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Items: 1 to 50 of 86

1.

Systematic evaluation of differential splicing tools for RNA-seq studies.

Mehmood A, Laiho A, Venäläinen MS, McGlinchey AJ, Wang N, Elo LL.

Brief Bioinform. 2019 Dec 5. pii: bbz126. doi: 10.1093/bib/bbz126. [Epub ahead of print]

PMID:
31802105
2.

Peripheral blood DNA methylation differences in twin pairs discordant for Alzheimer's disease.

Konki M, Malonzo M, Karlsson IK, Lindgren N, Ghimire B, Smolander J, Scheinin NM, Ollikainen M, Laiho A, Elo LL, Lönnberg T, Röyttä M, Pedersen NL, Kaprio J, Lähdesmäki H, Rinne JO, Lund RJ.

Clin Epigenetics. 2019 Sep 2;11(1):130. doi: 10.1186/s13148-019-0729-7.

3.

RepViz: a replicate-driven R tool for visualizing genomic regions.

Faux T, Rytkönen KT, Laiho A, Elo LL.

BMC Res Notes. 2019 Jul 19;12(1):441. doi: 10.1186/s13104-019-4473-z.

4.

Lack of androgen receptor SUMOylation results in male infertility due to epididymal dysfunction.

Zhang FP, Malinen M, Mehmood A, Lehtiniemi T, Jääskeläinen T, Niskanen EA, Korhonen H, Laiho A, Elo LL, Ohlsson C, Kotaja N, Poutanen M, Sipilä P, Palvimo JJ.

Nat Commun. 2019 Feb 15;10(1):777. doi: 10.1038/s41467-019-08730-z.

5.

Adrenals Contribute to Growth of Castration-Resistant VCaP Prostate Cancer Xenografts.

Huhtaniemi R, Oksala R, Knuuttila M, Mehmood A, Aho E, Laajala TD, Nicorici D, Aittokallio T, Laiho A, Elo L, Ohlsson C, Kallio P, Mäkelä S, Mustonen MVJ, Sipilä P, Poutanen M.

Am J Pathol. 2018 Dec;188(12):2890-2901. doi: 10.1016/j.ajpath.2018.07.029. Epub 2018 Sep 28.

PMID:
30273606
6.

Intratumoral androgen levels are linked to TMPRSS2-ERG fusion in prostate cancer.

Knuuttila M, Mehmood A, Mäki-Jouppila J, Ryberg H, Taimen P, Knaapila J, Ettala O, Boström PJ, Ohlsson C, Venäläinen MS, Laiho A, Elo LL, Sipilä P, Mäkelä SI, Poutanen M.

Endocr Relat Cancer. 2018 Sep;25(9):807-819. doi: 10.1530/ERC-18-0148. Epub 2018 May 17.

PMID:
29773553
7.

Cardiac repolarization during fingolimod treatment in patients with relapsing-remitting multiple sclerosis.

Laiho A, Laitinen TM, Hartikainen P, Hartikainen JEK, Laitinen TP, Simula S.

Brain Behav. 2018 Jan 30;8(2):e00925. doi: 10.1002/brb3.925. eCollection 2018 Feb.

8.

The impact of probiotic supplementation during pregnancy on DNA methylation of obesity-related genes in mothers and their children.

Vähämiko S, Laiho A, Lund R, Isolauri E, Salminen S, Laitinen K.

Eur J Nutr. 2019 Feb;58(1):367-377. doi: 10.1007/s00394-017-1601-1. Epub 2018 Jan 3.

PMID:
29299736
9.

Antiandrogens Reduce Intratumoral Androgen Concentrations and Induce Androgen Receptor Expression in Castration-Resistant Prostate Cancer Xenografts.

Knuuttila M, Mehmood A, Huhtaniemi R, Yatkin E, Häkkinen MR, Oksala R, Laajala TD, Ryberg H, Handelsman DJ, Aittokallio T, Auriola S, Ohlsson C, Laiho A, Elo LL, Sipilä P, Mäkelä SI, Poutanen M.

Am J Pathol. 2018 Jan;188(1):216-228. doi: 10.1016/j.ajpath.2017.08.036. Epub 2017 Nov 7.

PMID:
29126837
10.

