AMIA Annu Symp Proc - BIOSPIDA: A Relational Database Translator for NCBI.

Tópicos

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

Resumo

As the volume and availability of biological databases continue widespread growth, it has become increasingly difficult for research scientists to identify all relevant information for biological entities of interest. Details of nucleotide sequences, gene expression, molecular interactions, and three-dimensional structures are maintained across many different databases. To retrieve all necessary information requires an integrated system that can query multiple databases with minimized overhead. This paper introduces a universal parser and relational schema translator that can be utilized for all NCBI databases in Abstract Syntax Notation (ASN.1). The data models for OMIM, Entrez-Gene, Pubmed, MMDB and GenBank have been successfully converted into relational databases and all are easily linkable helping to answer complex biological questions. These tools facilitate research scientists to locally integrate databases from NCBI without significant workload or development time.

Resumo Limpo

volum avail biolog databas continu widespread growth becom increas difficult research scientist identifi relev inform biolog entiti interest detail nucleotid sequenc gene express molecular interact threedimension structur maintain across mani differ databas retriev necessari inform requir integr system can queri multipl databas minim overhead paper introduc univers parser relat schema translat can util ncbi databas abstract syntax notat asn data model omim entrezgen pubm mmdb genbank success convert relat databas easili linkabl help answer complex biolog question tool facilit research scientist local integr databas ncbi without signific workload develop time

