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Items: 41

1.

Registered access: authorizing data access.

Dyke SOM, Linden M, Lappalainen I, De Argila JR, Carey K, Lloyd D, Spalding JD, Cabili MN, Kerry G, Foreman J, Cutts T, Shabani M, Rodriguez LL, Haeussler M, Walsh B, Jiang X, Wang S, Perrett D, Boughtwood T, Matern A, Brookes AJ, Cupak M, Fiume M, Pandya R, Tulchinsky I, Scollen S, Törnroos J, Das S, Evans AC, Malin BA, Beck S, Brenner SE, Nyrönen T, Blomberg N, Firth HV, Hurles M, Philippakis AA, Rätsch G, Brudno M, Boycott KM, Rehm HL, Baudis M, Sherry ST, Kato K, Knoppers BM, Baker D, Flicek P.

Eur J Hum Genet. 2018 Dec;26(12):1721-1731. doi: 10.1038/s41431-018-0219-y. Epub 2018 Aug 2.

2.

General guidelines for biomedical software development.

Silva LB, Jimenez RC, Blomberg N, Luis Oliveira J.

Version 2. F1000Res. 2017 Mar 15 [revised 2017 Jan 1];6:273. doi: 10.12688/f1000research.10750.2. eCollection 2017. Review.

3.

Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data.

McMurry JA, Juty N, Blomberg N, Burdett T, Conlin T, Conte N, Courtot M, Deck J, Dumontier M, Fellows DK, Gonzalez-Beltran A, Gormanns P, Grethe J, Hastings J, Hériché JK, Hermjakob H, Ison JC, Jimenez RC, Jupp S, Kunze J, Laibe C, Le Novère N, Malone J, Martin MJ, McEntyre JR, Morris C, Muilu J, Müller W, Rocca-Serra P, Sansone SA, Sariyar M, Snoep JL, Soiland-Reyes S, Stanford NJ, Swainston N, Washington N, Williams AR, Wimalaratne SM, Winfree LM, Wolstencroft K, Goble C, Mungall CJ, Haendel MA, Parkinson H.

PLoS Biol. 2017 Jun 29;15(6):e2001414. doi: 10.1371/journal.pbio.2001414. eCollection 2017 Jun.

4.

Bridging the translational innovation gap through good biomarker practice.

van Gool AJ, Bietrix F, Caldenhoven E, Zatloukal K, Scherer A, Litton JE, Meijer G, Blomberg N, Smith A, Mons B, Heringa J, Koot WJ, Smit MJ, Hajduch M, Rijnders T, Ussi A.

Nat Rev Drug Discov. 2017 Sep;16(9):587-588. doi: 10.1038/nrd.2017.72. Epub 2017 Apr 28. No abstract available.

PMID:
28450744
5.

Identifying ELIXIR Core Data Resources.

Durinx C, McEntyre J, Appel R, Apweiler R, Barlow M, Blomberg N, Cook C, Gasteiger E, Kim JH, Lopez R, Redaschi N, Stockinger H, Teixeira D, Valencia A.

Version 2. F1000Res. 2016 Sep 30 [revised 2017 Jan 1];5. pii: ELIXIR-2422. doi: 10.12688/f1000research.9656.2. eCollection 2016.

6.

Erratum to: Making sense of big data in health research: towards an EU action plan.

Auffray C, Balling R, Barroso I, Bencze L, Benson M, Bergeron J, Bernal-Delgado E, Blomberg N, Bock C, Conesa A, Del Signore S, Delogne C, Devilee P, Di Meglio A, Eijkemans M, Flicek P, Graf N, Grimm V, Guchelaar HJ, Guo YK, Gut IG, Hanbury A, Hanif S, Hilgers RD, Honrado Á, Hose DR, Houwing-Duistermaat J, Hubbard T, Janacek SH, Karanikas H, Kievits T, Kohler M, Kremer A, Lanfear J, Lengauer T, Maes E, Meert T, Müller W, Nickel D, Oledzki P, Pedersen B, Petkovic M, Pliakos K, Rattray M, I Màs JR, Schneider R, Sengstag T, Serra-Picamal X, Spek W, Vaas LA, van Batenburg O, Vandelaer M, Varnai P, Villoslada P, Vizcaíno JA, Wubbe JP, Zanetti G.

Genome Med. 2016 Nov 7;8(1):118. No abstract available.

7.

Making sense of big data in health research: Towards an EU action plan.