Gene expression profiles and signaling mechanisms in α2B-adrenoceptor-evoked proliferation of vascular smooth muscle cells.

Huhtinen A, Hongisto V, Laiho A, Löyttyniemi E, Pijnenburg D, Scheinin M.

BMC Syst Biol. 2017 Jun 28;11(1):65. doi: 10.1186/s12918-017-0439-8.

11.

RNA Polymerase III Subunit POLR3G Regulates Specific Subsets of PolyA+ and SmallRNA Transcriptomes and Splicing in Human Pluripotent Stem Cells.

Lund RJ, Rahkonen N, Malonzo M, Kauko L, Emani MR, Kivinen V, Närvä E, Kemppainen E, Laiho A, Skottman H, Hovatta O, Rasool O, Nykter M, Lähdesmäki H, Lahesmaa R.

Stem Cell Reports. 2017 May 9;8(5):1442-1454. doi: 10.1016/j.stemcr.2017.04.016.

12.

The metabolic syndrome in mice overexpressing neuropeptide Y in noradrenergic neurons.

Ailanen L, Ruohonen ST, Vähätalo LH, Tuomainen K, Eerola K, Salomäki-Myftari H, Röyttä M, Laiho A, Ahotupa M, Gylling H, Savontaus E.

J Endocrinol. 2017 Jul;234(1):57-72. doi: 10.1530/JOE-16-0223. Epub 2017 May 3.

PMID:
28468933
13.

Gut Microbiota Analysis Results Are Highly Dependent on the 16S rRNA Gene Target Region, Whereas the Impact of DNA Extraction Is Minor.

Rintala A, Pietilä S, Munukka E, Eerola E, Pursiheimo JP, Laiho A, Pekkala S, Huovinen P.

J Biomol Tech. 2017 Apr;28(1):19-30. doi: 10.7171/jbt.17-2801-003. Epub 2017 Feb 28.

14.

Neuropeptide Y Overexpressing Female and Male Mice Show Divergent Metabolic but Not Gut Microbial Responses to Prenatal Metformin Exposure.

Salomäki-Myftari H, Vähätalo LH, Ailanen L, Pietilä S, Laiho A, Hänninen A, Pursiheimo JP, Munukka E, Rintala A, Savontaus E, Pesonen U, Koulu M.

PLoS One. 2016 Sep 28;11(9):e0163805. doi: 10.1371/journal.pone.0163805. eCollection 2016.

15.

Sphingosylphosphorylcholine regulates the Hippo signaling pathway in a dual manner.

Kemppainen K, Wentus N, Lassila T, Laiho A, Törnquist K.

Cell Signal. 2016 Dec;28(12):1894-1903. doi: 10.1016/j.cellsig.2016.09.004. Epub 2016 Sep 12.

PMID:
27634386
16.

Gut Microbiota Richness and Composition and Dietary Intake of Overweight Pregnant Women Are Related to Serum Zonulin Concentration, a Marker for Intestinal Permeability.

Mokkala K, Röytiö H, Munukka E, Pietilä S, Ekblad U, Rönnemaa T, Eerola E, Laiho A, Laitinen K.

J Nutr. 2016 Sep;146(9):1694-700. doi: 10.3945/jn.116.235358. Epub 2016 Jul 27.

PMID:
27466607
17.

Epigenetic Silencing of the Key Antioxidant Enzyme Catalase in Karyotypically Abnormal Human Pluripotent Stem Cells.

Konki M, Pasumarthy K, Malonzo M, Sainio A, Valensisi C, Söderström M, Emani MR, Stubb A, Närvä E, Ghimire B, Laiho A, Järveläinen H, Lahesmaa R, Lähdesmäki H, Hawkins RD, Lund RJ.

Sci Rep. 2016 Feb 25;6:22190. doi: 10.1038/srep22190.

18.

Retene causes multifunctional transcriptomic changes in the heart of rainbow trout (Oncorhynchus mykiss) embryos.

Vehniäinen ER, Bremer K, Scott JA, Junttila S, Laiho A, Gyenesei A, Hodson PV, Oikari AO.

Environ Toxicol Pharmacol. 2016 Jan;41:95-102. doi: 10.1016/j.etap.2015.11.015. Epub 2015 Nov 28.

