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Items: 1 to 50 of 70

1.

SMUG1 Promotes Telomere Maintenance through Telomerase RNA Processing.

Kroustallaki P, Lirussi L, Carracedo S, You P, Esbensen QY, Götz A, Jobert L, Alsøe L, Sætrom P, Gagos S, Nilsen H.

Cell Rep. 2019 Aug 13;28(7):1690-1702.e10. doi: 10.1016/j.celrep.2019.07.040.

2.

PyRanges: efficient comparison of genomic intervals in Python.

Stovner EB, Sætrom P.

Bioinformatics. 2019 Aug 2. pii: btz615. doi: 10.1093/bioinformatics/btz615. [Epub ahead of print]

PMID:
31373614
3.

Unique-region phosphorylation targets LynA for rapid degradation, tuning its expression and signaling in myeloid cells.

Brian BF 4th, Jolicoeur AS, Guerrero CR, Nunez MG, Sychev ZE, Hegre SA, Sætrom P, Habib N, Drake JM, Schwertfeger KL, Freedman TS.

Elife. 2019 Jul 8;8. pii: e46043. doi: 10.7554/eLife.46043.

4.

epic2 efficiently finds diffuse domains in ChIP-seq data.

Stovner EB, Sætrom P.

Bioinformatics. 2019 Mar 28. pii: btz232. doi: 10.1093/bioinformatics/btz232. [Epub ahead of print]

PMID:
30923821
5.

Small RNA expression from viruses, bacteria and human miRNAs in colon cancer tissue and its association with microsatellite instability and tumor location.

Mjelle R, Sjursen W, Thommesen L, Sætrom P, Hofsli E.

BMC Cancer. 2019 Feb 20;19(1):161. doi: 10.1186/s12885-019-5330-0.

6.

Mechanisms involved in the activation of C/EBPα by small activating RNA in hepatocellular carcinoma.

Zhao X, Reebye V, Hitchen P, Fan J, Jiang H, Sætrom P, Rossi J, Habib NA, Huang KW.

Oncogene. 2019 May;38(18):3446-3457. doi: 10.1038/s41388-018-0665-6. Epub 2019 Jan 14.

PMID:
30643190
7.

Gene activation of CEBPA using saRNA: preclinical studies of the first in human saRNA drug candidate for liver cancer.

Reebye V, Huang KW, Lin V, Jarvis S, Cutilas P, Dorman S, Ciriello S, Andrikakou P, Voutila J, Saetrom P, Mintz PJ, Reccia I, Rossi JJ, Huber H, Habib R, Kostomitsopoulos N, Blakey DC, Habib NA.

Oncogene. 2018 Jun;37(24):3216-3228. doi: 10.1038/s41388-018-0126-2. Epub 2018 Mar 7.

8.

Identification of metastasis-associated microRNAs in serum from rectal cancer patients.

Mjelle R, Sellæg K, Sætrom P, Thommesen L, Sjursen W, Hofsli E.

Oncotarget. 2017 Sep 30;8(52):90077-90089. doi: 10.18632/oncotarget.21412. eCollection 2017 Oct 27.

9.

Development and Mechanism of Small Activating RNA Targeting CEBPA, a Novel Therapeutic in Clinical Trials for Liver Cancer.

Voutila J, Reebye V, Roberts TC, Protopapa P, Andrikakou P, Blakey DC, Habib R, Huber H, Saetrom P, Rossi JJ, Habib NA.

Mol Ther. 2017 Dec 6;25(12):2705-2714. doi: 10.1016/j.ymthe.2017.07.018. Epub 2017 Aug 4.

10.

An integrated expression atlas of miRNAs and their promoters in human and mouse.

de Rie D, Abugessaisa I, Alam T, Arner E, Arner P, Ashoor H, Åström G, Babina M, Bertin N, Burroughs AM, Carlisle AJ, Daub CO, Detmar M, Deviatiiarov R, Fort A, Gebhard C, Goldowitz D, Guhl S, Ha TJ, Harshbarger J, Hasegawa A, Hashimoto K, Herlyn M, Heutink P, Hitchens KJ, Hon CC, Huang E, Ishizu Y, Kai C, Kasukawa T, Klinken P, Lassmann T, Lecellier CH, Lee W, Lizio M, Makeev V, Mathelier A, Medvedeva YA, Mejhert N, Mungall CJ, Noma S, Ohshima M, Okada-Hatakeyama M, Persson H, Rizzu P, Roudnicky F, Sætrom P, Sato H, Severin J, Shin JW, Swoboda RK, Tarui H, Toyoda H, Vitting-Seerup K, Winteringham L, Yamaguchi Y, Yasuzawa K, Yoneda M, Yumoto N, Zabierowski S, Zhang PG, Wells CA, Summers KM, Kawaji H, Sandelin A, Rehli M; FANTOM Consortium, Hayashizaki Y, Carninci P, Forrest ARR, de Hoon MJL.