Auffray C, Balling R, Barroso I, Bencze L, Benson M, Bergeron J, Bernal-Delgado E, Blomberg N, Bock C, Conesa A, Del Signore S, Delogne C, Devilee P, Di Meglio A, Eijkemans M, Flicek P, Graf N, Grimm V, Guchelaar HJ, Guo YK, Gut IG, Hanbury A, Hanif S, Hilgers RD, Honrado Á, Hose DR, Houwing-Duistermaat J, Hubbard T, Janacek SH, Karanikas H, Kievits T, Kohler M, Kremer A, Lanfear J, Lengauer T, Maes E, Meert T, Müller W, Nickel D, Oledzki P, Pedersen B, Petkovic M, Pliakos K, Rattray M, I Màs JR, Schneider R, Sengstag T, Serra-Picamal X, Spek W, Vaas LA, van Batenburg O, Vandelaer M, Varnai P, Villoslada P, Vizcaíno JA, Wubbe JP, Zanetti G.

Genome Med. 2016 Jun 23;8(1):71. doi: 10.1186/s13073-016-0323-y. Erratum in: Genome Med. 2016 Nov 7;8(1):118.

8.

Patterns of database citation in articles and patents indicate long-term scientific and industry value of biological data resources.

Bousfield D, McEntyre J, Velankar S, Papadatos G, Bateman A, Cochrane G, Kim JH, Graef F, Vartak V, Alako B, Blomberg N.

F1000Res. 2016 Feb 11;5. pii: ELIXIR-160. doi: 10.12688/f1000research.7911.1. eCollection 2016.

9.

The FAIR Guiding Principles for scientific data management and stewardship.

Wilkinson MD, Dumontier M, Aalbersberg IJ, Appleton G, Axton M, Baak A, Blomberg N, Boiten JW, da Silva Santos LB, Bourne PE, Bouwman J, Brookes AJ, Clark T, Crosas M, Dillo I, Dumon O, Edmunds S, Evelo CT, Finkers R, Gonzalez-Beltran A, Gray AJ, Groth P, Goble C, Grethe JS, Heringa J, 't Hoen PA, Hooft R, Kuhn T, Kok R, Kok J, Lusher SJ, Martone ME, Mons A, Packer AL, Persson B, Rocca-Serra P, Roos M, van Schaik R, Sansone SA, Schultes E, Sengstag T, Slater T, Strawn G, Swertz MA, Thompson M, van der Lei J, van Mulligen E, Velterop J, Waagmeester A, Wittenburg P, Wolstencroft K, Zhao J, Mons B.

Sci Data. 2016 Mar 15;3:160018. doi: 10.1038/sdata.2016.18.

10.

The ELIXIR channel in F1000Research.

Blomberg N, Oliveira A, Mons B, Persson B, Jonassen I.

Version 2. F1000Res. 2015 Dec 18 [revised 2016 Jan 1];4. pii: ELIXIR-1471. doi: 10.12688/f1000research.7587.2. eCollection 2015.

11.

[A Randomized Controlled Trial on the Effect of Earmuffs on Intermittent Hypoxia and Bradycardia in Preterm Infants].

Bott TS, Urschitz MS, Poets C, Blomberg N, Poets A.

Klin Padiatr. 2015 Sep;227(5):269-73. doi: 10.1055/s-0035-1547308. Epub 2015 Jun 12. German.

PMID:
26070052
12.

A quick guide for building a successful bioinformatics community.

Budd A, Corpas M, Brazas MD, Fuller JC, Goecks J, Mulder NJ, Michaut M, Ouellette BF, Pawlik A, Blomberg N.

PLoS Comput Biol. 2015 Feb 5;11(2):e1003972. doi: 10.1371/journal.pcbi.1003972. eCollection 2015 Feb.

13.

Mining Molecular Pharmacological Effects from Biomedical Text: a Case Study for Eliciting Anti-Obesity/Diabetes Effects of Chemical Compounds.

Dura E, Muresan S, Engkvist O, Blomberg N, Chen H.

Mol Inform. 2014 May;33(5):332-42. doi: 10.1002/minf.201300144. Epub 2014 May 12.

PMID:
27485890
14.

Scientific competency questions as the basis for semantically enriched open pharmacological space development.

Azzaoui K, Jacoby E, Senger S, Rodríguez EC, Loza M, Zdrazil B, Pinto M, Williams AJ, de la Torre V, Mestres J, Pastor M, Taboureau O, Rarey M, Chichester C, Pettifer S, Blomberg N, Harland L, Williams-Jones B, Ecker GF.

