Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 140

1.

BioSwitch: a tool for the detection of bistability and multi-steady state behaviour in signaling and gene regulatory networks.

Yordanov P, Stelling J, Otero-Muras I.

Bioinformatics. 2019 Oct 14. pii: btz746. doi: 10.1093/bioinformatics/btz746. [Epub ahead of print]

PMID:
31609384
2.

Remote control of microtubule plus-end dynamics and function from the minus-end.

Chen X, Widmer LA, Stangier MM, Steinmetz MO, Stelling J, Barral Y.

Elife. 2019 Sep 6;8. pii: e48627. doi: 10.7554/eLife.48627.

3.

Publisher Correction: Microbial network disturbances in relapsing refractory Crohn's disease.

Yilmaz B, Juillerat P, Øyås O, Ramon C, Bravo FD, Franc Y, Fournier N, Michetti P, Mueller C, Geuking M, Pittet VEH, Maillard MH, Rogler G; Swiss IBD Cohort Investigators, Wiest R, Stelling J, Macpherson AJ.

Nat Med. 2019 Apr;25(4):701. doi: 10.1038/s41591-019-0411-9.

PMID:
30846883
4.

Widespread global peatland establishment and persistence over the last 130,000 y.

Treat CC, Kleinen T, Broothaerts N, Dalton AS, Dommain R, Douglas TA, Drexler JZ, Finkelstein SA, Grosse G, Hope G, Hutchings J, Jones MC, Kuhry P, Lacourse T, Lähteenoja O, Loisel J, Notebaert B, Payne RJ, Peteet DM, Sannel ABK, Stelling JM, Strauss J, Swindles GT, Talbot J, Tarnocai C, Verstraeten G, Williams CJ, Xia Z, Yu Z, Väliranta M, Hättestrand M, Alexanderson H, Brovkin V.

Proc Natl Acad Sci U S A. 2019 Mar 12;116(11):4822-4827. doi: 10.1073/pnas.1813305116. Epub 2019 Feb 25.

5.

Microbial network disturbances in relapsing refractory Crohn's disease.

Yilmaz B, Juillerat P, Øyås O, Ramon C, Bravo FD, Franc Y, Fournier N, Michetti P, Mueller C, Geuking M, Pittet VEH, Maillard MH, Rogler G; Swiss IBD Cohort Investigators, Wiest R, Stelling J, Macpherson AJ.

Nat Med. 2019 Feb;25(2):323-336. doi: 10.1038/s41591-018-0308-z. Epub 2019 Jan 21. Erratum in: Nat Med. 2019 Apr;25(4):701.

PMID:
30664783
6.

A Simple and Flexible Computational Framework for Inferring Sources of Heterogeneity from Single-Cell Dynamics.

Dharmarajan L, Kaltenbach HM, Rudolf F, Stelling J.

Cell Syst. 2019 Jan 23;8(1):15-26.e11. doi: 10.1016/j.cels.2018.12.007. Epub 2019 Jan 9.

PMID:
30638813
7.

Why surveillance of antimicrobial resistance needs to be automated and comprehensive.

O'Brien TF, Clark A, Peters R, Stelling J.

J Glob Antimicrob Resist. 2019 Jun;17:8-15. doi: 10.1016/j.jgar.2018.10.011. Epub 2018 Oct 13.

PMID:
30326273
8.

Automated detection of outbreaks of antimicrobial-resistant bacteria in Japan.

Tsutsui A, Yahara K, Clark A, Fujimoto K, Kawakami S, Chikumi H, Iguchi M, Yagi T, Baker MA, O'Brien T, Stelling J.

J Hosp Infect. 2019 Jun;102(2):226-233. doi: 10.1016/j.jhin.2018.10.005. Epub 2018 Oct 12.

PMID:
30321629
9.

Integrating -omics data into genome-scale metabolic network models: principles and challenges.

Ramon C, Gollub MG, Stelling J.

Essays Biochem. 2018 Oct 26;62(4):563-574. doi: 10.1042/EBC20180011. Print 2018 Oct 26. Review.

PMID:
30315095
10.

Inflammatory signals directly instruct PU.1 in HSCs via TNF.

Etzrodt M, Ahmed N, Hoppe PS, Loeffler D, Skylaki S, Hilsenbeck O, Kokkaliaris KD, Kaltenbach HM, Stelling J, Nerlov C, Schroeder T.

Blood. 2019 Feb 21;133(8):816-819. doi: 10.1182/blood-2018-02-832998. Epub 2018 Oct 9.

PMID:
30301719
11.

Bridging intracellular scales by mechanistic computational models.

Widmer LA, Stelling J.

Curr Opin Biotechnol. 2018 Aug;52:17-24. doi: 10.1016/j.copbio.2018.02.005. Epub 2018 Feb 24. Review.

PMID:
29486391
12.

