Sci Data - Assessment of lipidomic species in hepatocyte lipid droplets from stressed mouse models.

Tópicos

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

Resumo

Lipid droplets are considered to be the hub for storage and metabolism of cellular lipids. In previous work we have phenotyped the lipidome of murine hepatocyte lipid droplets using liquid chromatography-mass spectrometry (UHPLC-MS) plus integrated MS/MS, followed by automatic analysis of the MS data. The organelles were isolated after intervention studies involving nutritional stress (extended feeding of a high fat diet or short term fasting), genetic stress due to knock-out of adipocyte triglyceride lipase, or by combined application of nutritional and genetic stress together ('super stress'). Lipidomics at the level of lipid species (profiling of lipid classes) and lipid molecular species (structural analysis in parallel) has unraveled clear lipid droplet phenotypes as judged by patterns seen best in triacylglycerol (TG) lipidomes, but also in diacylglycerol and phosphatidylcholine lipidomes. The combined view of these data presented here validates the methods used and provides high quality lipidomic data for further bioinformatic inspections. Examples are given for identification of TG species subsets considered surrogates for whole TG lipidomes.

Resumo Limpo

lipid droplet consid hub storag metabol cellular lipid previous work phenotyp lipidom murin hepatocyt lipid droplet use liquid chromatographymass spectrometri uhplcm plus integr msms follow automat analysi ms data organell isol intervent studi involv nutrit stress extend feed high fat diet short term fast genet stress due knockout adipocyt triglycerid lipas combin applic nutrit genet stress togeth super stress lipidom level lipid speci profil lipid class lipid molecular speci structur analysi parallel unravel clear lipid droplet phenotyp judg pattern seen best triacylglycerol tg lipidom also diacylglycerol phosphatidylcholin lipidom combin view data present valid method use provid high qualiti lipidom data bioinformat inspect exampl given identif tg speci subset consid surrog whole tg lipidom

