Publications 2008

Gene methylation profiles of normal mucosa, and benign and malignant colorectaltumors identify early onset markers.

Ahlquist T, Lind GE, Costa VL, Meling GI, Vatn M, Hoff GS, Rognum TO, Skotheim RI, Thiis-Evensen E, Lothe RA.
Mol Cancer. 2008 Dec 31;7:94.

PMID: 19117505

Novel mutations of the suppressor gene PTEN in colorectal carcinomas stratified by microsatellite instability- and TP53 mutation- status.

Danielsen SA, Lind GE, Bjørnslett M, Meling GI, Rognum TO, Heim S, Lothe RA.
Hum Mutat. 2008 Nov;29(11):E252-62.

PMID: 18781614

Stromal gene signatures in large-B-cell lymphomas.

Lenz G, Wright G, Dave SS, Xiao W, Powell J, Zhao H, Xu W, Tan B, Goldschmidt N, Iqbal J, Vose J, Bast M, Fu K, Weisenburger DD, Greiner TC, Armitage JO, Kyle A, May L, Gascoyne RD, Connors JM, Troen G, Holte H, Kvaloy S, Dierickx D, Verhoef G, Delabie J, Smeland EB, Jares P, Martinez A, Lopez-Guillermo A, Montserrat E, Campo E, Braziel RM, Miller TP, Rimsza LM, Cook JR, Pohlman B, Sweetenham J, Tubbs RR, Fisher RI, Hartmann E, Rosenwald A, Ott G, Muller-Hermelink HK, Wrench D, Lister TA, Jaffe ES, Wilson WH, Chan WC, Staudt LM; Lymphoma/Leukemia Molecular Profiling Project.
N Engl J Med. 2008 Nov 27;359(22):2313-23.

PMID: 19038878

Guidelines for the use and interpretation of assays for monitoring autophagy inhigher eukaryotes.

Klionsky DJ, Abeliovich H, Agostinis P, Agrawal DK, Aliev G, Askew DS, Baba M, Baehrecke EH, Bahr BA, Ballabio A, Bamber BA, Bassham DC, Bergamini E, Bi X, Biard-Piechaczyk M, Blum JS, Bredesen DE, Brodsky JL, Brumell JH, Brunk UT, Bursch W, Camougrand N, Cebollero E, Cecconi F, Chen Y, Chin LS, Choi A, Chu CT, Chung J, Clarke PG, Clark RS, Clarke SG, Clavé C, Cleveland JL, Codogno P, Colombo MI, Coto-Montes A, Cregg JM, Cuervo AM, Debnath J, Demarchi F, Dennis PB, Dennis PA, Deretic V, Devenish RJ, Di Sano F, Dice JF, Difiglia M, Dinesh-Kumar S, Distelhorst CW, Djavaheri-Mergny M, Dorsey FC, Dröge W, Dron M, Dunn WA Jr, Duszenko M, Eissa NT, Elazar Z, Esclatine A, Eskelinen EL, Fésüs L, Finley KD, Fuentes JM, Fueyo J, Fujisaki K, Galliot B, Gao FB, Gewirtz DA, Gibson SB, Gohla A, Goldberg AL, Gonzalez R, González-Estévez C, Gorski S, Gottlieb RA, Häussinger D, He YW, Heidenreich K, Hill JA, Høyer-Hansen M, Hu X, Huang WP, Iwasaki A, Jäättelä M, Jackson WT, Jiang X, Jin S, Johansen T, Jung JU, Kadowaki M, Kang C, Kelekar A, Kessel DH, Kiel JA, Kim HP, Kimchi A, Kinsella TJ, Kiselyov K, Kitamoto K, Knecht E, Komatsu M, Kominami E, Kondo S, Kovács AL, Kroemer G, Kuan CY, Kumar R, Kundu M, Landry J, Laporte M, Le W, Lei HY, Lenardo MJ, Levine B, Lieberman A, Lim KL, Lin FC, Liou W, Liu LF, Lopez-Berestein G, López-Otín C, Lu B, Macleod KF, Malorni W, Martinet W, Matsuoka K, Mautner J, Meijer AJ, Meléndez A, Michels P, Miotto G, Mistiaen WP, Mizushima N, Mograbi B, Monastyrska I, Moore MN, Moreira PI, Moriyasu Y, Motyl T, Münz C, Murphy LO, Naqvi NI, Neufeld TP, Nishino I, Nixon RA, Noda T, Nürnberg B, Ogawa M, Oleinick NL, Olsen LJ, Ozpolat B, Paglin S, Palmer GE, Papassideri I, Parkes M, Perlmutter DH, Perry G, Piacentini M, Pinkas-Kramarski R, Prescott M, Proikas-Cezanne T, Raben N, Rami A, Reggiori F, Rohrer B, Rubinsztein DC, Ryan KM, Sadoshima J, Sakagami H, Sakai Y, Sandri M, Sasakawa C, Sass M, Schneider C, Seglen PO, Seleverstov O, Settleman J, Shacka JJ, Shapiro IM, Sibirny A, Silva-Zacarin EC, Simon HU, Simone C, Simonsen A, Smith MA, Spanel-Borowski K, Srinivas V, Steeves M, Stenmark H, Stromhaug PE, Subauste CS, Sugimoto S, Sulzer D, Suzuki T, Swanson MS, Tabas I, Takeshita F, Talbot NJ, Tallóczy Z, Tanaka K, Tanaka K, Tanida I, Taylor GS, Taylor JP, Terman A, Tettamanti G, Thompson CB, Thumm M, Tolkovsky AM, Tooze SA, Truant R, Tumanovska LV, Uchiyama Y, Ueno T, Uzcátegui NL, van der Klei I, Vaquero EC, Vellai T, Vogel MW, Wang HG, Webster P, Wiley JW, Xi Z, Xiao G, Yahalom J, Yang JM, Yap G, Yin XM, Yoshimori T, Yu L, Yue Z, Yuzaki M, Zabirnyk O, Zheng X, Zhu X, Deter RL.
Autophagy. 2008 Feb 16;4(2):151-75. Epub 2007 Nov 21.

