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Items: 1 to 50 of 105

1.

OSCI: standardized stem cell ontology representation and use cases for stem cell investigation.

He Y, Duncan WD, Cooper DJ, Hansen J, Iyengar R, Ong E, Walker K, Tibi O, Smith S, Serra LM, Zheng J, Sarntivijai S, Schürer S, O'Shea KS, Diehl AD.

BMC Bioinformatics. 2019 Apr 25;20(Suppl 5):180. doi: 10.1186/s12859-019-2723-7.

2.
3.

Novel Curcumin Inspired Bis-Chalcone Promotes Endoplasmic Reticulum Stress and Glioblastoma Neurosphere Cell Death.

Sansalone L, Veliz EA, Myrthil NG, Stathias V, Walters W, Torrens II, Schürer SC, Vanni S, Leblanc RM, Graham RM.

Cancers (Basel). 2019 Mar 13;11(3). pii: E357. doi: 10.3390/cancers11030357.

4.

Use of machine learning to identify novel, behaviorally active antagonists of the insect odorant receptor co-receptor (Orco) subunit.

Kepchia D, Xu P, Terryn R, Castro A, Schürer SC, Leal WS, Luetje CW.

Sci Rep. 2019 Mar 11;9(1):4055. doi: 10.1038/s41598-019-40640-4.

5.

How to Develop a Drug Target Ontology: KNowledge Acquisition and Representation Methodology (KNARM).

Küçük McGinty H, Visser U, Schürer S.

Methods Mol Biol. 2019;1939:49-69. doi: 10.1007/978-1-4939-9089-4_4.

PMID:
30848456
6.

CARM1 Is Essential for Myeloid Leukemogenesis but Dispensable for Normal Hematopoiesis.

Greenblatt SM, Man N, Hamard PJ, Asai T, Karl D, Martinez C, Bilbao D, Stathias V, Jermakowicz AM, Duffort S, Tadi M, Blumenthal E, Newman S, Vu L, Xu Y, Liu F, Schurer SC, McCabe MT, Kruger RG, Xu M, Yang FC, Tenen DG, Watts J, Vega F, Nimer SD.

Cancer Cell. 2019 Jan 14;35(1):156. doi: 10.1016/j.ccell.2018.12.008. No abstract available.

PMID:
30645972
7.

Drug and disease signature integration identifies synergistic combinations in glioblastoma.

Stathias V, Jermakowicz AM, Maloof ME, Forlin M, Walters W, Suter RK, Durante MA, Williams SL, Harbour JW, Volmar CH, Lyons NJ, Wahlestedt C, Graham RM, Ivan ME, Komotar RJ, Sarkaria JN, Subramanian A, Golub TR, Schürer SC, Ayad NG.

Nat Commun. 2018 Dec 14;9(1):5315. doi: 10.1038/s41467-018-07659-z.

8.

Far away from the lamppost.

Oprea TI, Jan L, Johnson GL, Roth BL, Ma'ayan A, Schürer S, Shoichet BK, Sklar LA, McManus MT.

PLoS Biol. 2018 Dec 11;16(12):e3000067. doi: 10.1371/journal.pbio.3000067. eCollection 2018 Dec.

9.

CARM1 Is Essential for Myeloid Leukemogenesis but Dispensable for Normal Hematopoiesis.

Greenblatt SM, Man N, Hamard PJ, Asai T, Karl D, Martinez C, Bilbao D, Stathias V, McGrew-Jermacowicz A, Duffort S, Tadi M, Blumenthal E, Newman S, Vu L, Xu Y, Liu F, Schurer SC, McCabe MT, Kruger RG, Xu M, Yang FC, Tenen D, Watts J, Vega F, Nimer SD.

Cancer Cell. 2018 Nov 12;34(5):868. doi: 10.1016/j.ccell.2018.10.009. No abstract available.

10.

Polypharmacology or Promiscuity? Structural Interactions of Resveratrol With Its Bandwagon of Targets.