Resumos Similares

J. Comput. Biol. - A topology-based score for pathway enrichment. ( 0,804948986118289 )
J Integr Bioinform - Profiling of genetic switches using boolean implications in expression data. ( 0,799890435361956 )
Comput Biol Chem - Using volcano plots and regularized-chi statistics in genetic association studies. ( 0,799802933824067 )
Brief. Bioinformatics - Identifying miRNAs, targets and functions. ( 0,792646573577422 )
Artif Intell Med - An extensive analysis of disease-gene associations using network integration and fast kernel-based gene prioritization methods. ( 0,792162413195215 )
Comput Math Methods Med - Dynamic regulatory network reconstruction for Alzheimer's disease based on matrix decomposition techniques. ( 0,792162382909438 )
Wiley Interdiscip Rev Syst Biol Med - Systems biology of adipose tissue metabolism: regulation of growth, signaling and inflammation. ( 0,79051245379843 )
J. Comput. Biol. - Biological cluster evaluation for gene function prediction. ( 0,789866619708132 )
Comput Biol Chem - Meta-analysis of microarray data: The case of imatinib resistance in chronic myelogenous leukemia. ( 0,788849113724403 )
J Am Med Inform Assoc - Identifying disease genes and module biomarkers by differential interactions. ( 0,784232056784756 )
J Integr Bioinform - A study of the short and long-term regulation of E. coli metabolic pathways. ( 0,781591716516801 )
Comput. Biol. Med. - Nonlinear dimensionality reduction of gene expression data for visualization and clustering analysis of cancer tissue samples. ( 0,778270324493089 )
J. Comput. Biol. - Stochastic simulation of notch signaling reveals novel factors that mediate the differentiation of neural stem cells. ( 0,777736729578544 )
J Biomed Inform - Comparative analysis of a novel disease phenotype network based on clinical manifestations. ( 0,777018218012737 )
Comput Math Methods Med - Understanding the pathogenesis of Kawasaki disease by network and pathway analysis. ( 0,774531043293398 )
Wiley Interdiscip Rev Syst Biol Med - Diverse functional networks of Tbx3 in development and disease. ( 0,772143066576668 )
Comput Math Methods Med - First comprehensive in silico analysis of the functional and structural consequences of SNPs in human GalNAc-T1 gene. ( 0,771622797222166 )
Comput Biol Chem - Identifying novel prostate cancer associated pathways based on integrative microarray data analysis. ( 0,771408717355608 )
J. Comput. Biol. - A stationary wavelet entropy-based clustering approach accurately predicts gene expression. ( 0,766652960767391 )
Wiley Interdiscip Rev Syst Biol Med - Stem cell genome-to-systems biology. ( 0,766541530638573 )
Comput Biol Chem - In silico analysis of cis-acting regulatory elements in 5' regulatory regions of sucrose transporter gene families in rice (Oryza sativa Japonica) and Arabidopsis thaliana. ( 0,763322804543394 )
Wiley Interdiscip Rev Syst Biol Med - Noncoding RNAs in gene regulation. ( 0,762053037665204 )
J Integr Bioinform - An integrative bioinformatics framework for genome-scale multiple level network reconstruction of rice. ( 0,761358715424014 )
Wiley Interdiscip Rev Syst Biol Med - Where gene discovery turns into systems biology: genome-scale RNAi screens in Drosophila. ( 0,761240153824563 )
Comput. Biol. Med. - Multi-stage filtering for improving confidence level and determining dominant clusters in clustering algorithms of gene expression data. ( 0,761208206836549 )
J Am Med Inform Assoc - Extracting coordinated patterns of DNA methylation and gene expression in ovarian cancer. ( 0,759282794053116 )
J Am Med Inform Assoc - An integrated approach to identify causal network modules of complex diseases with application to colorectal cancer. ( 0,759235582109925 )
Brief. Bioinformatics - Revealing the architecture of genetic and epigenetic regulation: a maximum likelihood model. ( 0,756039036713464 )
J Biomed Inform - Systems-based biological concordance and predictive reproducibility of gene set discovery methods in cardiovascular disease. ( 0,755305427365046 )
IEEE J Biomed Health Inform - Using evolutional properties of gene networks in understanding survival prognosis of glioblastoma. ( 0,753806946304568 )
Comput Biol Chem - Disruption of murine Tcte3-3 induces tissue specific apoptosis via co-expression of Anxa5 and Pebp1. ( 0,753469935276202 )
Comput Biol Chem - Bioinformatic analysis of molecular network of glucosinolate biosynthesis. ( 0,752219834784461 )
J. Comput. Biol. - Bioinformatics method to analyze the mechanism of pancreatic cancer disorder. ( 0,751801067763328 )
J. Comput. Biol. - Markov logic networks in the analysis of genetic data. ( 0,751061888083494 )