Automated Planning Enables Complex Protocols on Liquid-Handling Robots.

Whitehead E, Rudolf F, Kaltenbach HM, Stelling J.

ACS Synth Biol. 2018 Mar 16;7(3):922-932. doi: 10.1021/acssynbio.8b00021. Epub 2018 Mar 5.

PMID:
29486123
13.

Steady-State Differential Dose Response in Biological Systems.

Yordanov P, Stelling J.

Biophys J. 2018 Feb 6;114(3):723-736. doi: 10.1016/j.bpj.2017.11.3780.

14.

Review of patient decision-making factors and attitudes regarding preimplantation genetic diagnosis.

Genoff Garzon MC, Rubin LR, Lobel M, Stelling J, Pastore LM.

Clin Genet. 2018 Jul;94(1):22-42. doi: 10.1111/cge.13174. Epub 2018 Feb 11. Review.

PMID:
29120067
15.

Reproductive ovarian testing and the alphabet soup of diagnoses: DOR, POI, POF, POR, and FOR.

Pastore LM, Christianson MS, Stelling J, Kearns WG, Segars JH.

J Assist Reprod Genet. 2018 Jan;35(1):17-23. doi: 10.1007/s10815-017-1058-4. Epub 2017 Oct 2. Review.

16.

Predicting ligand-dependent tumors from multi-dimensional signaling features.

Hass H, Masson K, Wohlgemuth S, Paragas V, Allen JE, Sevecka M, Pace E, Timmer J, Stelling J, MacBeath G, Schoeberl B, Raue A.

NPJ Syst Biol Appl. 2017 Sep 20;3:27. doi: 10.1038/s41540-017-0030-3. eCollection 2017.

17.

Using information technology to improve surveillance of antimicrobial resistance in South East Asia.

Vong S, Anciaux A, Hulth A, Stelling J, Thamlikitkul V, Gupta S, Fuks JM, Walia K, Rattanumpawan P, Eremin S, Tisocki K, Sedai TR, Sharma A.

BMJ. 2017 Sep 5;358:j3781. doi: 10.1136/bmj.j3781. Review. No abstract available.

18.

Implementation and evaluation of an automated surveillance system to detect hospital outbreak.

Stachel A, Pinto G, Stelling J, Fulmer Y, Shopsin B, Inglima K, Phillips M.

Am J Infect Control. 2017 Dec 1;45(12):1372-1377. doi: 10.1016/j.ajic.2017.06.031. Epub 2017 Aug 23.

PMID:
28844384
19.

Psychological and emotional concomitants of infertility diagnosis in women with diminished ovarian reserve or anatomical cause of infertility.

Nicoloro-SantaBarbara JM, Lobel M, Bocca S, Stelling JR, Pastore LM.

Fertil Steril. 2017 Jul;108(1):161-167. doi: 10.1016/j.fertnstert.2017.05.008. Epub 2017 Jun 1.

PMID:
28579416
20.

Chemical Reaction Network Theory elucidates sources of multistability in interferon signaling.

Otero-Muras I, Yordanov P, Stelling J.

PLoS Comput Biol. 2017 Apr 3;13(4):e1005454. doi: 10.1371/journal.pcbi.1005454. eCollection 2017 Apr.

21.

Use of WHONET-SaTScan system for simulated real-time detection of antimicrobial resistance clusters in a hospital in Italy, 2012 to 2014.

Natale A, Stelling J, Meledandri M, Messenger LA, D'Ancona F.

Euro Surveill. 2017 Mar 16;22(11). pii: 30484. doi: 10.2807/1560-7917.ES.2017.22.11.30484.

22.

β-cell-mimetic designer cells provide closed-loop glycemic control.

Xie M, Ye H, Wang H, Charpin-El Hamri G, Lormeau C, Saxena P, Stelling J, Fussenegger M.

Science. 2016 Dec 9;354(6317):1296-1301.

PMID:
27940875
23.

A Review on Nano-Antimicrobials: Metal Nanoparticles, Methods and Mechanisms.

Hoseinzadeh E, Makhdoumi P, Taha P, Hossini H, Stelling J, Kamal MA, Ashraf GM.

Curr Drug Metab. 2017;18(2):120-128. doi: 10.2174/1389200217666161201111146. Review.

PMID:
27908256
24.

An Orthogonal Permease-Inducer-Repressor Feedback Loop Shows Bistability.

Gnügge R, Dharmarajan L, Lang M, Stelling J.

ACS Synth Biol. 2016 Oct 21;5(10):1098-1107. Epub 2016 May 18.

PMID:
27148753
25.

Efficient Reconstruction of Predictive Consensus Metabolic Network Models.

van Heck RG, Ganter M, Martins Dos Santos VA, Stelling J.