Saqib U, Kelley TT, Panguluri SK, Liu D, Savai R, Baig MS, Schürer SC.

Front Pharmacol. 2018 Oct 24;9:1201. doi: 10.3389/fphar.2018.01201. eCollection 2018. Review.

11.

DrugCentral 2018: an update.

Ursu O, Holmes J, Bologa CG, Yang JJ, Mathias SL, Stathias V, Nguyen DT, Schürer S, Oprea T.

Nucleic Acids Res. 2019 Jan 8;47(D1):D963-D970. doi: 10.1093/nar/gky963.

12.

Identification of Coronary Vasospasm as a Cause of Recurrent Acute Coronary Syndrome.

Majunke N, von Roeder M, Schürer S, Erbs S.

J Invasive Cardiol. 2018 Oct;30(10):E100.

13.

Sustainable data and metadata management at the BD2K-LINCS Data Coordination and Integration Center.

Stathias V, Koleti A, Vidović D, Cooper DJ, Jagodnik KM, Terryn R, Forlin M, Chung C, Torre D, Ayad N, Medvedovic M, Ma'ayan A, Pillai A, Schürer SC.

Sci Data. 2018 Jun 19;5:180117. doi: 10.1038/sdata.2018.117.

14.

CARM1 Is Essential for Myeloid Leukemogenesis but Dispensable for Normal Hematopoiesis.

Greenblatt SM, Man N, Hamard PJ, Asai T, Karl D, Martinez C, Bilbao D, Stathias V, Jermakowicz AM, Duffort S, Tadi M, Blumenthal E, Newman S, Vu L, Xu Y, Liu F, Schurer SC, McCabe MT, Kruger RG, Xu M, Yang FC, Tenen DG, Watts J, Vega F, Nimer SD.

Cancer Cell. 2018 Jun 11;33(6):1111-1127.e5. doi: 10.1016/j.ccell.2018.05.007. Erratum in: Cancer Cell. 2018 Nov 12;34(5):868. Cancer Cell. 2019 Jan 14;35(1):156.

15.

Drug Repositioning in Glioblastoma: A Pathway Perspective.

Tan SK, Jermakowicz A, Mookhtiar AK, Nemeroff CB, Schürer SC, Ayad NG.

Front Pharmacol. 2018 Mar 16;9:218. doi: 10.3389/fphar.2018.00218. eCollection 2018. Review.

16.

Unexplored therapeutic opportunities in the human genome.

Oprea TI, Bologa CG, Brunak S, Campbell A, Gan GN, Gaulton A, Gomez SM, Guha R, Hersey A, Holmes J, Jadhav A, Jensen LJ, Johnson GL, Karlson A, Leach AR, Ma'ayan A, Malovannaya A, Mani S, Mathias SL, McManus MT, Meehan TF, von Mering C, Muthas D, Nguyen DT, Overington JP, Papadatos G, Qin J, Reich C, Roth BL, Schürer SC, Simeonov A, Sklar LA, Southall N, Tomita S, Tudose I, Ursu O, Vidovic D, Waller A, Westergaard D, Yang JJ, Zahoránszky-Köhalmi G.

Nat Rev Drug Discov. 2018 May;17(5):377. doi: 10.1038/nrd.2018.52. Epub 2018 Mar 23.

PMID:
29567993
17.

Unexplored therapeutic opportunities in the human genome.

Oprea TI, Bologa CG, Brunak S, Campbell A, Gan GN, Gaulton A, Gomez SM, Guha R, Hersey A, Holmes J, Jadhav A, Jensen LJ, Johnson GL, Karlson A, Leach AR, Ma'ayan A, Malovannaya A, Mani S, Mathias SL, McManus MT, Meehan TF, von Mering C, Muthas D, Nguyen DT, Overington JP, Papadatos G, Qin J, Reich C, Roth BL, Schürer SC, Simeonov A, Sklar LA, Southall N, Tomita S, Tudose I, Ursu O, Vidovic D, Waller A, Westergaard D, Yang JJ, Zahoránszky-Köhalmi G.