J. Comput. Biol. - Vavien: an algorithm for prioritizing candidate disease genes based on topological similarity of proteins in interaction networks. ( 0,749228176491628 )
Comput. Biol. Med. - Identification and analysis of the regulatory network of Myc and microRNAs from high-throughput experimental data. ( 0,748558264007398 )
J Biomed Inform - Gene pathways and subnetworks distinguish between major glioma subtypes and elucidate potential underlying biology. ( 0,748538475812341 )
AMIA Annu Symp Proc - Mining disease fingerprints from within genetic pathways. ( 0,748422414076094 )
Wiley Interdiscip Rev Syst Biol Med - Mediators and dynamics of DNA methylation. ( 0,747841716061829 )
Artif Intell Med - Self-focusing therapeutic gene delivery with intelligent gene vector swarms: intra-swarm signalling through receptor transgene expression in targeted cells. ( 0,747259697588294 )
Artif Intell Med - Identifying regulatory relationships among genomic loci, biological pathways, and disease. ( 0,747018242361917 )
J Integr Bioinform - Knowledge enrichment analysis for human tissue-specific genes uncover new biological insights. ( 0,744768313177242 )
Sci Data - DNA methylation temporal profiling following peripheral versus central nervous system axotomy. ( 0,744567198578547 )
J Am Med Inform Assoc - Advantages of genomic complexity: bioinformatics opportunities in microRNA cancer signatures. ( 0,743647612180134 )
J. Comput. Biol. - An algorithm for efficient identification of branched metabolic pathways. ( 0,743611740170097 )
Wiley Interdiscip Rev Syst Biol Med - Integrating omics into the cardiac differentiation of human pluripotent stem cells. ( 0,742612877910981 )
Wiley Interdiscip Rev Syst Biol Med - Postgenomic technologies targeting the Wnt signaling network. ( 0,740925628373507 )
Comput. Biol. Med. - Exploring correlations in gene expression microarray data for maximum predictive-minimum redundancy biomarker selection and classification. ( 0,740891614949149 )
Comput Biol Chem - Large-scale mining co-expressed genes in Arabidopsis anther: from pair to group. ( 0,739706085727326 )
Comput. Biol. Med. - Impact of TGF-b on breast cancer from a quantitative proteomic analysis. ( 0,738720398009956 )
Comput. Biol. Med. - Revealing pathway maps of renal cell carcinoma by gene expression change. ( 0,737967530142995 )
Comput. Biol. Med. - Computational gene network study on antibiotic resistance genes of Acinetobacter baumannii. ( 0,737183610095739 )
Wiley Interdiscip Rev Syst Biol Med - Sex and the circuitry: progress toward a systems-level understanding of vertebrate sex determination. ( 0,735764149211883 )
Wiley Interdiscip Rev Syst Biol Med - Using variability in gene expression as a tool for studying gene regulation. ( 0,735691246881635 )
J Integr Bioinform - Towards prediction and prioritization of disease genes by the modularity of human phenome-genome assembled network. ( 0,735541050679418 )
J Biomed Inform - Structural network analysis of biological networks for assessment of potential disease model organisms. ( 0,735396332639376 )
Wiley Interdiscip Rev Syst Biol Med - Bioimage informatics for understanding spatiotemporal dynamics of cellular processes. ( 0,735272860023769 )
Artif Intell Med - Hybrid genetic algorithm-neural network: feature extraction for unpreprocessed microarray data. ( 0,735011338100749 )
Brief. Bioinformatics - Similarity of markers identified from cancer gene expression studies: observations from GEO. ( 0,734405503788043 )
Wiley Interdiscip Rev Syst Biol Med - Signaling networks in palate development. ( 0,733514913238792 )
J Integr Bioinform - Uncovering the expression patterns of chimeric transcripts using surveys of affymetrix GeneChips. ( 0,733148264542259 )
Wiley Interdiscip Rev Syst Biol Med - Understanding multimodal biological decisions from single cell and population dynamics. ( 0,732241254476792 )
J Integr Bioinform - Assembling cell context-specific gene sets: a case in cardiomyopathy. ( 0,731640153331993 )
Comput Biol Chem - Statistical analysis of combinatorial transcriptional regulatory motifs in human intron-containing promoter sequences. ( 0,731222413329226 )
Wiley Interdiscip Rev Syst Biol Med - Network biology: a direct approach to study biological function. ( 0,729291634446976 )
Wiley Interdiscip Rev Syst Biol Med - Using a systems biology approach to understand and study the mechanisms of metastasis. ( 0,728462355115 )
Comput Math Methods Med - Integrating gene expression and protein interaction data for signaling pathway prediction of Alzheimer's disease. ( 0,728427622373782 )
