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Items: 1 to 50 of 72

1.

An ex vivo tissue model of cartilage degradation suggests that cartilage state can be determined from secreted key protein patterns.

Neidlin M, Chantzi E, Macheras G, Gustafsson MG, Alexopoulos LG.

PLoS One. 2019 Oct 21;14(10):e0224231. doi: 10.1371/journal.pone.0224231. eCollection 2019.

2.

COMBImage2: a parallel computational framework for higher-order drug combination analysis that includes automated plate design, matched filter based object counting and temporal data mining.

Chantzi E, Jarvius M, Niklasson M, Segerman A, Gustafsson MG.

BMC Bioinformatics. 2019 Jun 4;20(1):304. doi: 10.1186/s12859-019-2908-0.

3.

COMBImage: a modular parallel processing framework for pairwise drug combination analysis that quantifies temporal changes in label-free video microscopy movies.

Chantzi E, Jarvius M, Niklasson M, Segerman A, Gustafsson MG.

BMC Bioinformatics. 2018 Nov 26;19(1):453. doi: 10.1186/s12859-018-2458-x.

4.

Signal, noise and resolution in linear and nonlinear structured-illumination microscopy.

Ingerman EA, London RA, Heintzmann R, Gustafsson MGL.

J Microsc. 2019 Jan;273(1):3-25. doi: 10.1111/jmi.12753. Epub 2018 Aug 28.

PMID:
30153327
5.

Bliss and Loewe interaction analyses of clinically relevant drug combinations in human colon cancer cell lines reveal complex patterns of synergy and antagonism.

Kashif M, Andersson C, Mansoori S, Larsson R, Nygren P, Gustafsson MG.

Oncotarget. 2017 Oct 19;8(61):103952-103967. doi: 10.18632/oncotarget.21895. eCollection 2017 Nov 28.

6.

Targeting tumor cells based on Phosphodiesterase 3A expression.

Nazir M, Senkowski W, Nyberg F, Blom K, Edqvist PH, Jarvius M, Andersson C, Gustafsson MG, Nygren P, Larsson R, Fryknäs M.

Exp Cell Res. 2017 Dec 15;361(2):308-315. doi: 10.1016/j.yexcr.2017.10.032. Epub 2017 Oct 26.

PMID:
29107068
7.

Large-Scale Gene Expression Profiling Platform for Identification of Context-Dependent Drug Responses in Multicellular Tumor Spheroids.

Senkowski W, Jarvius M, Rubin J, Lengqvist J, Gustafsson MG, Nygren P, Kultima K, Larsson R, Fryknäs M.

Cell Chem Biol. 2016 Nov 17;23(11):1428-1438. doi: 10.1016/j.chembiol.2016.09.013. Epub 2016 Oct 27.

8.

Combination screening in vitro identifies synergistically acting KP372-1 and cytarabine against acute myeloid leukemia.

Österroos A, Kashif M, Haglund C, Blom K, Höglund M, Andersson C, Gustafsson MG, Eriksson A, Larsson R.

Biochem Pharmacol. 2016 Oct 15;118:40-49. doi: 10.1016/j.bcp.2016.08.020. Epub 2016 Aug 24.

PMID:
27565890
9.

A Multiplex Protein Panel Applied to Cerebrospinal Fluid Reveals Three New Biomarker Candidates in ALS but None in Neuropathic Pain Patients.

Lind AL, Wu D, Freyhult E, Bodolea C, Ekegren T, Larsson A, Gustafsson MG, Katila L, Bergquist J, Gordh T, Landegren U, Kamali-Moghaddam M.

PLoS One. 2016 Feb 25;11(2):e0149821. doi: 10.1371/journal.pone.0149821. eCollection 2016.

10.

In vitro discovery of promising anti-cancer drug combinations using iterative maximisation of a therapeutic index.

Kashif M, Andersson C, Hassan S, Karlsson H, Senkowski W, Fryknäs M, Nygren P, Larsson R, Gustafsson MG.

Sci Rep. 2015 Sep 22;5:14118. doi: 10.1038/srep14118.

11.

DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia.

Nordlund J, Bäcklin CL, Zachariadis V, Cavelier L, Dahlberg J, Öfverholm I, Barbany G, Nordgren A, Övernäs E, Abrahamsson J, Flaegstad T, Heyman MM, Jónsson ÓG, Kanerva J, Larsson R, Palle J, Schmiegelow K, Gustafsson MG, Lönnerholm G, Forestier E, Syvänen AC.

Clin Epigenetics. 2015 Feb 17;7:11. doi: 10.1186/s13148-014-0039-z. eCollection 2015.

12.

Translational research in complementary and alternative medicine 2014.

Jia W, Lu A, Chan K, Gustafsson MG, Liu P.