Nat Rev Drug Discov. 2018 May;17(5):317-332. doi: 10.1038/nrd.2018.14. Epub 2018 Mar 23. Review. Erratum in: Nat Rev Drug Discov. 2018 Mar 23;:.

18.

Ontological representation, integration, and analysis of LINCS cell line cells and their cellular responses.

Ong E, Xie J, Ni Z, Liu Q, Sarntivijai S, Lin Y, Cooper D, Terryn R, Stathias V, Chung C, Schürer S, He Y.

BMC Bioinformatics. 2017 Dec 21;18(Suppl 17):556. doi: 10.1186/s12859-017-1981-5.

19.

Efficacy Testing of H56 cDNA Tattoo Immunization against Tuberculosis in a Mouse Model.

Platteel ACM, Nieuwenhuizen NE, Domaszewska T, Schürer S, Zedler U, Brinkmann V, Sijts AJAM, Kaufmann SHE.

Front Immunol. 2017 Dec 11;8:1744. doi: 10.3389/fimmu.2017.01744. eCollection 2017.

20.

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Keenan AB, Jenkins SL, Jagodnik KM, Koplev S, He E, Torre D, Wang Z, Dohlman AB, Silverstein MC, Lachmann A, Kuleshov MV, Ma'ayan A, Stathias V, Terryn R, Cooper D, Forlin M, Koleti A, Vidovic D, Chung C, Schürer SC, Vasiliauskas J, Pilarczyk M, Shamsaei B, Fazel M, Ren Y, Niu W, Clark NA, White S, Mahi N, Zhang L, Kouril M, Reichard JF, Sivaganesan S, Medvedovic M, Meller J, Koch RJ, Birtwistle MR, Iyengar R, Sobie EA, Azeloglu EU, Kaye J, Osterloh J, Haston K, Kalra J, Finkbiener S, Li J, Milani P, Adam M, Escalante-Chong R, Sachs K, Lenail A, Ramamoorthy D, Fraenkel E, Daigle G, Hussain U, Coye A, Rothstein J, Sareen D, Ornelas L, Banuelos M, Mandefro B, Ho R, Svendsen CN, Lim RG, Stocksdale J, Casale MS, Thompson TG, Wu J, Thompson LM, Dardov V, Venkatraman V, Matlock A, Van Eyk JE, Jaffe JD, Papanastasiou M, Subramanian A, Golub TR, Erickson SD, Fallahi-Sichani M, Hafner M, Gray NS, Lin JR, Mills CE, Muhlich JL, Niepel M, Shamu CE, Williams EH, Wrobel D, Sorger PK, Heiser LM, Gray JW, Korkola JE, Mills GB, LaBarge M, Feiler HS, Dane MA, Bucher E, Nederlof M, Sudar D, Gross S, Kilburn DF, Smith R, Devlin K, Margolis R, Derr L, Lee A, Pillai A.

Cell Syst. 2018 Jan 24;6(1):13-24. doi: 10.1016/j.cels.2017.11.001. Epub 2017 Nov 29. Review.

21.

Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data.

Koleti A, Terryn R, Stathias V, Chung C, Cooper DJ, Turner JP, Vidovic D, Forlin M, Kelley TT, D'Urso A, Allen BK, Torre D, Jagodnik KM, Wang L, Jenkins SL, Mader C, Niu W, Fazel M, Mahi N, Pilarczyk M, Clark N, Shamsaei B, Meller J, Vasiliauskas J, Reichard J, Medvedovic M, Ma'ayan A, Pillai A, Schürer SC.

Nucleic Acids Res. 2018 Jan 4;46(D1):D558-D566. doi: 10.1093/nar/gkx1063.

22.

Drug target ontology to classify and integrate drug discovery data.

