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Dependence network modeling for biomarker identification.
Qiu P, Wang ZJ, Liu KJ, Hu ZZ, Wu CH. Qiu P, et al. Bioinformatics. 2007 Jan 15;23(2):198-206. doi: 10.1093/bioinformatics/btl553. Epub 2006 Oct 31. Bioinformatics. 2007. PMID: 17077095
Dependence networks are constructed by binding triples identified by the eigenvalue pattern of the dependence model, and are further compared to identify cancer biomarkers. Such dependence-network-based biomarkers show much
Dependence networks are constructed by binding triples identified by the eigenvalue pattern of the dependence model
Identification of biomarkers associated with diagnosis and prognosis of colorectal cancer patients based on integrated bioinformatics analysis.
Chen L, Lu D, Sun K, Xu Y, Hu P, Li X, Xu F. Chen L, et al. Gene. 2019 Apr 15;692:119-125. doi: 10.1016/j.gene.2019.01.001. Epub 2019 Jan 14. Gene. 2019. PMID: 30654001
RESULTS: Integrated analysis of GEO and TCGA databases revealed 207 common DEGs in CRC. A PPI network consisted of 70 nodes and 170 edges were constructed and top 10 hub genes were identified. ...A prognostic gene signature consisted of 9 genes including SLC4A4, NFE2L3, GL …
RESULTS: Integrated analysis of GEO and TCGA databases revealed 207 common DEGs in CRC. A PPI network consisted of 70 nodes and 170 e …
36th International Symposium on Intensive Care and Emergency Medicine : Brussels, Belgium. 15-18 March 2016.
Bateman RM, Sharpe MD, Jagger JE, Ellis CG, Solé-Violán J, López-Rodríguez M, Herrera-Ramos E, Ruíz-Hernández J, Borderías L, Horcajada J, González-Quevedo N, Rajas O, Briones M, Rodríguez de Castro F, Rodríguez Gallego C, Esen F, Orhun G, Ergin Ozcan P, Senturk E, Ugur Yilmaz C, Orhan N, Arican N, Kaya M, Kucukerden M, Giris M, Akcan U, Bilgic Gazioglu S, Tuzun E, Riff R, Naamani O, Douvdevani A, Takegawa R, Yoshida H, Hirose T, Yamamoto N, Hagiya H, Ojima M, Akeda Y, Tasaki O, Tomono K, Shimazu T, Ono S, Kubo T, Suda S, Ueno T, Ikeda T, Hirose T, Ogura H, Takahashi H, Ojima M, Kang J, Nakamura Y, Kojima T, Shimazu T, Ikeda T, Suda S, Izutani Y, Ueno T, Ono S, Taniguchi T, O M, Dinter C, Lotz J, Eilers B, Wissmann C, Lott R, Meili MM, Schuetz PS, Hawa H, Sharshir M, Aburageila M, Salahuddin N, Chantziara V, Georgiou S, Tsimogianni A, Alexandropoulos P, Vassi A, Lagiou F, Valta M, Micha G, Chinou E, Michaloudis G, Kodaira A, Ikeda T, Ono S, Ueno T, Suda S, Izutani Y, Imaizumi H, De la Torre-Prados MV, Garcia-De la Torre A, Enguix-Armada A, Puerto-Morlan A, Perez-Valero V, Garcia-Alcantara A, Bolton N, Dudziak J, Bonney S, Tridente A, Nee P, Nicolaes G, Wiewel M, Schultz M, Wildhagen K, Horn J, Schrijver R, Van der Poll T, Reutelingsperger C, Pillai S, Davies G, Mills G, Aubrey R, Morris K, Williams P, Evans P, Gayat EG, Struck J, Cariou A, Deye N, Guidet B, Jabert S, Launay J, Legrand M, Léone M, Resche-Rigon M, Vicaut E, Vieillard-Baron A, Mebazaa A, Arnold R, Capan M, Linder A, Akesson P, Popescu M, Tomescu