PMID:
26667672
19.

IRF4 Deficiency Leads to Altered BCR Signalling Revealed by Enhanced PI3K Pathway, Decreased SHIP Expression and Defected Cytoskeletal Responses.

Budzyńska PM, Niemelä M, Sarapulov AV, Kyläniemi MK, Nera KP, Junttila S, Laiho A, Mattila PK, Alinikula J, Lassila O.

Scand J Immunol. 2015 Nov;82(5):418-28. doi: 10.1111/sji.12343.

20.

Differential Promoter Methylation of Macrophage Genes Is Associated With Impaired Vascular Growth in Ischemic Muscles of Hyperlipidemic and Type 2 Diabetic Mice: Genome-Wide Promoter Methylation Study.

Babu M, Durga Devi T, Mäkinen P, Kaikkonen M, Lesch HP, Junttila S, Laiho A, Ghimire B, Gyenesei A, Ylä-Herttuala S.

Circ Res. 2015 Jul 17;117(3):289-99. doi: 10.1161/CIRCRESAHA.115.306424. Epub 2015 Jun 17.

PMID:
26085133
21.

Seasonal gene expression kinetics between diapause phases in Drosophila virilis group species and overwintering differences between diapausing and non-diapausing females.

Salminen TS, Vesala L, Laiho A, Merisalo M, Hoikkala A, Kankare M.

Sci Rep. 2015 Jun 11;5:11197. doi: 10.1038/srep11197.

22.

Maternal diabetes induces changes in the umbilical cord gene expression.

Koskinen A, Lehtoranta L, Laiho A, Laine J, Kääpä P, Soukka H.

Placenta. 2015 Jul;36(7):767-74. doi: 10.1016/j.placenta.2015.04.004. Epub 2015 Apr 18.

PMID:
25935091
23.

Identification of Reproduction-Related Gene Polymorphisms Using Whole Transcriptome Sequencing in the Large White Pig Population.

Fischer D, Laiho A, Gyenesei A, Sironen A.

G3 (Bethesda). 2015 Apr 27;5(7):1351-60. doi: 10.1534/g3.115.018382.

24.

How consistent are the transcriptome changes associated with cold acclimation in two species of the Drosophila virilis group?

Parker DJ, Vesala L, Ritchie MG, Laiho A, Hoikkala A, Kankare M.

Heredity (Edinb). 2015 Jul;115(1):13-21. doi: 10.1038/hdy.2015.6. Epub 2015 Feb 11.

25.

A note on an exon-based strategy to identify differentially expressed genes in RNA-seq experiments.

Laiho A, Elo LL.

PLoS One. 2014 Dec 26;9(12):e115964. doi: 10.1371/journal.pone.0115964. eCollection 2014.

26.

Gut microbiota as an epigenetic regulator: pilot study based on whole-genome methylation analysis.

Kumar H, Lund R, Laiho A, Lundelin K, Ley RE, Isolauri E, Salminen S.

MBio. 2014 Dec 16;5(6). pii: e02113-14. doi: 10.1128/mBio.02113-14.

27.

Early dental epithelial transcription factors distinguish ameloblastoma from keratocystic odontogenic tumor.

Heikinheimo K, Kurppa KJ, Laiho A, Peltonen S, Berdal A, Bouattour A, Ruhin B, Catón J, Thesleff I, Leivo I, Morgan PR.

J Dent Res. 2015 Jan;94(1):101-11. doi: 10.1177/0022034514556815. Epub 2014 Nov 14.

PMID:
25398365
28.

Genome Sequence of Coxsackievirus A6, Isolated during a Hand-Foot-and-Mouth Disease Outbreak in Finland in 2008.

Osterback R, Koskinen S, Merilahti P, Pursiheimo JP, Blomqvist S, Roivainen M, Laiho A, Susi P, Waris M.

Genome Announc. 2014 Oct 16;2(5). pii: e01004-14. doi: 10.1128/genomeA.01004-14.

29.

Fermentable fibres condition colon microbiota and promote diabetogenesis in NOD mice.

Toivonen RK, Emani R, Munukka E, Rintala A, Laiho A, Pietilä S, Pursiheimo JP, Soidinsalo P, Linhala M, Eerola E, Huovinen P, Hänninen A.