PLoS Comput Biol. 2016 Aug 26;12(8):e1005085. doi: 10.1371/journal.pcbi.1005085. eCollection 2016 Aug.

26.

Statistical detection of geographic clusters of resistant Escherichia coli in a regional network with WHONET and SaTScan.

Park R, O'Brien TF, Huang SS, Baker MA, Yokoe DS, Kulldorff M, Barrett C, Swift J, Stelling J; Centers for Disease Control and Prevention Epicenters Program.

Expert Rev Anti Infect Ther. 2016 Nov;14(11):1097-1107. Epub 2016 Sep 6.

27.

World Health Organization Ranking of Antimicrobials According to Their Importance in Human Medicine: A Critical Step for Developing Risk Management Strategies to Control Antimicrobial Resistance From Food Animal Production.

Collignon PJ, Conly JM, Andremont A, McEwen SA, Aidara-Kane A; World Health Organization Advisory Group, Bogotá Meeting on Integrated Surveillance of Antimicrobial Resistance (WHO-AGISAR), Agerso Y, Andremont A, Collignon P, Conly J, Dang Ninh T, Donado-Godoy P, Fedorka-Cray P, Fernandez H, Galas M, Irwin R, Karp B, Matar G, McDermott P, McEwen S, Mitema E, Reid-Smith R, Scott HM, Singh R, DeWaal CS, Stelling J, Toleman M, Watanabe H, Woo GJ.

Clin Infect Dis. 2016 Oct 15;63(8):1087-1093. doi: 10.1093/cid/ciw475. Epub 2016 Jul 20. Review. Erratum in: Clin Infect Dis. 2016 Dec 1;63(11):1536.

PMID:
27439526
28.

Strategies for structuring interdisciplinary education in Systems Biology: an European perspective.

Cvijovic M, Höfer T, Aćimović J, Alberghina L, Almaas E, Besozzi D, Blomberg A, Bretschneider T, Cascante M, Collin O, de Atauri P, Depner C, Dickinson R, Dobrzynski M, Fleck C, Garcia-Ojalvo J, Gonze D, Hahn J, Hess HM, Hollmann S, Krantz M, Kummer U, Lundh T, Martial G, Dos Santos VM, Mauer-Oberthür A, Regierer B, Skene B, Stalidzans E, Stelling J, Teusink B, Workman CT, Hohmann S.

NPJ Syst Biol Appl. 2016 May 26;2:16011. doi: 10.1038/npjsba.2016.11. eCollection 2016.

29.

Efficient Characterization of Parametric Uncertainty of Complex (Bio)chemical Networks.

Schillings C, Sunnåker M, Stelling J, Schwab C.

PLoS Comput Biol. 2015 Aug 28;11(8):e1004457. doi: 10.1371/journal.pcbi.1004457. eCollection 2015 Aug.

30.

Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome.

Oliveira AP, Dimopoulos S, Busetto AG, Christen S, Dechant R, Falter L, Haghir Chehreghani M, Jozefczuk S, Ludwig C, Rudroff F, Schulz JC, González A, Soulard A, Stracka D, Aebersold R, Buhmann JM, Hall MN, Peter M, Sauer U, Stelling J.

Mol Syst Biol. 2015 Apr 17;11(4):802. doi: 10.15252/msb.20145475.

31.

Effect of Immunosuppression on T-Helper 2 and B-Cell Responses to Influenza Vaccination.

Egli A, Humar A, Widmer LA, Lisboa LF, Santer DM, Mueller T, Stelling J, Baluch A, O'Shea D, Houghton M, Kumar D.

J Infect Dis. 2015 Jul 1;212(1):137-46. doi: 10.1093/infdis/jiv015. Epub 2015 Jan 14.

32.

A method for inverse bifurcation of biochemical switches: inferring parameters from dose response curves.

Otero-Muras I, Yordanov P, Stelling J.

BMC Syst Biol. 2014 Nov 20;8:114. doi: 10.1186/s12918-014-0114-2.

33.

Inducible, tightly regulated and growth condition-independent transcription factor in Saccharomyces cerevisiae.

Ottoz DS, Rudolf F, Stelling J.

Nucleic Acids Res. 2014;42(17):e130. doi: 10.1093/nar/gku616. Epub 2014 Jul 17.

34.

A synthetic multifunctional mammalian pH sensor and CO2 transgene-control device.

Ausländer D, Ausländer S, Charpin-El Hamri G, Sedlmayer F, Müller M, Frey O, Hierlemann A, Stelling J, Fussenegger M.

Mol Cell. 2014 Aug 7;55(3):397-408. doi: 10.1016/j.molcel.2014.06.007. Epub 2014 Jul 10.

35.

Changing face of vaccination in immunocompromised hosts.

O'Shea D, Widmer LA, Stelling J, Egli A.

Curr Infect Dis Rep. 2014 Sep;16(9):420. doi: 10.1007/s11908-014-0420-2.