D, Sprung CL, Calderon Morales R, Munteanu G, Orenbuch-Harroch E, Levin P, Kasdan H, Reiter A, Volker T, Himmel Y, Cohen Y, Meissonnier J, Girard L, Rebeaud F, Herrmann I, Delwarde B, Peronnet E, Cerrato E, Venet F, Lepape A, Rimmelé T, Monneret G, Textoris J, Beloborodova N, Moroz V, Osipov A, Bedova A, Sarshor Y, Pautova A, Sergeev A, Chernevskaya E, Odermatt J, Bolliger R, Hersberger L, Ottiger M, Christ-Crain M, Mueller B, Schuetz P, Sharma NK, Tashima AK, Brunialti MK, Machado FR, Assuncao M, Rigato O, Salomao R, Cajander SC, Rasmussen G, Tina E, Söderquist B, Källman J, Strålin K, Lange AL, Sundén-Cullberg JS, Magnuson AM, Hultgren OH, Davies G, Pillai S, Mills G, Aubrey R, Morris K, Williams P, Evans P, Pillai S, Davies G, Mills G, Aubrey R, Morris K, Williams P, Evans P, Pillai S, Davies G, Mills G, Aubrey R, Morris K, Williams P, Evans P, Van der Geest P, Mohseni M, Linssen J, De Jonge R, Duran S, Groeneveld J, Miller R III, Lopansri BK, McHugh LC, Seldon A, Burke JP, Johnston J, Reece-Anthony R, Bond A, Molokhia A, Mcgrath C, Nsutebu E, Bank Pedersen P, Pilsgaard Henriksen D, Mikkelsen S, Touborg Lassen A, Tincu R, Cobilinschi C, Tomescu D, Ghiorghiu Z, Macovei R, Wiewel MA, Harmon MB, Van Vught LA, Scicluna BP, Hoogendijk AJ, Horn J, Zwinderman AH, Cremer OL, Bonten MJ, Schultz MJ, Van der Poll T, Juffermans NP, Wiersinga WJ, Eren G, Tekdos Y, Dogan M, Acicbe O, Kaya E, Hergunsel O, Alsolamy S, Ghamdi G, Alswaidan L, Alharbi S, Alenezi F, Arabi Y, Heaton J, Boyce A, Nolan L, Johnston J, Dukoff-Gordon A, Dean A, Molokhia A, Mann Ben Yehudah T, Fleischmann C, Thomas-Rueddel D, Haas C, Dennler U, Reinhart K, Suntornlohanakul O, Khwannimit B, Breckenridge F, Puxty A, Szturz P, Folwarzcny P, Svancara J, Kula R, Sevcik P, Caneva L, Casazza A, Bellazzi E, Marra S, Pagani L, Vetere M, Vanzino R, Ciprandi D, Preda R, Boschi R, Carnevale L, Lopez V, Aguilar Arzapalo M, Barradas L, Escalante A, Gongora J, Cetina M, Adamik B, Jakubczyk D, Kübler A, Radford A, Lee T, Singer J, Boyd J, Fineberg D, Williams M, Russell J, Scarlatescu E, Tomescu D, Droc G, Arama S, Müller M, Straat M, Zeerleder SS, Juffermans NP, Fuchs CF, Scheer CS, Wauschkuhn SW, Vollmer MV, Meissner KM, Kuhn SK, Hahnenkamp KH, Rehberg SR, Gründling MG, Yamamoto N, Ojima M, Hamaguchi S, Hirose T, Akeda Y, Takegawa R, Tasaki O, Shimazu T, Tomono K, Gómez-Sánchez E, Heredia-Rodríguez M, Álvarez-Fuente E, Lorenzo-López M, Gómez-Pesquera E, Aragón-Camino M, Liu-Zhu P, Sánchez-López A, Hernández-Lozano A, Peláez-Jareño MT, Tamayo E, Thomas-Rüddel DO, Fleischmann C, Haas C, Dennler U, Reinhart K, Adora V, Kar A, Chakraborty A, Roy S, Bandyopadhyay A, Das M, Mann Ben Yehudah T, BenYehudah G, Salim M, Kumar N, Arabi L, Burger T, Lephart P, Toth-martin E, Valencia C, Hammami N, Blot S, Vincent JL, Lambert ML, Brunke J, Riemann T, Roschke I, Tincu R, Cobilinschi C, Tomescu D, Ghiorghiu Z, Macovei R, Nimitvilai S, Jintanapramote K, Jarupongprapa S, Adukauskiene D, Valanciene D, Bose G, Lostarakos V, Carr