Diabetologia. 2014 Oct;57(10):2183-92. doi: 10.1007/s00125-014-3325-6. Epub 2014 Jul 17.

PMID:
25031069
30.

Promoter-specific alterations of APC are a rare cause for mutation-negative familial adenomatous polyposis.

Pavicic W, Nieminen TT, Gylling A, Pursiheimo JP, Laiho A, Gyenesei A, Järvinen HJ, Peltomäki P.

Genes Chromosomes Cancer. 2014 Oct;53(10):857-64. doi: 10.1002/gcc.22197. Epub 2014 Jun 20.

PMID:
24946964
31.

A recent L1 insertion within SPEF2 gene is associated with changes in PRLR expression in sow reproductive organs.

Sironen A, Fischer D, Laiho A, Gyenesei A, Vilkki J.

Anim Genet. 2014 Aug;45(4):500-7. doi: 10.1111/age.12153. Epub 2014 Apr 9.

PMID:
24712415
32.

Gene expression differences between Noccaea caerulescens ecotypes help to identify candidate genes for metal phytoremediation.

Halimaa P, Lin YF, Ahonen VH, Blande D, Clemens S, Gyenesei A, Häikiö E, Kärenlampi SO, Laiho A, Aarts MG, Pursiheimo JP, Schat H, Schmidt H, Tuomainen MH, Tervahauta AI.

Environ Sci Technol. 2014 Mar 18;48(6):3344-53. doi: 10.1021/es4042995. Epub 2014 Mar 6.

PMID:
24559272
33.

Diblock-copolymer-mediated self-assembly of protein-stabilized iron oxide nanoparticle clusters for magnetic resonance imaging.

Tähkä S, Laiho A, Kostiainen MA.

Chemistry. 2014 Mar 3;20(10):2718-22. doi: 10.1002/chem.201304070. Epub 2014 Feb 12.

PMID:
24523066
34.

Whole transcriptome characterization of the effects of dehydration and rehydration on Cladonia rangiferina, the grey reindeer lichen.

Junttila S, Laiho A, Gyenesei A, Rudd S.

BMC Genomics. 2013 Dec 10;14:870. doi: 10.1186/1471-2164-14-870.

35.

Comparison of software packages for detecting differential expression in RNA-seq studies.

Seyednasrollah F, Laiho A, Elo LL.

Brief Bioinform. 2015 Jan;16(1):59-70. doi: 10.1093/bib/bbt086. Epub 2013 Dec 2.

36.

Continuous hypoxic culturing of human embryonic stem cells enhances SSEA-3 and MYC levels.

Närvä E, Pursiheimo JP, Laiho A, Rahkonen N, Emani MR, Viitala M, Laurila K, Sahla R, Lund R, Lähdesmäki H, Jaakkola P, Lahesmaa R.

PLoS One. 2013 Nov 13;8(11):e78847. doi: 10.1371/journal.pone.0078847. eCollection 2013.

37.

Effect of ciprofloxacin exposure on DNA repair mechanisms in Campylobacter jejuni.

Hyytiäinen H, Juntunen P, Scott T, Kytömäki L, Venho R, Laiho A, Junttila S, Gyenesei A, Revez J, Hänninen ML.

Microbiology. 2013 Dec;159(Pt 12):2513-23. doi: 10.1099/mic.0.069203-0. Epub 2013 Sep 11.

PMID:
24025607
38.

Transcriptome profiling of the murine testis during the first wave of spermatogenesis.

Laiho A, Kotaja N, Gyenesei A, Sironen A.

PLoS One. 2013 Apr 17;8(4):e61558. doi: 10.1371/journal.pone.0061558. Print 2013.

39.

Electrostatic assembly of binary nanoparticle superlattices using protein cages.

Kostiainen MA, Hiekkataipale P, Laiho A, Lemieux V, Seitsonen J, Ruokolainen J, Ceci P.

Nat Nanotechnol. 2013 Jan;8(1):52-6. doi: 10.1038/nnano.2012.220. Epub 2012 Dec 16.

PMID:
23241655
40.

Expression of small nucleolar RNAs in leukemic cells.

Teittinen KJ, Laiho A, Uusimäki A, Pursiheimo JP, Gyenesei A, Lohi O.