Lin Y, Mehta S, Küçük-McGinty H, Turner JP, Vidovic D, Forlin M, Koleti A, Nguyen DT, Jensen LJ, Guha R, Mathias SL, Ursu O, Stathias V, Duan J, Nabizadeh N, Chung C, Mader C, Visser U, Yang JJ, Bologa CG, Oprea TI, Schürer SC.

J Biomed Semantics. 2017 Nov 9;8(1):50. doi: 10.1186/s13326-017-0161-x.

23.

Reply: Cardiac Magnetic Resonance as an Alternative to Endomyocardial Biopsy to Predict Recoverability of Left Ventricular Function in Methamphetamine-Associated Cardiomyopathy.

Schürer S, Klingel K, Lurz P, Linke A, Mangner N.

JACC Heart Fail. 2017 Nov;5(11):854-855. doi: 10.1016/j.jchf.2017.09.003. No abstract available.

24.

Identification of a Novel Class of BRD4 Inhibitors by Computational Screening and Binding Simulations.

Allen BK, Mehta S, Ember SWJ, Zhu JY, Schönbrunn E, Ayad NG, Schürer SC.

ACS Omega. 2017 Aug 31;2(8):4760-4771. doi: 10.1021/acsomega.7b00553. Epub 2017 Aug 21.

25.

From flamingo dance to (desirable) drug discovery: a nature-inspired approach.

Sánchez-Rodríguez A, Pérez-Castillo Y, Schürer SC, Nicolotti O, Mangiatordi GF, Borges F, Cordeiro MNDS, Tejera E, Medina-Franco JL, Cruz-Monteagudo M.

Drug Discov Today. 2017 Oct;22(10):1489-1502. doi: 10.1016/j.drudis.2017.05.008. Epub 2017 Jun 15. Review.

26.

Clinical Characteristics, Histopathological Features, and Clinical Outcome of Methamphetamine-Associated Cardiomyopathy.

Schürer S, Klingel K, Sandri M, Majunke N, Besler C, Kandolf R, Lurz P, Luck M, Hertel P, Schuler G, Linke A, Mangner N.

JACC Heart Fail. 2017 Jun;5(6):435-445. doi: 10.1016/j.jchf.2017.02.017. Erratum in: JACC Heart Fail. 2017 Aug;5(8):620.

27.

Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop.

Jagodnik KM, Koplev S, Jenkins SL, Ohno-Machado L, Paten B, Schurer SC, Dumontier M, Verborgh R, Bui A, Ping P, McKenna NJ, Madduri R, Pillai A, Ma'ayan A.

J Biomed Inform. 2017 Jul;71:49-57. doi: 10.1016/j.jbi.2017.05.006. Epub 2017 May 10.

28.

TIN-X: target importance and novelty explorer.

Cannon DC, Yang JJ, Mathias SL, Ursu O, Mani S, Waller A, Schürer SC, Jensen LJ, Sklar LA, Bologa CG, Oprea TI.

Bioinformatics. 2017 Aug 15;33(16):2601-2603. doi: 10.1093/bioinformatics/btx200.

29.

Introducing a GP copayment in Australia: Who would carry the cost burden?

Elkins RK, Schurer S.

Health Policy. 2017 May;121(5):543-552. doi: 10.1016/j.healthpol.2017.03.004. Epub 2017 Mar 16.

PMID:
28377024
30.

Systemic QSAR and phenotypic virtual screening: chasing butterflies in drug discovery.

Cruz-Monteagudo M, Schürer S, Tejera E, Pérez-Castillo Y, Medina-Franco JL, Sánchez-Rodríguez A, Borges F.

Drug Discov Today. 2017 Jul;22(7):994-1007. doi: 10.1016/j.drudis.2017.02.004. Epub 2017 Mar 6. Review.

31.

Frequency and clinical course of cerebral embolism in patients undergoing transcatheter left atrial appendage closure.

Majunke N, Eplinius F, Gutberlet M, Moebius-Winkler S, Daehnert I, Grothoff M, Schürer S, Mangner N, Lurz P, Erbs S, Kirsch K, Schuler G, Sandri M.