B, Khedher S, Maaoui A, Ezzamouri A, Salem M, Chen J, Cranendonk DR, Van Vught LA, Wiewel MA, Cremer OL, Horn J, Bonten MJ, Schultz MJ, Van der Poll T, Wiersinga WJ, Day M, Penrice G, Roy K, Robertson P, Godbole G, Jones B, Booth M, Donaldson L, Kawano Y, Ishikura H, Al-Dorzi H, Almutairi M, Alhamadi B, Crizaldo Toledo A, Khan R, Al Raiy B, Arabi Y, Talaie H, Van Oers JA, Harts A, Nieuwkoop E, Vos P, Boussarsar Y, Boutouta F, Kamoun S, Mezghani I, Koubaji S, Ben Souissi A, Riahi A, Mebazaa MS, Giamarellos-Bourboulis E, Tziolos N, Routsi C, Katsenos C, Tsangaris I, Pneumatikos I, Vlachogiannis G, Theodorou V, Prekates A, Antypa E, Koulouras V, Kapravelos N, Gogos C, Antoniadou E, Mandragos K, Armaganidis A, Robles Caballero AR, Civantos B, Figueira JC, López J, Silva-Pinto A, Ceia F, Sarmento A, Santos L, Almekhlafi G, Sakr Y, Al-Dorzi H, Khan R, Baharoon S, Aldawood A, Matroud A, Alchin J, Al Johani S, Balkhy H, Arabi Y, Alsolamy S, Yousif SY, Alotabi BO, Alsaawi AS, Ang J, Curran MD, Enoch D, Navapurkar V, Morris A, Sharvill R, Astin J, Heredia-Rodríguez M, Gómez-Sánchez E, Peláez-Jareño MT, Gómez-Pesquera E, Lorenzo-López M, Liu-Zhu P, Aragón-Camino M, Hernández-Lozano A, Sánchez-López A, Álvarez-Fuente E, Tamayo E, Patel J, Kruger C, O’Neal J, Rhodes H, Jancik J, François B, Laterre PF, Eggimann P, Torres A, Sánchez M, Dequin PF, Bassi GL, Chastre J, Jafri HS, Ben Romdhane M, Douira Z, Kamoun S, Bousselmi M, Ben Souissi A, Boussarsar Y, Riahi A, Mebazaa MS, Vakalos A, Avramidis V, Craven TH, Wojcik G, Kefala K, McCoubrey J, Reilly J, Paterson R, Inverarity D, Laurenson I, Walsh TS, Mongodi S, Bouhemad B, Orlando A, Stella A, Via G, Iotti G, Braschi A, Mojoli F, Haliloglu M, Bilgili B, Kasapoglu U, Sayan I, Süzer Aslan M, Yalcın A, Cinel I, Vakalos A, Avramidis V, Ellis HE, Bauchmuller K, Miller D, Temple A, Chastre J, François B, Torres A, Luyt CE, Sánchez M, Singer M, Jafri HS, Nassar Y, Ayad MS, Trifi A, Abdellatif S, Daly F, Nasri R, Ben Lakhal S, Bilgili B, Haliloglu M, Gul F, Cinel I, Kuzovlev A, Shabanov A, Polovnikov S, Moroz V, Kadrichu N, Dang T, Corkery K, Challoner P, Bassi GL, Aguilera E, Chiurazzi C, Travierso C, Motos A, Fernandez L, Amaro R, Senussi T, Idone F, Bobi J, Rigol M, Torres A, Hodiamont CJ, Juffermans NP, Janssen JM, Bouman CS, Mathôt RA, De Jong MD, Van Hest RM, Payne L, Fraser GL, Tudor B, Lahner M, Roth G, Krenn C, Talaie H, Jault P, Gabard J, Leclerc T, Jennes S, Que Y, 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S, Daly F, Nasri R, Ben Lakhal S, Paramba F, Purayil N, Naushad V, Mohammad O, Negi V, Chandra P, Kleinsasser A, Witrz MR, Buchner-Doeven JF, Tuip-de Boer AM, Goslings JC, Juffermans NP, Van Hezel M, Straat M, Boing A, Van Bruggen R, Juffermans N, Markopoulou D, Venetsanou K, Kaldis V, Koutete D, Chroni D, Alamanos I, Koch L, Jancik J, Rhodes H, Walter E, Maekawa K, Hayakawa M, Kushimoto S, Shiraishi A, Kato H, Sasaki J, Ogura H, Matauoka T, Uejima T, Morimura N, Ishikura H, Hagiwara A, Takeda