PMID: 18188003

The mitogen-activated protein kinase phosphatase vaccinia H1-related protein inhibits apoptosis in prostate cancer cells and is overexpressed in prostate cancer.

Arnoldussen YJ, Lorenzo PI, Pretorius ME, Waehre H, Risberg B, Maelandsmo GM, Danielsen HE, Saatcioglu F.
Cancer Res. 2008 Nov 15;68(22):9255-64.

PMID: 19010898

TPD52, a candidate gene from genomic studies, is overexpressed in testicular germcell tumours.

Alagaratnam S, Hardy JR, Lothe RA, Skotheim RI, Byrne JA.
Mol Cell Endocrinol. 2009 Jul 10;306(1-2):75-80. Epub 2008 Nov 11.

PMID: 19041365

The benzene metabolite trans,trans-muconaldehyde blocks gap junction intercellular communication by cross-linking connexin43.

Rivedal E, Leithe E.
Toxicol Appl Pharmacol. 2008 Nov 1;232(3):463-8. Epub 2008 Aug 6.

PMID: 18723040

Statistical nuclear texture analysis in cancer research: a review of methods and applications.

Nielsen B, Albregtsen F, Danielsen HE.
Crit Rev Oncog. 2008;14(2-3):89-164.

PMID: 19409060

Systematic bioinformatic analysis of expression levels of 17,330 human genes across 9,783 samples from 175 types of healthy and pathological tissues.

Kilpinen S, Autio R, Ojala K, Iljin K, Bucher E, Sara H, Pisto T, Saarela M, Skotheim RI, Björkman M, Mpindi JP, Haapa-Paananen S, Vainio P, Edgren H, Wolf M, Astola J, Nees M, Hautaniemi S, Kallioniemi O.
Genome Biol. 2008;9(9):R139. Epub 2008 Sep 19.

PMID: 18803840

The detergent resistance of Connexin43 is lost upon TPA or EGF treatment and is an early step in gap junction endocytosis.

Sirnes S, Leithe E, Rivedal E.
Biochem Biophys Res Commun. 2008 Sep 5;373(4):597-601. Epub 2008 Jul 2.