EuroIntervention. 2017 May 15;13(1):124-130. doi: 10.4244/EIJ-D-16-00776.

PMID:
28218603
32.

Origins of adulthood personality: The role of adverse childhood experiences.

Fletcher JM, Schurer S.

B E J Econom Anal Policy. 2017 Apr;17(2). doi: 10.1515/bejeap-2015-0212. Epub 2017 Mar 31.

33.

Pharos: Collating protein information to shed light on the druggable genome.

Nguyen DT, Mathias S, Bologa C, Brunak S, Fernandez N, Gaulton A, Hersey A, Holmes J, Jensen LJ, Karlsson A, Liu G, Ma'ayan A, Mandava G, Mani S, Mehta S, Overington J, Patel J, Rouillard AD, Schürer S, Sheils T, Simeonov A, Sklar LA, Southall N, Ursu O, Vidovic D, Waller A, Yang J, Jadhav A, Oprea TI, Guha R.

Nucleic Acids Res. 2017 Jan 4;45(D1):D995-D1002. doi: 10.1093/nar/gkw1072. Epub 2016 Nov 29.

34.

High quality, small molecule-activity datasets for kinase research.

Sharma R, Schürer SC, Muskal SM.

Version 3. F1000Res. 2016 Jun 14 [revised 2016 Jan 1];5. pii: Chem Inf Sci-1366. eCollection 2016.

35.
36.

Large-Scale Computational Screening Identifies First in Class Multitarget Inhibitor of EGFR Kinase and BRD4.

Allen BK, Mehta S, Ember SW, Schonbrunn E, Ayad N, Schürer SC.

Sci Rep. 2015 Nov 24;5:16924. doi: 10.1038/srep16924.

37.

Selective Targeting of Extracellular Insulin-Degrading Enzyme by Quasi-Irreversible Thiol-Modifying Inhibitors.

Abdul-Hay SO, Bannister TD, Wang H, Cameron MD, Caulfield TR, Masson A, Bertrand J, Howard EA, McGuire MP, Crisafulli U, Rosenberry TR, Topper CL, Thompson CR, Schürer SC, Madoux F, Hodder P, Leissring MA.

ACS Chem Biol. 2015 Dec 18;10(12):2716-24. doi: 10.1021/acschembio.5b00334. Epub 2015 Sep 30.

PMID:
26398879
38.

Noribogaine is a G-protein biased κ-opioid receptor agonist.

Maillet EL, Milon N, Heghinian MD, Fishback J, Schürer SC, Garamszegi N, Mash DC.

Neuropharmacology. 2015 Dec;99:675-88. doi: 10.1016/j.neuropharm.2015.08.032. Epub 2015 Aug 21.

39.

GSK3 inhibitors stabilize Wee1 and reduce cerebellar granule cell progenitor proliferation.

Penas C, Mishra JK, Wood SD, Schürer SC, Roush WR, Ayad NG.

Cell Cycle. 2015;14(3):417-24. doi: 10.4161/15384101.2014.974439.

40.

Screening of cell cycle fusion proteins to identify kinase signaling networks.

Trojanowsky M, Vidovic D, Simanski S, Penas C, Schurer S, Ayad NG.

Cell Cycle. 2015;14(8):1274-81. doi: 10.1080/15384101.2015.1006987.

41.

Using the BioAssay Ontology for analyzing high-throughput screening data.

Zander Balderud L, Murray D, Larsson N, Vempati U, Schürer SC, Bjäreland M, Engkvist O.

J Biomol Screen. 2015 Mar;20(3):402-15. doi: 10.1177/1087057114563493. Epub 2014 Dec 15.

PMID:
25512330
42.

BioAssay Research Database (BARD): chemical biology and probe-development enabled by structured metadata and result types.