Nat Biotechnol. 2017 Sep;35(9):872-878. doi: 10.1038/nbt.3947. Epub 2017 Aug 21.

11.

Genome-wide profiling of DNA 5-hydroxymethylcytosine during rat Sertoli cell maturation.

Landfors M, Johansen J, Aronsen JM, Vågbø CB, Doré LC, He C, Sjaastad I, Sætrom P, Fedorcsák P, Dahl JA, Aanes H, Fußer M, Klungland A.

Cell Discov. 2017 May 9;3:17013. doi: 10.1038/celldisc.2017.13. eCollection 2017.

12.

Gene expression differences between PAXgene and Tempus blood RNA tubes are highly reproducible between independent samples and biobanks.

Skogholt AH, Ryeng E, Erlandsen SE, Skorpen F, Schønberg SA, Sætrom P.

BMC Res Notes. 2017 Mar 23;10(1):136. doi: 10.1186/s13104-017-2455-6.

13.

MicroRNAs contribute to postnatal development of laminar differences and neuronal subtypes in the rat medial entorhinal cortex.

Olsen LC, O'Reilly KC, Liabakk NB, Witter MP, Sætrom P.

Brain Struct Funct. 2017 Sep;222(7):3107-3126. doi: 10.1007/s00429-017-1389-z. Epub 2017 Mar 4.

14.

NEIL3-Dependent Regulation of Cardiac Fibroblast Proliferation Prevents Myocardial Rupture.

Olsen MB, Hildrestrand GA, Scheffler K, Vinge LE, Alfsnes K, Palibrk V, Wang J, Neurauter CG, Luna L, Johansen J, Øgaard JDS, Ohm IK, Slupphaug G, Kuśnierczyk A, Fiane AE, Brorson SH, Zhang L, Gullestad L, Louch WE, Iversen PO, Østlie I, Klungland A, Christensen G, Sjaastad I, Sætrom P, Yndestad A, Aukrust P, Bjørås M, Finsen AV.

Cell Rep. 2017 Jan 3;18(1):82-92. doi: 10.1016/j.celrep.2016.12.009.

15.

Pathway Analysis of Skin from Psoriasis Patients after Adalimumab Treatment Reveals New Early Events in the Anti-Inflammatory Mechanism of Anti-TNF-α.

Langkilde A, Olsen LC, Sætrom P, Drabløs F, Besenbacher S, Raaby L, Johansen C, Iversen L.

PLoS One. 2016 Dec 22;11(12):e0167437. doi: 10.1371/journal.pone.0167437. eCollection 2016.

16.

Excerpts from the 1st international NTNU symposium on current and future clinical biomarkers of cancer: innovation and implementation, June 16th and 17th 2016, Trondheim, Norway.

Robles AI, Olsen KS, Tsui DW, Georgoulias V, Creaney J, Dobra K, Vyberg M, Minato N, Anders RA, Børresen-Dale AL, Zhou J, Sætrom P, Nielsen BS, Kirschner MB, Krokan HE, Papadimitrakopoulou V, Tsamardinos I, Røe OD.

J Transl Med. 2016 Oct 19;14(1):295.

17.

The importance of p53 pathway genetics in inherited and somatic cancer genomes.

Stracquadanio G, Wang X, Wallace MD, Grawenda AM, Zhang P, Hewitt J, Zeron-Medina J, Castro-Giner F, Tomlinson IP, Goding CR, Cygan KJ, Fairbrother WG, Thomas LF, Sætrom P, Gemignani F, Landi S, Schuster-Böckler B, Bell DA, Bond GL.

Nat Rev Cancer. 2016 Apr;16(4):251-65. doi: 10.1038/nrc.2016.15. Review.

PMID:
27009395
18.

Targeted Delivery of C/EBPα -saRNA by Pancreatic Ductal Adenocarcinoma-specific RNA Aptamers Inhibits Tumor Growth In Vivo.