Resumos Similares

Health Info Libr J - Facilitating access to evidence: Primary Health Care Search Filter. ( 0,812790444537765 )
J. Med. Internet Res. - Retrieving clinical evidence: a comparison of PubMed and Google Scholar for quick clinical searches. ( 0,805340623020346 )
J Am Med Inform Assoc - Retrieval of diagnostic and treatment studies for clinical use through PubMed and PubMed's Clinical Queries filters. ( 0,793108016632508 )
BMC Med Inform Decis Mak - CDAPubMed: a browser extension to retrieve EHR-based biomedical literature. ( 0,79022503844809 )
Telemed J E Health - MEDLINE versus EMBASE and CINAHL for telemedicine searches. ( 0,787555761537245 )
Health Info Libr J - Medical literature searches: a comparison of PubMed and Google Scholar. ( 0,783499653395552 )
AMIA Annu Symp Proc - Search filter precision can be improved by NOTing out irrelevant content. ( 0,782991404999532 )
J Integr Bioinform - The LAILAPS search engine: a feature model for relevance ranking in life science databases. ( 0,779988886285029 )
J Am Med Inform Assoc - Search filters to identify geriatric medicine in Medline. ( 0,779634699962285 )
J. Med. Internet Res. - Sensitivity and predictive value of 15 PubMed search strategies to answer clinical questions rated against full systematic reviews. ( 0,777011505725155 )
J. Med. Internet Res. - Development and validation of filters for the retrieval of studies of clinical examination from Medline. ( 0,774214620174917 )
Brief. Bioinformatics - Fast and efficient searching of biological data resources--using EB-eye. ( 0,774074398878104 )
AMIA Annu Symp Proc - Evaluation of automated term groupings for detecting anaphylactic shock signals for drugs. ( 0,773667369000525 )
J Am Med Inform Assoc - A literature search tool for intelligent extraction of disease-associated genes. ( 0,770591334497376 )
J Biomed Inform - Development and evaluation of a biomedical search engine using a predicate-based vector space model. ( 0,768300242856838 )
BMC Med Inform Decis Mak - Glomerular disease search filters for Pubmed, Ovid Medline, and Embase: a development and validation study. ( 0,761553368166431 )
J Biomed Inform - On the query reformulation technique for effective MEDLINE document retrieval. ( 0,75933507928499 )
J Am Med Inform Assoc - MEDLINE clinical queries are robust when searching in recent publishing years. ( 0,754387725152608 )
J Integr Bioinform - Classification methods for finding articles describing protein-protein interactions in PubMed. ( 0,753215663884131 )
Health Info Libr J - Utilisation of search filters in systematic reviews of prognosis questions. ( 0,752729897627743 )
Int J Health Geogr - HEALTH GeoJunction: place-time-concept browsing of health publications. ( 0,751057767333439 )
J Med Syst - MIRASS: medical informatics research activity support system using information mashup network. ( 0,750819714240886 )
J Am Med Inform Assoc - Search terms and a validated brief search filter to retrieve publications on health-related values in Medline: a word frequency analysis study. ( 0,750266529427747 )
Int J Med Inform - An analysis of clinical queries in an electronic health record search utility. ( 0,74982000265427 )
BMC Med Inform Decis Mak - Publication trends of shared decision making in 15 high impact medical journals: a full-text review with bibliometric analysis. ( 0,748364031364621 )
J Biomed Inform - MeSHy: Mining unanticipated PubMed information using frequencies of occurrences and concurrences of MeSH terms. ( 0,746240217625732 )
Methods Inf Med - Learning the preferences of physicians for the organization of result lists of medical evidence articles. ( 0,746005039812493 )
BMC Med Inform Decis Mak - Boolean versus ranked querying for biomedical systematic reviews. ( 0,745478835023059 )
J Integr Bioinform - A query suggestion workflow for life science IR-systems. ( 0,733598026574078 )
Health Info Libr J - Developing a geographic search filter to identify randomised controlled trials in Africa: finding the optimal balance between sensitivity and precision. ( 0,731778191111802 )
J Integr Bioinform - SNPRanker: a tool for identification and scoring of SNPs associated to target genes. ( 0,7306115750335 )
AMIA Annu Symp Proc - Does query expansion limit our learning? A comparison of social-based expansion to content-based expansion for medical queries on the internet. ( 0,730266671309535 )
J. Med. Internet Res. - Net improvement of correct answers to therapy questions after pubmed searches: pre/post comparison. ( 0,729956051643719 )
J Integr Bioinform - The LAILAPS search engine: relevance ranking in life science databases. ( 0,728422559851031 )
J Chem Inf Model - Efficient substructure searching of large chemical libraries: the ABCD chemical cartridge. ( 0,727060596877375 )
Health Info Libr J - The performance of adverse effects search filters in MEDLINE and EMBASE. ( 0,725549117582357 )
J. Med. Internet Res. - Definition of Health 2.0 and Medicine 2.0: a systematic review. ( 0,722677615583239 )
J. Med. Internet Res. - A search engine to access PubMed monolingual subsets: proof of concept and evaluation in French. ( 0,721028710889057 )
Health Info Libr J - Searching for randomised controlled trials and clinical controlled trials in Thai online bibliographical biomedical databases. ( 0,718066265249415 )
Health Info Libr J - Sensitivity and precision of adverse effects search filters in MEDLINE and EMBASE: a case study of fractures with thiazolidinediones. ( 0,716661754602048 )
Int J Med Inform - MEDRank: using graph-based concept ranking to index biomedical texts. ( 0,715554733502407 )
BMC Med Inform Decis Mak - BOSS: context-enhanced search for biomedical objects. ( 0,714394083543513 )
J Telemed Telecare - How to improve your PubMed/MEDLINE searches: 1. background and basic searching. ( 0,711735996962921 )
J Am Med Inform Assoc - Clinical research data warehouse governance for distributed research networks in the USA: a systematic review of the literature. ( 0,703628643095234 )
Health Info Libr J - Assessment of indexing trends with specific and general terms for herbal medicine. ( 0,702317490147148 )
BMC Med Inform Decis Mak - Performance evaluation of Unified Medical Language System?'s synonyms expansion to query PubMed. ( 0,700546986815711 )
J Am Med Inform Assoc - Federated queries of clinical data repositories: the sum of the parts does not equal the whole. ( 0,699741780781549 )
J Biomed Inform - Improving search over Electronic Health Records using UMLS-based query expansion through random walks. ( 0,696091082681043 )
J Chem Inf Model - Speeding up chemical searches using the inverted index: the convergence of chemoinformatics and text search methods. ( 0,695515039101382 )