M, Tarabrin O, Shcherbakow S, Gavrychenko D, Mazurenko G, Ivanova V, Chystikov O, Plourde C, Lessard J, Chauny J, Daoust R, Shcherbakow S, Tarabrin O, Gavrychenko D, Mazurenko G, Chystikov O, Vakalos A, Avramidis V, Kropman L, In het Panhuis L, Konings J, Huskens D, Schurgers E, Roest M, De Laat B, Lance M, Durila M, Lukas P, Astraverkhava M, Jonas J, Budnik I, Shenkman B, Hayami H, Koide Y, Goto T, Iqbal R, Alhamdi Y, Venugopal N, Abrams S, Downey C, Toh CH, Welters ID, Bombay VB, Chauny JM, Daoust RD, Lessard JL, Marquis MM, Paquet JP, Siemens K, Sangaran D, Hunt BJ, Durward A, Nyman A, Murdoch IA, Tibby SM, Ampatzidou F, Moisidou D, Dalampini E, Nastou M, Vasilarou E, Kalaizi V, Chatzikostenoglou H, Drossos G, Spadaro S, Fogagnolo A, Fiore T, Schiavi A, Fontana V, Taccone F, Volta C, Chochliourou E, Volakli E, Violaki A, Samkinidou E, Evlavis G, Panagiotidou V, Sdougka M, Mothukuri R, Battle C, Guy K, Mills G, Evans P, Wijesuriya J, Keogh S, Docherty A, O’Donnell R, Brunskill S, Trivella M, Doree C, Holst L, Parker M, Gregersen M, Almeida J, Walsh T, Stanworth S, Moravcova S, Mansell J, Rogers A, Smith RA, Hamilton-Davies C, Omar A, Allam M, Bilala O, Kindawi A, Ewila H, Ampatzidou F, Moisidou D, Nastou M, Dalampini E, Malamas A, Vasilarou E, Drossos G, Ferreira G, Caldas J, Fukushima J, Osawa EA, Arita E, Camara L, Zeferino S, Jardim J, Gaioto F, Dallan L, Jatene FB, Kalil Filho R, Galas F, Hajjar LA, Mitaka C, Ohnuma T, Murayama T, Kunimoto F, Nagashima M, Takei T, Tomita M, Omar A, Mahmoud K, Hanoura S, Sudarsanan S, Sivadasan P, Othamn H, Shouman Y, Singh R, Al Khulaifi A, Mandel I, Mikheev S, Suhodolo I, Kiselev V, Svirko Y, Podoksenov Y, Jenkins SA, Griffin R, Tovar Doncel MS, Lima A, Aldecoa C, Ince C, Taha A, Shafie A, Mostafa M, Syed N, Hon H, Righetti F, Colombaroli E, Castellano G, Righetti F, Colombaroli E, Hravnak M, Chen LC, Dubrawski AD, Clermont GC, Pinsky MR, Gonzalez S, Macias D, Acosta J, Jimenez P, Loza A, Lesmes A, Lucena F, Leon C, Tovar Doncel MS, Ince C, Aldecoa C, Lima A, Bastide M, Richecoeur J, Frenoy E, Lemaire C, Sauneuf B, Tamion F, Nseir S, Du Cheyron D, Dupont H, Maizel J, Shaban M, Kolko R, Salahuddin N, Sharshir M, AbuRageila M, AlHussain A, Mercado P, Maizel J, Kontar L, Titeca D, Brazier F, Riviere A, Joris M, Soupison T, De Cagny B, Slama M, Wagner J, Körner A, Kubik M, Kluge S, Reuter D, Saugel B, Colombaroli E, Righetti F, Castellano G, Tran T, De Bels D, Cudia A, Strachinaru M, Ghottignies P, Devriendt J, 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A, Schneider R, De Smet S, De Raedt S, Derom E, Depuydt P, Oeyen S, Benoit D, Decruyenaere J, Gobatto A, Besen B, Tierno P, Melro L, Mendes P, Cadamuro F, Park M, Malbouisson LM, Civantos BC, Lopez JL, Robles A, Figueira J, Yus S, Garcia A, Oglinda A, Ciobanu G, Oglinda C, Schirca L, Sertinean T, Lupu V, Kelly P, O’Sullivan A, Sweeney L, MacLoughlin R, O’Sullivan A, Kelly P, Sweeney L, Mukeria E, Wolny M, MacLoughlin R, Pagano A, Numis F, Visone G, Saldamarco