Evid Based Complement Alternat Med. 2015;2015:427508. doi: 10.1155/2015/427508. Epub 2015 Jan 19. No abstract available.

13.

A Machine Learning Approach to Explain Drug Selectivity to Soluble and Membrane Protein Targets.

Freyhult E, Gustafsson MG, Strömbergsson H.

Mol Inform. 2015 Jan;34(1):44-52. doi: 10.1002/minf.201400121. Epub 2015 Jan 8.

PMID:
27490861
14.

Detection of cell aggregation and altered cell viability by automated label-free video microscopy: a promising alternative to endpoint viability assays in high-throughput screening.

Aftab O, Fryknäs M, Hammerling U, Larsson R, Gustafsson MG.

J Biomol Screen. 2015 Mar;20(3):372-81. doi: 10.1177/1087057114562158. Epub 2014 Dec 17.

PMID:
25520371
15.

NMR spectroscopy-based metabolic profiling of drug-induced changes in vitro can discriminate between pharmacological classes.

Aftab O, Engskog MK, Haglöf J, Elmsjö A, Arvidsson T, Pettersson C, Hammerling U, Gustafsson MG.

J Chem Inf Model. 2014 Nov 24;54(11):3251-8. doi: 10.1021/ci500502f. Epub 2014 Oct 30.

PMID:
25321343
16.

Label free high throughput screening for apoptosis inducing chemicals using time-lapse microscopy signal processing.

Aftab O, Nazir M, Fryknäs M, Hammerling U, Larsson R, Gustafsson MG.

Apoptosis. 2014 Sep;19(9):1411-8. doi: 10.1007/s10495-014-1009-9.

PMID:
24923770
17.

A pragmatic definition of therapeutic synergy suitable for clinically relevant in vitro multicompound analyses.

Kashif M, Andersson C, Åberg M, Nygren P, Sjöblom T, Hammerling U, Larsson R, Gustafsson MG.

Mol Cancer Ther. 2014 Jul;13(7):1964-76. doi: 10.1158/1535-7163.MCT-13-0430. Epub 2014 Apr 22.

18.

Label-free detection and dynamic monitoring of drug-induced intracellular vesicle formation enabled using a 2-dimensional matched filter.

Aftab O, Fryknäs M, Zhang X, De Milito A, Hammerling U, Linder S, Larsson R, Gustafsson MG.

Autophagy. 2014 Jan;10(1):57-69. doi: 10.4161/auto.26678. Epub 2013 Jan 1.

19.

Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia.

Nordlund J, Bäcklin CL, Wahlberg P, Busche S, Berglund EC, Eloranta ML, Flaegstad T, Forestier E, Frost BM, Harila-Saari A, Heyman M, Jónsson OG, Larsson R, Palle J, Rönnblom L, Schmiegelow K, Sinnett D, Söderhäll S, Pastinen T, Gustafsson MG, Lönnerholm G, Syvänen AC.

Genome Biol. 2013 Sep 24;14(9):r105. doi: 10.1186/gb-2013-14-9-r105.

20.

Automated QuantMap for rapid quantitative molecular network topology analysis.

Schaal W, Hammerling U, Gustafsson MG, Spjuth O.

Bioinformatics. 2013 Sep 15;29(18):2369-70. doi: 10.1093/bioinformatics/btt390. Epub 2013 Jul 4.

21.

Fast multicolor 3D imaging using aberration-corrected multifocus microscopy.

Abrahamsson S, Chen J, Hajj B, Stallinga S, Katsov AY, Wisniewski J, Mizuguchi G, Soule P, Mueller F, Dugast Darzacq C, Darzacq X, Wu C, Bargmann CI, Agard DA, Dahan M, Gustafsson MG.

Nat Methods. 2013 Jan;10(1):60-3. doi: 10.1038/nmeth.2277. Epub 2012 Dec 9.

22.

Analysis of intraosseous samples using point of care technology--an experimental study in the anaesthetised pig.

Strandberg G, Eriksson M, Gustafsson MG, Lipcsey M, Larsson A.

Resuscitation. 2012 Nov;83(11):1381-5. doi: 10.1016/j.resuscitation.2012.04.007. Epub 2012 Apr 25.

PMID:
22542768
23.

Assessing relative bioactivity of chemical substances using quantitative molecular network topology analysis.

Edberg A, Soeria-Atmadja D, Bergman Laurila J, Johansson F, Gustafsson MG, Hammerling U.

J Chem Inf Model. 2012 May 25;52(5):1238-49. doi: 10.1021/ci200429f. Epub 2012 Apr 24.

PMID:
22482822
24.

Interferometer-based structured-illumination microscopy utilizing complementary phase relationship through constructive and destructive image detection by two cameras.

Shao L, Winoto L, Agard DA, Gustafsson MG, Sedat JW.

