am Med Inform Assoc - Combining rules and machine learning for extraction of temporal expressions and events from clinical narratives. ( 0,53384977314142 )
Comput Math Methods Med - Ranking biomedical annotations with annotator's semantic relevancy. ( 0,531695515260538 )
IEEE Trans Image Process - Evaluating combinational illumination estimation methods on real-world images. ( 0,531646591989898 )
J. Comput. Biol. - Detecting non-uniform clusters in large-scale interaction graphs. ( 0,530567712974199 )
Artif Intell Med - Biomedical events extraction using the hidden vector state model. ( 0,530515274929343 )
J Biomed Inform - A concept-driven biomedical knowledge extraction and visualization framework for conceptualization of text corpora. ( 0,530251981375231 )
AMIA Annu Symp Proc - Inferring the semantic relationships of words within an ontology using random indexing: applications to pharmacogenomics. ( 0,529491505901854 )
AMIA Annu Symp Proc - Natural language processing to extract follow-up provider information from hospital discharge summaries. ( 0,528135342889587 )
Comput Methods Programs Biomed - Classifier ensemble construction with rotation forest to improve medical diagnosis performance of machine learning algorithms. ( 0,527511796701603 )
J Biomed Inform - MedTime: a temporal information extraction system for clinical narratives. ( 0,526935414404598 )
AMIA Annu Symp Proc - Generalizability and comparison of automatic clinical text de-identification methods and resources. ( 0,526783625915819 )
BMC Med Inform Decis Mak - Spatial cluster detection using dynamic programming. ( 0,526713708471787 )
J Am Med Inform Assoc - Feature engineering combined with machine learning and rule-based methods for structured information extraction from narrative clinical discharge summaries. ( 0,526507983410428 )
J Am Med Inform Assoc - Using statistical text classification to identify health information technology incidents. ( 0,52578587929659 )
Int J Health Geogr - A binary-based approach for detecting irregularly shaped clusters. ( 0,52562182742684 )
J Biomed Inform - Temporal relation discovery between events and temporal expressions identified in clinical narrative. ( 0,524854672100352 )
AMIA Annu Symp Proc - Combining corpus-derived sense profiles with estimated frequency information to disambiguate clinical abbreviations. ( 0,524278278204185 )
Methods Inf Med - A database de-identification framework to enable direct queries on medical data for secondary use. ( 0,52415211524691 )
J Chem Inf Model - Metabolism site prediction based on xenobiotic structural formulas and PASS prediction algorithm. ( 0,523566081102604 )
AMIA Annu Symp Proc - The MiPACQ clinical question answering system. ( 0,523515608118868 )
AMIA Annu Symp Proc - Pharmacovigilance on twitter? Mining tweets for adverse drug reactions. ( 0,523164856877553 )
J Biomed Inform - Towards generating a patient's timeline: extracting temporal relationships from clinical notes. ( 0,522798948716024 )