Yoon S, Huang KW, Reebye V, Mintz P, Tien YW, Lai HS, Sætrom P, Reccia I, Swiderski P, Armstrong B, Jozwiak A, Spalding D, Jiao L, Habib N, Rossi JJ.

Mol Ther. 2016 Jun;24(6):1106-1116. doi: 10.1038/mt.2016.60. Epub 2016 Mar 17. Erratum in: Mol Ther. 2016 Dec;24(12):2131-2132.

19.

Human Breast Milk miRNA, Maternal Probiotic Supplementation and Atopic Dermatitis in Offspring.

Simpson MR, Brede G, Johansen J, Johnsen R, Storrø O, Sætrom P, Øien T.

PLoS One. 2015 Dec 14;10(12):e0143496. doi: 10.1371/journal.pone.0143496. eCollection 2015.

20.

RNA motif discovery: a computational overview.

Achar A, Sætrom P.

Biol Direct. 2015 Oct 9;10:61. doi: 10.1186/s13062-015-0090-5. Review.

21.

Cell cycle regulation of human DNA repair and chromatin remodeling genes.

Mjelle R, Hegre SA, Aas PA, Slupphaug G, Drabløs F, Saetrom P, Krokan HE.

DNA Repair (Amst). 2015 Jun;30:53-67. doi: 10.1016/j.dnarep.2015.03.007. Epub 2015 Mar 28.

22.

A novel POLE mutation associated with cancers of colon, pancreas, ovaries and small intestine.

Hansen MF, Johansen J, Bjørnevoll I, Sylvander AE, Steinsbekk KS, Sætrom P, Sandvik AK, Drabløs F, Sjursen W.

Fam Cancer. 2015 Sep;14(3):437-48. doi: 10.1007/s10689-015-9803-2.

23.

AID expression in B-cell lymphomas causes accumulation of genomic uracil and a distinct AID mutational signature.

Pettersen HS, Galashevskaya A, Doseth B, Sousa MM, Sarno A, Visnes T, Aas PA, Liabakk NB, Slupphaug G, Sætrom P, Kavli B, Krokan HE.

DNA Repair (Amst). 2015 Jan;25:60-71. doi: 10.1016/j.dnarep.2014.11.006. Epub 2014 Nov 24.

24.

Regulation of inflammatory phenotype in macrophages by a diabetes-induced long noncoding RNA.

Reddy MA, Chen Z, Park JT, Wang M, Lanting L, Zhang Q, Bhatt K, Leung A, Wu X, Putta S, Sætrom P, Devaraj S, Natarajan R.

Diabetes. 2014 Dec;63(12):4249-61. doi: 10.2337/db14-0298. Epub 2014 Jul 9.

25.

Circular RNAs are depleted of polymorphisms at microRNA binding sites.

Thomas LF, Sætrom P.

Bioinformatics. 2014 Aug 15;30(16):2243-6. doi: 10.1093/bioinformatics/btu257. Epub 2014 Apr 24.

26.

Error-free versus mutagenic processing of genomic uracil--relevance to cancer.

Krokan HE, Sætrom P, Aas PA, Pettersen HS, Kavli B, Slupphaug G.

DNA Repair (Amst). 2014 Jul;19:38-47. doi: 10.1016/j.dnarep.2014.03.028. Epub 2014 Apr 18. Review.

27.

The eGenVar data management system--cataloguing and sharing sensitive data and metadata for the life sciences.

Razick S, Močnik R, Thomas LF, Ryeng E, Drabløs F, Sætrom P.

Database (Oxford). 2014 Mar 28;2014:bau027. doi: 10.1093/database/bau027. Print 2014.

28.

Whole-exome sequencing identifies rare and low-frequency coding variants associated with LDL cholesterol.