J Microsc. 2012 Jun;246(3):229-36. doi: 10.1111/j.1365-2818.2012.03604.x. Epub 2012 Apr 4.

25.

Time-lapse two-color 3D imaging of live cells with doubled resolution using structured illumination.

Fiolka R, Shao L, Rego EH, Davidson MW, Gustafsson MG.

Proc Natl Acad Sci U S A. 2012 Apr 3;109(14):5311-5. doi: 10.1073/pnas.1119262109. Epub 2012 Mar 19.

26.

A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.

Enroth S, Andersson CR, Andersson R, Wadelius C, Gustafsson MG, Komorowski J.

Algorithms Mol Biol. 2012 Jan 16;7(1):2. doi: 10.1186/1748-7188-7-2.

27.

Digital gene expression profiling of primary acute lymphoblastic leukemia cells.

Nordlund J, Kiialainen A, Karlberg O, Berglund EC, Göransson-Kultima H, Sønderkær M, Nielsen KL, Gustafsson MG, Behrendtz M, Forestier E, Perkkiö M, Söderhäll S, Lönnerholm G, Syvänen AC.

Leukemia. 2012 Jun;26(6):1218-27. doi: 10.1038/leu.2011.358. Epub 2011 Dec 16.

28.

Nonlinear structured-illumination microscopy with a photoswitchable protein reveals cellular structures at 50-nm resolution.

Rego EH, Shao L, Macklin JJ, Winoto L, Johansson GA, Kamps-Hughes N, Davidson MW, Gustafsson MG.

Proc Natl Acad Sci U S A. 2012 Jan 17;109(3):E135-43. doi: 10.1073/pnas.1107547108. Epub 2011 Dec 12.

29.

Super-resolution 3D microscopy of live whole cells using structured illumination.

Shao L, Kner P, Rego EH, Gustafsson MG.

Nat Methods. 2011 Oct 16;8(12):1044-6. doi: 10.1038/nmeth.1734.

PMID:
22002026
30.

ProteinSeq: high-performance proteomic analyses by proximity ligation and next generation sequencing.

Darmanis S, Nong RY, Vänelid J, Siegbahn A, Ericsson O, Fredriksson S, Bäcklin C, Gut M, Heath S, Gut IG, Wallentin L, Gustafsson MG, Kamali-Moghaddam M, Landegren U.

PLoS One. 2011;6(9):e25583. doi: 10.1371/journal.pone.0025583. Epub 2011 Sep 29.

31.

Interrogating health-related public databases from a food toxicology perspective: computational analysis of scoring data.

Maddah F, Soeria-Atmadja D, Malm P, Gustafsson MG, Hammerling U.

Food Chem Toxicol. 2011 Nov;49(11):2830-40. doi: 10.1016/j.fct.2011.08.002. Epub 2011 Aug 10.

PMID:
21855594
32.

Abundance and functional roles of intrinsic disorder in allergenic proteins and allergen representative peptides.

Xue B, Soeria-Atmadja D, Gustafsson MG, Hammerling U, Dunker AK, Uversky VN.

Proteins. 2011 Sep;79(9):2595-606. doi: 10.1002/prot.23077. Epub 2011 Jul 5.

PMID:
21732419
33.

Quantitative chemogenomics: machine-learning models of protein-ligand interaction.

Andersson CR, Gustafsson MG, Strömbergsson H.

Curr Top Med Chem. 2011;11(15):1978-93. Review.

PMID:
21470169
34.

Improving Bayesian credibility intervals for classifier error rates using maximum entropy empirical priors.

Gustafsson MG, Wallman M, Wickenberg Bolin U, Göransson H, Fryknäs M, Andersson CR, Isaksson A.

Artif Intell Med. 2010 Jun;49(2):93-104. doi: 10.1016/j.artmed.2010.02.004. Epub 2010 Mar 27.

PMID:
20347582
35.

DNA methylation for subtype classification and prediction of treatment outcome in patients with childhood acute lymphoblastic leukemia.

Milani L, Lundmark A, Kiialainen A, Nordlund J, Flaegstad T, Forestier E, Heyman M, Jonmundsson G, Kanerva J, Schmiegelow K, Söderhäll S, Gustafsson MG, Lönnerholm G, Syvänen AC.

Blood. 2010 Feb 11;115(6):1214-25. doi: 10.1182/blood-2009-04-214668. Epub 2009 Nov 25.

PMID:
19965625
36.

Super-resolution video microscopy of live cells by structured illumination.

Kner P, Chhun BB, Griffis ER, Winoto L, Gustafsson MG.

Nat Methods. 2009 May;6(5):339-42. doi: 10.1038/nmeth.1324. Epub 2009 Apr 26.

37.

In vitro activity of 20 agents in different prognostic subgroups of chronic lymphocytic leukemia--rolipram and prednisolone active in cells from patients with poor prognosis.