PMID: 18601906

Molecular subtypes of diffuse large B-cell lymphoma arise by distinct genetic pathways.

Lenz G, Wright GW, Emre NC, Kohlhammer H, Dave SS, Davis RE, Carty S, Lam LT, Shaffer AL, Xiao W, Powell J, Rosenwald A, Ott G, Muller-Hermelink HK, Gascoyne RD, Connors JM, Campo E, Jaffe ES, Delabie J, Smeland EB, Rimsza LM, Fisher RI, Weisenburger DD, Chan WC, Staudt LM.
Proc Natl Acad Sci U S A. 2008 Sep 9;105(36):13520-5. Epub 2008 Sep 2.

PMID: 18765795

Self-eating from an ER-associated cup.

Simonsen A, Stenmark H.
J Cell Biol. 2008 Aug 25;182(4):621-2.

PMID: 18725534

Comparison of the Agilent, ROMA/NimbleGen and Illumina platforms for classification of copy number alterations in human breast tumors.

Baumbusch LO, Aarøe J, Johansen FE, Hicks J, Sun H, Bruhn L, Gunderson K, Naume B, Kristensen VN, Liestøl K, Børresen-Dale AL, Lingjaerde OC.
BMC Genomics. 2008 Aug 8;9:379.

PMID: 18691401

Regulation of early endosomal entry by the Drosophila tumor suppressors Rabenosynand Vps45.

Morrison HA, Dionne H, Rusten TE, Brech A, Fisher WW, Pfeiffer BD, Celniker SE, Stenmark H, Bilder D.
Mol Biol Cell. 2008 Oct;19(10):4167-76. Epub 2008 Aug 6.

PMID: 18685079

Pathway based analysis of SNPs with relevance to 5-FU therapy: relation to intratumoral mRNA expression and survival.

Nordgard SH, Alnaes GI, Hihn B, Lingjaerde OC, Liestøl K, Tsalenko A, Sørlie T, Lønning PE, Børresen-Dale AL, Kristensen VN.
Int J Cancer. 2008 Aug 1;123(3):577-85.

PMID: 18498133

ESR1 gene amplification in breast cancer: a common phenomenon?

Horlings HM, Bergamaschi A, Nordgard SH, Kim YH, Han W, Noh DY, Salari K, Joosse SA, Reyal F, Lingjaerde OC, Kristensen VN, Børresen-Dale AL, Pollack J, van de Vijver MJ.
Nat Genet. 2008 Jul;40(7):807-8; author reply 810-2.

PMID: 18583965

RAS signaling in colorectal carcinomas through alteration of RAS, RAF, NF1,and/or RASSF1A.

Ahlquist T, Bottillo I, Danielsen SA, Meling GI, Rognum TO, Lind GE, Dallapiccola B, Lothe RA.
Neoplasia. 2008 Jul;10(7):680-6, 2 p following 686.

PMID: 18592002

The presence of TP53 mutation at diagnosis of follicular lymphoma identifies a high-risk group of patients with shortened time to disease progression and poorer overall survival.

O’Shea D, O’Riain C, Taylor C, Waters R, Carlotti E, Macdougall F, Gribben J, Rosenwald A, Ott G, Rimsza LM, Smeland EB, Johnson N, Campo E, Greiner TC, Chan WC, Gascoyne RD, Wright G, Staudt LM, Lister TA, Fitzgibbon J.
Blood. 2008 Oct 15;112(8):3126-9. Epub 2008 Jul 15.

PMID: 18628487

Partial least squares Cox regression for genome-wide data.

Nygård S, Borgan O, Lingjaerde OC, Størvold HL.
Lifetime Data Anal. 2008 Jun;14(2):179-95.

PMID: 18188699

Membranes and organelles.

Raposo G, Stenmark H.
Curr Opin Cell Biol. 2008 Aug;20(4):357-9. Epub 2008 Jul 7.

PMID: 18588977

Quantitative analysis of autophagic activity in Drosophila neural tissues by measuring the turnover rates of pathway substrates.

Cumming RC, Simonsen A, Finley KD.
Methods Enzymol. 2008;451:639-51.