Lange LA, Hu Y, Zhang H, Xue C, Schmidt EM, Tang ZZ, Bizon C, Lange EM, Smith JD, Turner EH, Jun G, Kang HM, Peloso G, Auer P, Li KP, Flannick J, Zhang J, Fuchsberger C, Gaulton K, Lindgren C, Locke A, Manning A, Sim X, Rivas MA, Holmen OL, Gottesman O, Lu Y, Ruderfer D, Stahl EA, Duan Q, Li Y, Durda P, Jiao S, Isaacs A, Hofman A, Bis JC, Correa A, Griswold ME, Jakobsdottir J, Smith AV, Schreiner PJ, Feitosa MF, Zhang Q, Huffman JE, Crosby J, Wassel CL, Do R, Franceschini N, Martin LW, Robinson JG, Assimes TL, Crosslin DR, Rosenthal EA, Tsai M, Rieder MJ, Farlow DN, Folsom AR, Lumley T, Fox ER, Carlson CS, Peters U, Jackson RD, van Duijn CM, Uitterlinden AG, Levy D, Rotter JI, Taylor HA, Gudnason V Jr, Siscovick DS, Fornage M, Borecki IB, Hayward C, Rudan I, Chen YE, Bottinger EP, Loos RJ, Sætrom P, Hveem K, Boehnke M, Groop L, McCarthy M, Meitinger T, Ballantyne CM, Gabriel SB, O'Donnell CJ, Post WS, North KE, Reiner AP, Boerwinkle E, Psaty BM, Altshuler D, Kathiresan S, Lin DY, Jarvik GP, Cupples LA, Kooperberg C, Wilson JG, Nickerson DA, Abecasis GR, Rich SS, Tracy RP, Willer CJ; NHLBI Grand Opportunity Exome Sequencing Project.

Am J Hum Genet. 2014 Feb 6;94(2):233-45. doi: 10.1016/j.ajhg.2014.01.010.

29.

MicroRNAs act complementarily to regulate disease-related mRNA modules in human diseases.

Chavali S, Bruhn S, Tiemann K, Saetrom P, Barrenäs F, Saito T, Kanduri K, Wang H, Benson M.

RNA. 2013 Nov;19(11):1552-62. doi: 10.1261/rna.038414.113. Epub 2013 Sep 23.

30.

Exploiting human CD34+ stem cell-conditioned medium for tissue repair.

Mintz PJ, Huang KW, Reebye V, Nteliopoulos G, Lai HS, Sætrom P, Kasahara N, Jensen S, Pai M, Gordon MY, Marley SB, Behan R, Spalding DR, Haoudi A, Emara MM, Nicholls J, Rossi JJ, Habib NA.

Mol Ther. 2014 Jan;22(1):149-59. doi: 10.1038/mt.2013.194. Epub 2013 Aug 28.

31.

Novel RNA oligonucleotide improves liver function and inhibits liver carcinogenesis in vivo.

Reebye V, Sætrom P, Mintz PJ, Huang KW, Swiderski P, Peng L, Liu C, Liu X, Lindkaer-Jensen S, Zacharoulis D, Kostomitsopoulos N, Kasahara N, Nicholls JP, Jiao LR, Pai M, Spalding DR, Mizandari M, Chikovani T, Emara MM, Haoudi A, Tomalia DA, Rossi JJ, Habib NA.

Hepatology. 2014 Jan;59(1):216-27. doi: 10.1002/hep.26669. Epub 2013 Dec 9.

32.

A Short-activating RNA Oligonucleotide Targeting the Islet β-cell Transcriptional Factor MafA in CD34(+) Cells.

Reebye V, Sætrom P, Mintz PJ, Rossi JJ, Kasahara N, Nteliopoulos G, Nicholls J, Haoudi A, Gordon M, Habib NA.

Mol Ther Nucleic Acids. 2013 Jun 4;2:e97. doi: 10.1038/mtna.2013.23.

33.

Novel long noncoding RNAs are regulated by angiotensin II in vascular smooth muscle cells.

Leung A, Trac C, Jin W, Lanting L, Akbany A, Sætrom P, Schones DE, Natarajan R.

Circ Res. 2013 Jul 19;113(3):266-78. doi: 10.1161/CIRCRESAHA.112.300849. Epub 2013 May 22.

34.

Gene Expression Profile Changes After Short-activating RNA-mediated Induction of Endogenous Pluripotency Factors in Human Mesenchymal Stem Cells.

Voutila J, Sætrom P, Mintz P, Sun G, Alluin J, Rossi JJ, Habib NA, Kasahara N.

Mol Ther Nucleic Acids. 2012 Aug 7;1:e35. doi: 10.1038/mtna.2012.20.

35.

MicroRNA-181a* Targets Nanog in a Subpopulation of CD34(+) Cells Isolated From Peripheral Blood.

Mintz PJ, Sætrom P, Reebye V, Lundbæk MB, Lao K, Rossi JJ, Gaensler KM, Kasahara N, Nicholls JP, Jensen S, Haoudi A, Emara MM, Gordon MY, Habib NA.