Methods Inf Med - Developing topic-specific search filters for PubMed with click-through data. ( 0,689673429267159 )
J Biomed Inform - A semi-supervised approach to extract pharmacogenomics-specific drug-gene pairs from biomedical literature for personalized medicine. ( 0,689182215868269 )
J Biomed Inform - A mutation-centric approach to identifying pharmacogenomic relations in text. ( 0,687896544859981 )
Methods Inf Med - A survey on visual information search behavior and requirements of radiologists. ( 0,685221944150356 )
Inform Health Soc Care - Readability of online health information: implications for health literacy. ( 0,682723500995731 )
IEEE Trans Vis Comput Graph - WORDGRAPH: Keyword-in-Context Visualization for NETSPEAK's Wildcard Search. ( 0,681776373986895 )
J Biomed Inform - Predicting microRNA modulation in human prostate cancer using a simple String IDentifier (SID1.0). ( 0,67944534602538 )
J Am Med Inform Assoc - Design and usability study of an iconic user interface to ease information retrieval of medical guidelines. ( 0,678481570688827 )
J. Med. Internet Res. - Using Internet search engines to obtain medical information: a comparative study. ( 0,677232487122932 )
J Chem Inf Model - Chemical and biological properties of frequent screening hits. ( 0,672275043555971 )
AMIA Annu Symp Proc - A bottom-up approach to MEDLINE indexing recommendations. ( 0,66941286497346 )
Perspect Health Inf Manag - Risk factors for bladder cancer: challenges of conducting a literature search using PubMed. ( 0,66896516985296 )
J Am Med Inform Assoc - A practical approach to achieve private medical record linkage in light of public resources. ( 0,668742114625595 )
J Am Med Inform Assoc - Automatically extracting sentences from Medline citations to support clinicians' information needs. ( 0,666069001680786 )
AMIA Annu Symp Proc - Query log analysis of an electronic health record search engine. ( 0,663956522597787 )
J Integr Bioinform - GMB: an efficient query processor for biological data. ( 0,660683160892261 )
J Biomed Inform - Reflective random indexing for semi-automatic indexing of the biomedical literature. ( 0,656017939535573 )
J Biomed Inform - Using statistical text mining to supplement the development of an ontology. ( 0,655715114632711 )
AMIA Annu Symp Proc - Finding and accessing diagrams in biomedical publications. ( 0,653969157527125 )
Int J Med Inform - The publication echo: effects of retrieving literature in PubMed by year of publication. ( 0,652542923832671 )
J Am Med Inform Assoc - Directing the public to evidence-based online content. ( 0,651520758572709 )
AMIA Annu Symp Proc - Using Co-Authoring and Cross-Referencing Information for MEDLINE Indexing. ( 0,650568143974536 )
J Am Med Inform Assoc - Improving image retrieval effectiveness via query expansion using MeSH hierarchical structure. ( 0,64420890510362 )
Health Info Libr J - Can we prioritise which databases to search? A case study using a systematic review of frozen shoulder management. ( 0,643851952115521 )
AMIA Annu Symp Proc - MeSH term explosion and author rank improve expert recommendations. ( 0,640967427365611 )
Methods Inf Med - Technology-induced errors. The current use of frameworks and models from the biomedical and life sciences literatures. ( 0,638445119228026 )
J Biomed Inform - A comparison of evaluation metrics for biomedical journals, articles, and websites in terms of sensitivity to topic. ( 0,635925054665232 )
J Biomed Inform - Knowledge-based personalized search engine for the Web-based Human Musculoskeletal System Resources (HMSR) in biomechanics. ( 0,634603712903806 )
J Biomed Inform - Supporting effective health and biomedical information retrieval and navigation: a novel facet view interface evaluation. ( 0,634319365058444 )
J. Med. Internet Res. - Clinician search behaviors may be influenced by search engine design. ( 0,63003955108691 )
Brief. Bioinformatics - Comparability and reproducibility of biomedical data. ( 0,628219879479083 )
AMIA Annu Symp Proc - Development and evaluation of a prototype search engine to meet public health information needs. ( 0,627428189406654 )
Res Synth Methods - Comprehensive computer searches and reporting in systematic reviews. ( 0,625298442892191 )
Appl Clin Inform - Usability of selected databases for low-resource clinical decision support. ( 0,620030902968098 )
AMIA Annu Symp Proc - An automated approach for ranking journals to help in clinician decision support. ( 0,619352384506548 )
Brief. Bioinformatics - Biological network extraction from scientific literature: state of the art and challenges. ( 0,614400410483026 )
J. Med. Internet Res. - The impact of search engine selection and sorting criteria on vaccination beliefs and attitudes: two experiments manipulating Google output. ( 0,612213707958476 )
J Biomed Inform - Improving MeSH classification of biomedical articles using citation contexts. ( 0,610556698288298 )
IEEE Trans Pattern Anal Mach Intell - IntentSearch: Capturing User Intention for One-Click Internet Image Search. ( 0,610293557537079 )
J. Med. Internet Res. - Automatic evidence retrieval for systematic reviews. ( 0,609962867674504 )
J Am Med Inform Assoc - PhenDisco: phenotype discovery system for the database of genotypes and phenotypes. ( 0,60978039788204 )
J Biomed Inform - Small sum privacy and large sum utility in data publishing. ( 0,608897278595925 )
Comput Methods Programs Biomed - METRADISC-XL: a program for meta-analysis of multidimensional ranked discovery oriented datasets including microarrays. ( 0,608634474425876 )
BMC Med Inform Decis Mak - How are the different specialties represented in the major journals in general medicine? ( 0,607365685969811 )
AMIA Annu Symp Proc - Deterministic binary vectors for efficient automated indexing of MEDLINE/PubMed abstracts. ( 0,601903597771716 )
J. Med. Internet Res. - Comparative analysis of online health queries originating from personal computers and smart devices on a consumer health information portal. ( 0,601059273232768 )
J. Med. Internet Res. - A study of innovative features in scholarly open access journals. ( 0,5992654367193 )
Med Decis Making - How do physicians provide statistical information about antidepressants to hypothetical patients? ( 0,599130621940554 )
AMIA Annu Symp Proc - Web to world: predicting transitions from self-diagnosis to the pursuit of local medical assistance in web search. ( 0,599049193931003 )
Res Synth Methods - Inquisitio validus Index Medicus: A simple method of validating MEDLINE systematic review searches. ( 0,598572007555624 )
BMC Med Inform Decis Mak - A method for encoding clinical datasets with SNOMED CT. ( 0,59825173370189 )