PMID: 19185743

Cellular trafficking of quantum dot-ligand bioconjugates and their induction of changes in normal routing of unconjugated ligands.

Tekle C, Deurs B, Sandvig K, Iversen TG.
Nano Lett. 2008 Jul;8(7):1858-65. Epub 2008 Jun 21.

PMID: 18570482

The metastasis-associated protein S100A4 exists in several charged variants suggesting the presence of posttranslational modifications.

Haugen MH, Flatmark K, Mikalsen SO, Malandsmo GM.
BMC Cancer. 2008 Jun 13;8:172.

PMID: 18554396

ESCRT functions in autophagy and associated disease.

Rusten TE, Simonsen A.
Cell Cycle. 2008 May 1;7(9):1166-72.

PMID: 18418046

Ubc4/5 and c-Cbl continue to ubiquitinate EGF receptor after internalization tofacilitate polyubiquitination and degradation.

Umebayashi K, Stenmark H, Yoshimori T.
Mol Biol Cell. 2008 Aug;19(8):3454-62. Epub 2008 May 28.

PMID: 18508924

Cell biology: Viruses in camouflage.

Sandvig K, van Deurs B.
Nature. 2008 May 22;453(7194):466-7.

PMID: 18497813

Ubiquitination of fibroblast growth factor receptor 1 is required for its intracellular sorting but not for its endocytosis.

Haugsten EM, Malecki J, Bjørklund SM, Olsnes S, Wesche J.
Mol Biol Cell. 2008 Aug;19(8):3390-403. Epub 2008 May 14.

PMID: 18480409

FGF-1: from biology through engineering to potential medical applications.

Zakrzewska M, Marcinkowska E, Wiedlocha A.
Crit Rev Clin Lab Sci. 2008;45(1):91-135.

PMID: 18293181

Phosphorylation of fibroblast growth factor (FGF) receptor 1 at Ser777 by p38mitogen-activated protein kinase regulates translocation of exogenous FGF1 to the cytosol and nucleus.

Sørensen V, Zhen Y, Zakrzewska M, Haugsten EM, Wälchli S, Nilsen T, Olsnes S, Wiedlocha A.
Mol Cell Biol. 2008 Jun;28(12):4129-41. Epub 2008 Apr 14.

PMID: 18411303

Consistent numerical chromosome aberrations in thecofibromas of the ovary.

Micci F, Haugom L, Abeler VM, Tropé CG, Danielsen HE, Heim S.
Virchows Arch. 2008 Mar;452(3):269-76.

PMID: 18188592

An endosomally localized isoform of Eps15 interacts with Hrs to mediatedegradation of epidermal growth factor receptor.

Roxrud I, Raiborg C, Pedersen NM, Stang E, Stenmark H.
J Cell Biol. 2008 Mar 24;180(6):1205-18.

PMID: 18362181

Hypermethylated MAL gene – a silent marker of early colon tumorigenesis.

Lind GE, Ahlquist T, Kolberg M, Berg M, Eknaes M, Alonso MA, Kallioniemi A, Meling GI, Skotheim RI, Rognum TO, Thiis-Evensen E, Lothe RA.
J Transl Med. 2008 Mar 17;6:13.

PMID: 18346269

Ref(2)P, the Drosophila melanogaster homologue of mammalian p62, is required for the formation of protein aggregates in adult brain.

Nezis IP, Simonsen A, Sagona AP, Finley K, Gaumer S, Contamine D, Rusten TE, Stenmark H, Brech A.
J Cell Biol. 2008 Mar 24;180(6):1065-71. Epub 2008 Mar 17.

PMID: 18347073

Oncogenic CARD11 mutations in human diffuse large B cell lymphoma.

Lenz G, Davis RE, Ngo VN, Lam L, George TC, Wright GW, Dave SS, Zhao H, Xu W, Rosenwald A, Ott G, Muller-Hermelink HK, Gascoyne RD, Connors JM, Rimsza LM, Campo E, Jaffe ES, Delabie J, Smeland EB, Fisher RI, Chan WC, Staudt LM.
Science. 2008 Mar 21;319(5870):1676-9. Epub 2008 Mar 6.

PMID: 18323416

Publications 2008

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