Drug Discov Today. 2013 Sep;18(17-18):843-52. doi: 10.1016/j.drudis.2013.05.008. Epub 2013 May 20. Review.

15.

SARConnect: A Tool to Interrogate the Connectivity Between Proteins, Chemical Structures and Activity Data.

Eriksson M, Nilsson I, Kogej T, Southan C, Johansson M, Tyrchan C, Muresan S, Blomberg N, Bjäreland M.

Mol Inform. 2012 Aug;31(8):555-568. Epub 2012 Aug 7.

16.

Taking Open Innovation to the Molecular Level - Strengths and Limitations.

Zdrazil B, Blomberg N, Ecker GF.

Mol Inform. 2012 Aug;31(8):528-535. Epub 2012 Aug 7.

17.

Big pharma screening collections: more of the same or unique libraries? The AstraZeneca-Bayer Pharma AG case.

Kogej T, Blomberg N, Greasley PJ, Mundt S, Vainio MJ, Schamberger J, Schmidt G, Hüser J.

Drug Discov Today. 2013 Oct;18(19-20):1014-24. doi: 10.1016/j.drudis.2012.10.011. Epub 2012 Nov 3. Review.

PMID:
23127858
18.

Theoretical studies of chemical reactivity of metabolically activated forms of aromatic amines toward DNA.

Shamovsky I, Ripa L, Blomberg N, Eriksson LA, Hansen P, Mee C, Tyrchan C, O'Donovan M, Sjö P.

Chem Res Toxicol. 2012 Oct 15;25(10):2236-52. doi: 10.1021/tx300313b. Epub 2012 Sep 20.

PMID:
22946514
19.

Open PHACTS: semantic interoperability for drug discovery.

Williams AJ, Harland L, Groth P, Pettifer S, Chichester C, Willighagen EL, Evelo CT, Blomberg N, Ecker G, Goble C, Mons B.

Drug Discov Today. 2012 Nov;17(21-22):1188-98. doi: 10.1016/j.drudis.2012.05.016. Epub 2012 Jun 7. Review.

20.

Strategies to improve in vivo toxicology outcomes for basic candidate drug molecules.

Luker T, Alcaraz L, Chohan KK, Blomberg N, Brown DS, Butlin RJ, Elebring T, Griffin AM, Guile S, St-Gallay S, Swahn BM, Swallow S, Waring MJ, Wenlock MC, Leeson PD.

Bioorg Med Chem Lett. 2011 Oct 1;21(19):5673-9. doi: 10.1016/j.bmcl.2011.07.074. Epub 2011 Jul 27.

PMID:
21852131
21.

Design and synthesis of macrocyclic indoles targeting blood coagulation cascade Factor XIa.

Hanessian S, Larsson A, Fex T, Knecht W, Blomberg N.

Bioorg Med Chem Lett. 2010 Dec 1;20(23):6925-8. doi: 10.1016/j.bmcl.2010.09.141. Epub 2010 Oct 8.

PMID:
21035339
22.

Combinatorial library design from reagent pharmacophore fingerprints.

Chen H, Engkvist O, Blomberg N.

Methods Mol Biol. 2011;685:135-52. doi: 10.1007/978-1-60761-931-4_7.

PMID:
20981522
23.

Physicochemical property profiles of marketed drugs, clinical candidates and bioactive compounds.

Tyrchan C, Blomberg N, Engkvist O, Kogej T, Muresan S.

Bioorg Med Chem Lett. 2009 Dec 15;19(24):6943-7. doi: 10.1016/j.bmcl.2009.10.068. Epub 2009 Oct 20.

PMID:
19879759
24.

Comparative binding energy analysis for binding affinity and target selectivity prediction.

Henrich S, Feierberg I, Wang T, Blomberg N, Wade RC.

Proteins. 2010 Jan;78(1):135-53. doi: 10.1002/prot.22579.

PMID:
19768680
25.

ProSAR: a new methodology for combinatorial library design.

Chen H, Börjesson U, Engkvist O, Kogej T, Svensson MA, Blomberg N, Weigelt D, Burrows JN, Lange T.

J Chem Inf Model. 2009 Mar;49(3):603-14.

PMID:
19434898
26.

Design of compound libraries for fragment screening.

Blomberg N, Cosgrove DA, Kenny PW, Kolmodin K.