Cell Oncol (Dordr). 2013 Feb;36(1):55-63. doi: 10.1007/s13402-012-0113-5. Epub 2012 Nov 15.

PMID:
23229394
41.

SAP30L (Sin3A-associated protein 30-like) is involved in regulation of cardiac development and hematopoiesis in zebrafish embryos.

Teittinen KJ, Grönroos T, Parikka M, Junttila S, Uusimäki A, Laiho A, Korkeamäki H, Kurppa K, Turpeinen H, Pesu M, Gyenesei A, Rämet M, Lohi O.

J Cell Biochem. 2012 Dec;113(12):3843-52. doi: 10.1002/jcb.24298.

PMID:
22821512
42.

BiForce Toolbox: powerful high-throughput computational analysis of gene-gene interactions in genome-wide association studies.

Gyenesei A, Moody J, Laiho A, Semple CA, Haley CS, Wei WH.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W628-32. doi: 10.1093/nar/gks550. Epub 2012 Jun 11.

43.

Cold tolerance and cold-induced modulation of gene expression in two Drosophila virilis group species with different distributions.

Vesala L, Salminen TS, Laiho A, Hoikkala A, Kankare M.

Insect Mol Biol. 2012 Feb;21(1):107-18. doi: 10.1111/j.1365-2583.2011.01119.x. Epub 2011 Nov 28.

PMID:
22122733
44.

Controlling the dimensionality of charge transport in an organic electrochemical transistor by capacitive coupling.

Larsson O, Laiho A, Schmickler W, Berggren M, Crispin X.

Adv Mater. 2011 Nov 2;23(41):4764-9. doi: 10.1002/adma.201103131. Epub 2011 Sep 27. No abstract available.

PMID:
21953895
45.

Controlling the dimensionality of charge transport in organic thin-film transistors.

Laiho A, Herlogsson L, Forchheimer R, Crispin X, Berggren M.

Proc Natl Acad Sci U S A. 2011 Sep 13;108(37):15069-73. doi: 10.1073/pnas.1107063108. Epub 2011 Aug 29.

46.

Tet1 and Tet2 regulate 5-hydroxymethylcytosine production and cell lineage specification in mouse embryonic stem cells.

Koh KP, Yabuuchi A, Rao S, Huang Y, Cunniff K, Nardone J, Laiho A, Tahiliani M, Sommer CA, Mostoslavsky G, Lahesmaa R, Orkin SH, Rodig SJ, Daley GQ, Rao A.

Cell Stem Cell. 2011 Feb 4;8(2):200-13. doi: 10.1016/j.stem.2011.01.008.

47.

Superhydrophobic and superoleophobic nanocellulose aerogel membranes as bioinspired cargo carriers on water and oil.

Jin H, Kettunen M, Laiho A, Pynnönen H, Paltakari J, Marmur A, Ikkala O, Ras RH.

Langmuir. 2011 Mar 1;27(5):1930-4. doi: 10.1021/la103877r. Epub 2011 Jan 19.

PMID:
21247181
48.

Maternal hyperglycemia modifies extracellular matrix signaling pathways in neonatal rat lung.

Koskinen A, Laiho A, Lukkarinen H, Kääpä P, Soukka H.

Neonatology. 2010;98(4):387-96. doi: 10.1159/000317010. Epub 2010 Nov 4.

PMID:
21051908
49.

Short-term hyperglycaemia causes non-reversible changes in arterial gene expression in a fully 'switchable' in vivo mouse model of diabetes.

Zervou S, Wang YF, Laiho A, Gyenesei A, Kytömäki L, Hermann R, Abouna S, Epstein D, Pelengaris S, Khan M.

Diabetologia. 2010 Dec;53(12):2676-87. doi: 10.1007/s00125-010-1887-5. Epub 2010 Sep 16.

PMID:
20844862
50.

Heat shock transcription factor 1 localizes to sex chromatin during meiotic repression.

Akerfelt M, Vihervaara A, Laiho A, Conter A, Christians ES, Sistonen L, Henriksson E.

J Biol Chem. 2010 Nov 5;285(45):34469-76. doi: 10.1074/jbc.M110.157552. Epub 2010 Aug 27.

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