Lindhagen E, Norberg M, Kanduri M, Tobin G, Säisänen L, Aberg M, Gustafsson MG, Sundström C, Rosenquist R, Aleskog A.

Eur J Haematol. 2009 Jul;83(1):22-34. doi: 10.1111/j.1600-0609.2009.01248.x. Epub 2009 Feb 24.

PMID:
19245531
38.

Rapamycin shows anticancer activity in primary chronic lymphocytic leukemia cells in vitro, as single agent and in drug combination.

Aleskog A, Norberg M, Nygren P, Rickardson L, Kanduri M, Tobin G, Aberg M, Gustafsson MG, Rosenquist R, Lindhagen E.

Leuk Lymphoma. 2008 Dec;49(12):2333-43. doi: 10.1080/10428190802475295.

PMID:
19052982
39.

Subdiffraction multicolor imaging of the nuclear periphery with 3D structured illumination microscopy.

Schermelleh L, Carlton PM, Haase S, Shao L, Winoto L, Kner P, Burke B, Cardoso MC, Agard DA, Gustafsson MG, Leonhardt H, Sedat JW.

Science. 2008 Jun 6;320(5881):1332-6. doi: 10.1126/science.1156947.

40.

Super-resolution light microscopy goes live.

Gustafsson MG.

Nat Methods. 2008 May;5(5):385-7. doi: 10.1038/nmeth0508-385. No abstract available.

PMID:
18446157
41.

Three-dimensional resolution doubling in wide-field fluorescence microscopy by structured illumination.

Gustafsson MG, Shao L, Carlton PM, Wang CJ, Golubovskaya IN, Cande WZ, Agard DA, Sedat JW.

Biophys J. 2008 Jun;94(12):4957-70. doi: 10.1529/biophysj.107.120345. Epub 2008 Mar 7.

42.

I5S: wide-field light microscopy with 100-nm-scale resolution in three dimensions.

Shao L, Isaac B, Uzawa S, Agard DA, Sedat JW, Gustafsson MG.

Biophys J. 2008 Jun;94(12):4971-83. doi: 10.1529/biophysj.107.120352. Epub 2008 Mar 7.

43.

Revealing cell cycle control by combining model-based detection of periodic expression with novel cis-regulatory descriptors.

Andersson CR, Hvidsten TR, Isaksson A, Gustafsson MG, Komorowski J.

BMC Syst Biol. 2007 Oct 16;1:45.

44.

Multivariate statistical analysis of large-scale IgE antibody measurements reveals allergen extract relationships in sensitized individuals.

Soeria-Atmadja D, Onell A, Kober A, Matsson P, Gustafsson MG, Hammerling U.

J Allergy Clin Immunol. 2007 Dec;120(6):1433-40. Epub 2007 Sep 7.

PMID:
17825892
45.

EVALLER: a web server for in silico assessment of potential protein allergenicity.

Martinez Barrio A, Soeria-Atmadja D, Nistér A, Gustafsson MG, Hammerling U, Bongcam-Rudloff E.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W694-700. Epub 2007 May 30.

46.

In vitro drug sensitivity-gene expression correlations involve a tissue of origin dependency.

Andersson CR, Fryknäs M, Rickardson L, Larsson R, Isaksson A, Gustafsson MG.

J Chem Inf Model. 2007 Jan-Feb;47(1):239-48.

PMID:
17238270
47.

Computational detection of allergenic proteins attains a new level of accuracy with in silico variable-length peptide extraction and machine learning.

Soeria-Atmadja D, Lundell T, Gustafsson MG, Hammerling U.

Nucleic Acids Res. 2006;34(13):3779-93. Epub 2006 Aug 23.

48.

Phenotype-based screening of mechanistically annotated compounds in combination with gene expression and pathway analysis identifies candidate drug targets in a human squamous carcinoma cell model.

Fryknäs M, Rickardson L, Wickström M, Dhar S, Lövborg H, Gullbo J, Nygren P, Gustafsson MG, Isaksson A, Larsson R.

J Biomol Screen. 2006 Aug;11(5):457-68.

PMID:
16928983
49.

Molecular markers for discrimination of benign and malignant follicular thyroid tumors.

Fryknäs M, Wickenberg-Bolin U, Göransson H, Gustafsson MG, Foukakis T, Lee JJ, Landegren U, Höög A, Larsson C, Grimelius L, Wallin G, Pettersson U, Isaksson A.

Tumour Biol. 2006;27(4):211-20. Epub 2006 May 2.

PMID:
16675914
50.

Improved variance estimation of classification performance via reduction of bias caused by small sample size.

Wickenberg-Bolin U, Göransson H, Fryknäs M, Gustafsson MG, Isaksson A.

BMC Bioinformatics. 2006 Mar 13;7:127.

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