Mol Ther Nucleic Acids. 2012 Aug 7;1:e34. doi: 10.1038/mtna.2012.29.

36.

Transcription profiling during the cell cycle shows that a subset of Polycomb-targeted genes is upregulated during DNA replication.

Peña-Diaz J, Hegre SA, Anderssen E, Aas PA, Mjelle R, Gilfillan GD, Lyle R, Drabløs F, Krokan HE, Sætrom P.

Nucleic Acids Res. 2013 Mar 1;41(5):2846-56. doi: 10.1093/nar/gks1336. Epub 2013 Jan 15.

37.

Multiple microRNAs may regulate the DNA repair enzyme uracil-DNA glycosylase.

Hegre SA, Sætrom P, Aas PA, Pettersen HS, Otterlei M, Krokan HE.

DNA Repair (Amst). 2013 Jan 1;12(1):80-6. doi: 10.1016/j.dnarep.2012.10.007. Epub 2012 Dec 8.

PMID:
23228472
38.

Designing dual-targeting siRNA duplexes having two active strands that combine siRNA and microRNA-like targeting.

Sætrom P.

Methods Mol Biol. 2013;942:169-77. doi: 10.1007/978-1-62703-119-6_9.

PMID:
23027051
39.

Single nucleotide polymorphisms can create alternative polyadenylation signals and affect gene expression through loss of microRNA-regulation.

Thomas LF, Sætrom P.

PLoS Comput Biol. 2012;8(8):e1002621. doi: 10.1371/journal.pcbi.1002621. Epub 2012 Aug 16.

40.

Cell-type specificity of ChIP-predicted transcription factor binding sites.

Håndstad T, Rye M, Močnik R, Drabløs F, Sætrom P.

BMC Genomics. 2012 Aug 3;13:372. doi: 10.1186/1471-2164-13-372.

41.

Monozygotic twins discordant for intermittent allergic rhinitis differ in mRNA and protein levels.

Sjogren AK, Barrenas F, Muraro A, Gustafsson M, Saetrom P, Wang H, Benson M.

Allergy. 2012 Jun;67(6):831-3. doi: 10.1111/j.1398-9995.2012.02828.x. Epub 2012 Apr 19.

PMID:
22515200
43.

Clustered ChIP-Seq-defined transcription factor binding sites and histone modifications map distinct classes of regulatory elements.

Rye M, Sætrom P, Håndstad T, Drabløs F.

BMC Biol. 2011 Nov 24;9:80. doi: 10.1186/1741-7007-9-80.

44.

Inferring causative variants in microRNA target sites.

Thomas LF, Saito T, Sætrom P.

Nucleic Acids Res. 2011 Sep 1;39(16):e109. doi: 10.1093/nar/gkr414. Epub 2011 Jun 21.

45.

A ChIP-Seq benchmark shows that sequence conservation mainly improves detection of strong transcription factor binding sites.

Håndstad T, Rye MB, Drabløs F, Sætrom P.

PLoS One. 2011 Apr 14;6(4):e18430. doi: 10.1371/journal.pone.0018430.

46.

A two-step site and mRNA-level model for predicting microRNA targets.

Saito T, Sætrom P.

BMC Bioinformatics. 2010 Dec 31;11:612. doi: 10.1186/1471-2105-11-612.

47.

A manually curated ChIP-seq benchmark demonstrates room for improvement in current peak-finder programs.

Rye MB, Sætrom P, Drabløs F.

Nucleic Acids Res. 2011 Mar;39(4):e25. doi: 10.1093/nar/gkq1187. Epub 2010 Nov 26.

48.

Optimization of duplex stability and terminal asymmetry for shRNA design.

Matveeva OV, Kang Y, Spiridonov AN, Saetrom P, Nemtsov VA, Ogurtsov AY, Nechipurenko YD, Shabalina SA.

PLoS One. 2010 Apr 20;5(4):e10180. doi: 10.1371/journal.pone.0010180.

49.

Dual-targeting siRNAs.

Tiemann K, Höhn B, Ehsani A, Forman SJ, Rossi JJ, Saetrom P.

RNA. 2010 Jun;16(6):1275-84. doi: 10.1261/rna.2005710. Epub 2010 Apr 21.

50.

MicroRNAs--targeting and target prediction.

Saito T, Saetrom P.

N Biotechnol. 2010 Jul 31;27(3):243-9. doi: 10.1016/j.nbt.2010.02.016. Epub 2010 Feb 26. Review.

PMID:
20219708

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