J Comput Aided Mol Des. 2009 Aug;23(8):513-25. doi: 10.1007/s10822-009-9264-5. Epub 2009 Mar 13.

PMID:
19283339
27.

An integrated approach to fragment-based lead generation: philosophy, strategy and case studies from AstraZeneca's drug discovery programmes.

Albert JS, Blomberg N, Breeze AL, Brown AJ, Burrows JN, Edwards PD, Folmer RH, Geschwindner S, Griffen EJ, Kenny PW, Nowak T, Olsson LL, Sanganee H, Shapiro AB.

Curr Top Med Chem. 2007;7(16):1600-29. Review.

PMID:
17979771
28.

Structure-based organic synthesis of unnatural aeruginosin hybrids as potent inhibitors of thrombin.

Hanessian S, Ersmark K, Wang X, Del Valle JR, Blomberg N, Xue Y, Fjellström O.

Bioorg Med Chem Lett. 2007 Jun 15;17(12):3480-5. Epub 2007 Mar 27.

PMID:
17428662
29.

Development, interpretation and temporal evaluation of a global QSAR of hERG electrophysiology screening data.

Gavaghan CL, Arnby CH, Blomberg N, Strandlund G, Boyer S.

J Comput Aided Mol Des. 2007 Apr;21(4):189-206. Epub 2007 Mar 24.

PMID:
17384921
30.

Total synthesis and structural confirmation of chlorodysinosin A.

Hanessian S, Del Valle JR, Xue Y, Blomberg N.

J Am Chem Soc. 2006 Aug 16;128(32):10491-5. Erratum in: J Am Chem Soc. 2006 Sep 6;128(35):11727-8.

PMID:
16895415
31.

Multifingerprint based similarity searches for targeted class compound selection.

Kogej T, Engkvist O, Blomberg N, Muresan S.

J Chem Inf Model. 2006 May-Jun;46(3):1201-13.

PMID:
16711740
32.

Structure of the PPARalpha and -gamma ligand binding domain in complex with AZ 242; ligand selectivity and agonist activation in the PPAR family.

Cronet P, Petersen JF, Folmer R, Blomberg N, Sjöblom K, Karlsson U, Lindstedt EL, Bamberg K.

Structure. 2001 Aug;9(8):699-706.

33.

Structure of a PH domain from the C. elegans muscle protein UNC-89 suggests a novel function.

Blomberg N, Baraldi E, Sattler M, Saraste M, Nilges M.

Structure. 2000 Oct 15;8(10):1079-87.

34.

A new approach for applying residual dipolar couplings as restraints in structure elucidation.

Meiler J, Blomberg N, Nilges M, Griesinger C.

J Biomol NMR. 2000 Mar;16(3):245-52. Erratum in: J Biomol NMR 2000 Jun;17(2):185.

PMID:
10805131
35.

1H, 15N, and 13C resonance assignment of the PH domain from C. elegans UNC-89.

Blomberg N, Sattler M, Nilges M.

J Biomol NMR. 1999 Nov;15(3):269-70. No abstract available.

PMID:
10677831
36.

Classification of protein sequences by homology modeling and quantitative analysis of electrostatic similarity.

Blomberg N, Gabdoulline RR, Nilges M, Wade RC.

Proteins. 1999 Nov 15;37(3):379-87.

PMID:
10591098
37.

The PH superfold: a structural scaffold for multiple functions.

Blomberg N, Baraldi E, Nilges M, Saraste M.

Trends Biochem Sci. 1999 Nov;24(11):441-5. Review.

PMID:
10542412
38.

Functional diversity of PH domains: an exhaustive modelling study.

Blomberg N, Nilges M.

Fold Des. 1997;2(6):343-55.

39.

Internal repeats in the BRCA2 protein sequence.

Bork P, Blomberg N, Nilges M.

Nat Genet. 1996 May;13(1):22-3. No abstract available.

PMID:
8673099
40.

[INDICTMENT FOR EUTHANASIA DISMISSED].

BLOMBERG N, DAHLBOM W.

Lakartidningen. 1965 Feb 17;62:500-4. Swedish. No abstract available.

PMID:
14269649
41.

[SPEECH REGULATOR FOR TRACHEOTOMIZED PATIENTS].

BLOMBERG N, DAHLBOM W.

Lakartidningen. 1965 Feb 3;62:373-4. Swedish. No abstract available.

PMID:
14269648

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