Howe EA, de Souza A, Lahr DL, Chatwin S, Montgomery P, Alexander BR, Nguyen DT, Cruz Y, Stonich DA, Walzer G, Rose JT, Picard SC, Liu Z, Rose JN, Xiang X, Asiedu J, Durkin D, Levine J, Yang JJ, Schürer SC, Braisted JC, Southall N, Southern MR, Chung TD, Brudz S, Tanega C, Schreiber SL, Bittker JA, Guha R, Clemons PA.

Nucleic Acids Res. 2015 Jan;43(Database issue):D1163-70. doi: 10.1093/nar/gku1244. Epub 2014 Dec 4.

44.

Epigenetic pathways and glioblastoma treatment: insights from signaling cascades.

Allen BK, Stathias V, Maloof ME, Vidovic D, Winterbottom EF, Capobianco AJ, Clarke J, Schurer S, Robbins DJ, Ayad NG.

J Cell Biochem. 2015 Mar;116(3):351-63. doi: 10.1002/jcb.24990. Review.

PMID:
25290986
45.

Fast and accurate semantic annotation of bioassays exploiting a hybrid of machine learning and user confirmation.

Clark AM, Bunin BA, Litterman NK, Schürer SC, Visser U.

PeerJ. 2014 Aug 14;2:e524. doi: 10.7717/peerj.524. eCollection 2014.

46.

Evolving BioAssay Ontology (BAO): modularization, integration and applications.

Abeyruwan S, Vempati UD, Küçük-McGinty H, Visser U, Koleti A, Mir A, Sakurai K, Chung C, Bittker JA, Clemons PA, Brudz S, Siripala A, Morales AJ, Romacker M, Twomey D, Bureeva S, Lemmon V, Schürer SC.

J Biomed Semantics. 2014 Jun 3;5(Suppl 1 Proceedings of the Bio-Ontologies Spec Interest G):S5. doi: 10.1186/2041-1480-5-S1-S5. eCollection 2014.

47.

Allosteric inhibition of the IRE1α RNase preserves cell viability and function during endoplasmic reticulum stress.

Ghosh R, Wang L, Wang ES, Perera BG, Igbaria A, Morita S, Prado K, Thamsen M, Caswell D, Macias H, Weiberth KF, Gliedt MJ, Alavi MV, Hari SB, Mitra AK, Bhhatarai B, Schürer SC, Snapp EL, Gould DB, German MS, Backes BJ, Maly DJ, Oakes SA, Papa FR.

Cell. 2014 Jul 31;158(3):534-48. doi: 10.1016/j.cell.2014.07.002. Epub 2014 Jul 10.

48.

Casein kinase 1δ-dependent Wee1 protein degradation.

Penas C, Ramachandran V, Simanski S, Lee C, Madoux F, Rahaim RJ, Chauhan R, Barnaby O, Schurer S, Hodder P, Steen J, Roush WR, Ayad NG.

J Biol Chem. 2014 Jul 4;289(27):18893-903. doi: 10.1074/jbc.M114.547661. Epub 2014 May 9.

49.

ML345, A Small-Molecule Inhibitor of the Insulin-Degrading Enzyme (IDE).

Bannister TD, Wang H, Abdul-Hay SO, Masson A, Madoux F, Ferguson J, Mercer BA, Schurer S, Zuhl A, Cravatt BF, Leissring MA, Hodder P.

Probe Reports from the NIH Molecular Libraries Program [Internet]. Bethesda (MD): National Center for Biotechnology Information (US); 2010-.
2012 Dec 17 [updated 2014 May 13].

50.

Metadata Standard and Data Exchange Specifications to Describe, Model, and Integrate Complex and Diverse High-Throughput Screening Data from the Library of Integrated Network-based Cellular Signatures (LINCS).

Vempati UD, Chung C, Mader C, Koleti A, Datar N, Vidović D, Wrobel D, Erickson S, Muhlich JL, Berriz G, Benes CH, Subramanian A, Pillai A, Shamu CE, Schürer SC.

J Biomol Screen. 2014 Jun;19(5):803-16. doi: 10.1177/1087057114522514. Epub 2014 Feb 11.

PMID:
24518066

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