AMIA Annu Symp Proc - Towards mechanism classifiers: expression-anchored Gene Ontology signature predicts clinical outcome in lung adenocarcinoma patients. ( 0,728371322677213 )
Comput. Biol. Med. - Degrees of separation as a statistical tool for evaluating candidate genes. ( 0,728297839989417 )
Wiley Interdiscip Rev Syst Biol Med - miRNA regulation in the context of functional protein networks: principles and applications. ( 0,728270848139908 )
Brief. Bioinformatics - Learning transcriptional regulation on a genome scale: a theoretical analysis based on gene expression data. ( 0,725968058108149 )
AMIA Annu Symp Proc - A fast algorithm for learning epistatic genomic relationships. ( 0,725233196496247 )
J Biomed Inform - The detection of risk pathways, regulated by miRNAs, via the integration of sample-matched miRNA-mRNA profiles and pathway structure. ( 0,724650624221277 )
J Am Med Inform Assoc - Utility of gene-specific algorithms for predicting pathogenicity of uncertain gene variants. ( 0,722148525920415 )
Brief. Bioinformatics - A quantitative model of transcriptional differentiation driving host-pathogen interactions. ( 0,721590959134225 )
Comput. Biol. Med. - CAM: a web tool for combining array CGH and microarray gene expression data from multiple samples. ( 0,721497334952503 )
Comput Biol Chem - Expression patterns of photoperiod and temperature regulated heading date genes in Oryza sativa. ( 0,720996293228488 )
Wiley Interdiscip Rev Syst Biol Med - Recent advances in prostate development and links to prostatic diseases. ( 0,720633407553132 )
Comput. Biol. Med. - Network-based approach reveals Y chromosome influences prostate cancer susceptibility. ( 0,719760264619156 )
Comput Biol Chem - Using gene expression programming to infer gene regulatory networks from time-series data. ( 0,719583091046305 )
J Am Med Inform Assoc - Knowledge boosting: a graph-based integration approach with multi-omics data and genomic knowledge for cancer clinical outcome prediction. ( 0,718874043083493 )
J Biomed Inform - Enabling enrichment analysis with the Human Disease Ontology. ( 0,718241340014398 )
J. Comput. Biol. - Computational disease gene prioritization: an appraisal. ( 0,717790595789867 )
Comput. Biol. Med. - Mathematical modeling and sensitivity analysis of the integrated TNFa-mediated apoptotic pathway for identifying key regulators. ( 0,716893391203163 )
J Biomed Inform - Prioritization of potential candidate disease genes by topological similarity of protein-protein interaction network and phenotype data. ( 0,716824226864482 )
J Integr Bioinform - Network expansion and pathway enrichment analysis towards biologically significant findings from microarrays. ( 0,716751779622874 )
Comput Biol Chem - Ped_Outlier software for automatic identification of within-family outliers. ( 0,716300183361186 )
Wiley Interdiscip Rev Syst Biol Med - Regulatory variation: an emerging vantage point for cancer biology. ( 0,715967397737311 )
Comput Biol Chem - Sparse regularized discriminant analysis with application to microarrays. ( 0,715586669037255 )
Wiley Interdiscip Rev Syst Biol Med - Establishing the stem cell state: insights from regulatory network analysis of blood stem cell development. ( 0,71551037445948 )
J Biomed Inform - Independent component analysis: mining microarray data for fundamental human gene expression modules. ( 0,715151718994378 )
J Am Med Inform Assoc - Network models of genome-wide association studies uncover the topological centrality of protein interactions in complex diseases. ( 0,714026594085111 )
Brief. Bioinformatics - How to cluster gene expression dynamics in response to environmental signals. ( 0,713532152396902 )
J Am Med Inform Assoc - Complex-disease networks of trait-associated single-nucleotide polymorphisms (SNPs) unveiled by information theory. ( 0,711977235586016 )
Comput Biol Chem - In silico identification of conserved microRNAs and their target transcripts from expressed sequence tags of three earthworm species. ( 0,711546612000928 )
Comput Biol Chem - Genomic studies on nitrogen metabolism in Halomonas boliviensis: metabolic pathway, biochemistry and evolution. ( 0,711428145843816 )
Methods Inf Med - Pathway based microarray analysis, utilising enzyme compounds and cascade events. ( 0,711276039157232 )
Brief. Bioinformatics - A brief introduction to web-based genome browsers. ( 0,710898877163409 )
Brief. Bioinformatics - Evolution of gene regulation--on the road towards computational inferences. ( 0,710594384902669 )
Comput Biol Chem - Revealing weak differential gene expressions and their reproducible functions associated with breast cancer metastasis. ( 0,710068715952798 )