PMID:
24992978
36.

The world's microbiology laboratories can be a global microbial sensor network.

O'Brien TF, Stelling J.

Biomedica. 2014 Apr;34 Suppl 1:9-15. doi: 10.1590/S0120-41572014000500002.

37.

Accurate cell segmentation in microscopy images using membrane patterns.

Dimopoulos S, Mayer CE, Rudolf F, Stelling J.

Bioinformatics. 2014 Sep 15;30(18):2644-51. doi: 10.1093/bioinformatics/btu302. Epub 2014 May 21.

PMID:
24849580
38.

Bridging the gaps in systems biology.

Cvijovic M, Almquist J, Hagmar J, Hohmann S, Kaltenbach HM, Klipp E, Krantz M, Mendes P, Nelander S, Nielsen J, Pagnani A, Przulj N, Raue A, Stelling J, Stoma S, Tobin F, Wodke JA, Zecchina R, Jirstrand M.

Mol Genet Genomics. 2014 Oct;289(5):727-34. doi: 10.1007/s00438-014-0843-3. Epub 2014 Apr 13. Review.

PMID:
24728588
39.

Cutting the wires: modularization of cellular networks for experimental design.

Lang M, Summers S, Stelling J.

Biophys J. 2014 Jan 7;106(1):321-31. doi: 10.1016/j.bpj.2013.11.2960.

40.

Predicting network functions with nested patterns.

Ganter M, Kaltenbach HM, Stelling J.

Nat Commun. 2014;5:3006. doi: 10.1038/ncomms4006.

PMID:
24398547
41.

Biochemical phenotypes to discriminate microbial subpopulations and improve outbreak detection.

Galar A, Kulldorff M, Rudnick W, O'Brien TF, Stelling J.

PLoS One. 2013 Dec 31;8(12):e84313. doi: 10.1371/journal.pone.0084313. eCollection 2013.

42.

Laboratory-based prospective surveillance for community outbreaks of Shigella spp. in Argentina.

Viñas MR, Tuduri E, Galar A, Yih K, Pichel M, Stelling J, Brengi SP, Della Gaspera A, van der Ploeg C, Bruno S, Rogé A, Caffer MI, Kulldorff M, Galas M; Group MIDAS - Argentina.

PLoS Negl Trop Dis. 2013 Dec 12;7(12):e2521. doi: 10.1371/journal.pntd.0002521. eCollection 2013.

43.

Topological augmentation to infer hidden processes in biological systems.

Sunnåker M, Zamora-Sillero E, López García de Lomana A, Rudroff F, Sauer U, Stelling J, Wagner A.

Bioinformatics. 2014 Jan 15;30(2):221-7. doi: 10.1093/bioinformatics/btt638. Epub 2013 Dec 2.

44.

Transcriptional regulation is insufficient to explain substrate-induced flux changes in Bacillus subtilis.

Chubukov V, Uhr M, Le Chat L, Kleijn RJ, Jules M, Link H, Aymerich S, Stelling J, Sauer U.

Mol Syst Biol. 2013 Nov 26;9:709. doi: 10.1038/msb.2013.66.

46.

Note: Parameter-independent bounding of the stochastic Michaelis-Menten steady-state intrinsic noise variance.

Widmer LA, Stelling J, Doyle FJ 3rd.

J Chem Phys. 2013 Oct 28;139(16):166102. doi: 10.1063/1.4827496.

47.

Near-optimal experimental design for model selection in systems biology.

Busetto AG, Hauser A, Krummenacher G, Sunnåker M, Dimopoulos S, Ong CS, Stelling J, Buhmann JM.

Bioinformatics. 2013 Oct 15;29(20):2625-32. doi: 10.1093/bioinformatics/btt436. Epub 2013 Jul 29.

48.

Automatic generation of predictive dynamic models reveals nuclear phosphorylation as the key Msn2 control mechanism.

Sunnåker M, Zamora-Sillero E, Dechant R, Ludwig C, Busetto AG, Wagner A, Stelling J.

Sci Signal. 2013 May 28;6(277):ra41. doi: 10.1126/scisignal.2003621.

PMID:
23716718
49.

Modular, rule-based modeling for the design of eukaryotic synthetic gene circuits.

Marchisio MA, Colaiacovo M, Whitehead E, Stelling J.

BMC Syst Biol. 2013 May 27;7:42. doi: 10.1186/1752-0509-7-42.

50.

MetaNetX.org: a website and repository for accessing, analysing and manipulating metabolic networks.

Ganter M, Bernard T, Moretti S, Stelling J, Pagni M.

Bioinformatics. 2013 Mar 15;29(6):815-6. doi: 10.1093/bioinformatics/btt036. Epub 2013 Jan 28.

Supplemental Content

Loading ...
Support Center