L, Russo T, Porta G, Paladino F, Bell C, Liu J, Debacker J, Lee C, Tamberg E, Campbell V, Mehta S, Silva-Pinto A, Sarmento A, Santos L, Kara Ý, Yýldýrým F, Zerman A, Güllü Z, Boyacý N, Basarýk Aydogan B, Gaygýsýz Ü, Gönderen K, Arýk G, Turkoglu M, Aydogdu M, Aygencel G, Ülger Z, Gursel G, Boyacý N, Isýkdogan Z, Özdedeoglu Ö, Güllü Z, Badoglu M, Gaygýsýz U, Aydogdu M, Gursel G, Kongpolprom N, Sittipunt C, Eden A, Kokhanovsky Y, Bursztein – De Myttenaere S, Pizov R, Neilans L, MacIntyre N, Radosevich M, Wanta B, Weber V, Meyer T, Smischney N, Brown D, Diedrich D, Fuller A, McLindon P, Sim K, Shoaeir M, Noeam K, Mahrous A, Matsa R, Ali A, Dridi C, Koubaji S, Kamoun S, Haddad F, Ben Souissi A, Laribi B, Riahi A, Mebazaa MS, Pérez-Calatayud A, Carrillo-Esper R, Zepeda-Mendoza A, Diaz-Carrillo M, Arch-Tirado E, Carbognin S, Pelacani L, Zannoni F, Agnoli A, Gagliardi G, Cho R, Adams A, Lunos S, Ambur S, Shapiro R, Prekker M, Thijssen M, Janssen L, Foudraine N, Voscopoulos CJ, Freeman J, Voscopoulos CJ, Freeman J, George E, Voscopoulos CJ, Eversole D, Freeman J, George E, Muttini S, Bigi R, Villani G, Patroniti N, Williams G, Voscopoulos CJ, Freeman J, George E, Waldmann A, Böhm S, Windisch W, Strassmann S, Karagiannidis C, Waldmann A, Böhm S, Windisch W, Strassmann S, Karagiannidis C, Karagiannidis CK, Waldmann AW, Böhm SB, Strassmann S, Windisch WW, Persson P, Lundin S, Stenqvist O, Porta G, Numis F, Serra CS, Pagano AP, Masarone MM, Rinaldi LR, Amelia AA, Fascione MF, Adinolfi LA, Ruggiero ER, Asota F, O’Rourke K, 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Bateman RM, et al. Crit Care. 2016 Apr 20;20(Suppl 2):94. doi: 10.1186/s13054-016-1208-6. Crit Care. 2016. PMID: 27885969 Free PMC article.
K. Karagiannidis, A. W. Waldmann, S. B. Bohm, S. Strassmann, W. W. Windisch P257 - Transpulmonary pressure in a model with elastic recoiling lung and expanding chest wall P. ...K. Kuzovlev, V. Moroz, A. Goloubev, S. Polovnikov, S. Nenchuk P268 - …
K. Karagiannidis, A. W. Waldmann, S. B. Bohm, S. Strassmann, W. W. Windisch P257 - Transpulmonary pressure in a model w …
Artificial intelligence and network pharmacology based investigation of pharmacological mechanism and substance basis of Xiaokewan in treating diabetes.
Zhu C, Cai T, Jin Y, Chen J, Liu G, Xu N, Shen R, Chen Y, Han L, Wang S, Wu C, Zhu M. Zhu C, et al. Pharmacol Res. 2020 Sep;159:104935. doi: 10.1016/j.phrs.2020.104935. Epub 2020 May 25. Pharmacol Res. 2020. PMID: 32464328
In the current study, a highly efficient system for screening hypoglycemic efficacy constituents of Xiaokewan has been developed with the integration of intelligent data acquisition, data mining, network pharmacology, and computer assisted target fishing. With the combinat …
In the current study, a highly efficient system for screening hypoglycemic efficacy constituents of Xiaokewan has been developed with the in …
Identification and validation of a three-gene signature as a candidate prognostic biomarker for lower grade glioma.
Xiao K, Liu Q, Peng G, Su J, Qin CY, Wang XY. Xiao K, et al. PeerJ. 2020 Jan 3;8:e8312. doi: 10.7717/peerj.8312. eCollection 2020. PeerJ. 2020. PMID: 31921517 Free PMC article.
To prove the efficiency of the model, time-dependent receiver operating characteristic curves of our model and other models are constructed. ...Our study identified a three-gene model that showed satisfactory performance in predicting the 1-, 3- …
To prove the efficiency of the model, time-dependent receiver operating characteristic curves of our model and other …
Identification of Crucial Genes Associated With Immune Cell Infiltration in Hepatocellular Carcinoma by Weighted Gene Co-expression Network Analysis.
Wang D, Liu J, Liu S, Li W. Wang D, et al. Front Genet. 2020 Apr 24;11:342. doi: 10.3389/fgene.2020.00342. eCollection 2020. Front Genet. 2020. PMID: 32391055 Free PMC article.
Expression levels and time-dependent receiver operating characteristic (ROC) and area under the curve (AUC) were determined to estimate the prognostic competence of the hub genes. ...Moreover, four-gene signature was developed, including BIRC5, CENPA, FOXM1, DTYMK. These h …
Expression levels and time-dependent receiver operating characteristic (ROC) and area under the curve (AUC) were determined to estima …
Regularized logistic regression with network-based pairwise interaction for biomarker identification in breast cancer.
Wu MY, Zhang XF, Dai DQ, Ou-Yang L, Zhu Y, Yan H. Wu MY, et al. BMC Bioinformatics. 2016 Feb 27;17:108. doi: 10.1186/s12859-016-0951-7. BMC Bioinformatics. 2016. PMID: 26921029 Free PMC article.
Based on this line graph, we incorporate the degree information in the model via an adaptive elastic net, which makes our model less dependent on the expression data. ...Moreover, most of the biomarkers discovered by our model have been verified …
Based on this line graph, we incorporate the degree information in the model via an adaptive elastic net, which makes our model
Gut microbiome and adaptive immunity in schizophrenia.
Agorastos A, Bozikas VP. Agorastos A, et al. Psychiatriki. 2019 Jul-Sep;30(3):189-192. doi: 10.22365/jpsych.2019.303.189. Psychiatriki. 2019. PMID: 31685450 Free article. English, Greek, Modern.
Over the past few years, immunopathogenesis has emerged as one of the most compelling aetiopathological models of schizophrenia (SCZ), suggesting a chronic, immune-based, low-grade inflammatory background of this devastating disorder.1,2 Mounting evidence points towards a …
Over the past few years, immunopathogenesis has emerged as one of the most compelling aetiopathological models of schizophrenia (SCZ) …
Dual CDK4/CDK6 inhibition induces cell-cycle arrest and senescence in neuroblastoma.
Rader J, Russell MR, Hart LS, Nakazawa MS, Belcastro LT, Martinez D, Li Y, Carpenter EL, Attiyeh EF, Diskin SJ, Kim S, Parasuraman S, Caponigro G, Schnepp RW, Wood AC, Pawel B, Cole KA, Maris JM. Rader J, et al. Clin Cancer Res. 2013 Nov 15;19(22):6173-82. doi: 10.1158/1078-0432.CCR-13-1675. Epub 2013 Sep 17. Clin Cancer Res. 2013. PMID: 24045179 Free PMC article.
Recently, a number of cell-cycle proteins, particularly those within the Cyclin D/CDK4/CDK6/RB network, have been shown to exert oncogenic roles in neuroblastoma, suggesting that their therapeutic exploitation might improve patient outcomes. ...Although our data indicate t …
Recently, a number of cell-cycle proteins, particularly those within the Cyclin D/CDK4/CDK6/RB network, have been shown to exert onco …
Abstracts from the 3rd International Genomic Medicine Conference (3rd IGMC 2015) : Jeddah, Kingdom of Saudi Arabia. 30 November - 3 December 2015.
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