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Items: 1 to 50 of 71

1.

Induced Chromosomal Aneuploidy Results in Global and Consistent Deregulation of the Transcriptome of Cancer Cells.

Wangsa D, Braun R, Stuelten CH, Brown M, Bauer KM, Emons G, Weston LA, Hu Y, Yang HH, Vila-Casadesús M, Lee MP, Brauer P, Warner L, Upender M, Hummon AB, Camps J, Ried T.

Neoplasia. 2019 Jul;21(7):721-729. doi: 10.1016/j.neo.2019.04.009. Epub 2019 Jun 4.

2.

Single Chromosome Aneuploidy Induces Genome-Wide Perturbation of Nuclear Organization and Gene Expression.

Braun R, Ronquist S, Wangsa D, Chen H, Anthuber L, Gemoll T, Wangsa D, Koparde V, Hunn C, Habermann JK, Heselmeyer-Haddad K, Rajapakse I, Ried T.

Neoplasia. 2019 Apr;21(4):401-412. doi: 10.1016/j.neo.2019.02.003. Epub 2019 Mar 22.

3.

Single-cell genetic analysis of clonal dynamics in colorectal adenomas indicates CDX2 gain as a predictor of recurrence.

Fiedler D, Heselmeyer-Haddad K, Hirsch D, Hernandez LS, Torres I, Wangsa D, Hu Y, Zapata L, Rueschoff J, Belle S, Ried T, Gaiser T.

Int J Cancer. 2019 Apr 1;144(7):1561-1573. doi: 10.1002/ijc.31869. Epub 2018 Dec 11.

PMID:
30229897
4.

Trac-looping measures genome structure and chromatin accessibility.

Lai B, Tang Q, Jin W, Hu G, Wangsa D, Cui K, Stanton BZ, Ren G, Ding Y, Zhao M, Liu S, Song J, Ried T, Zhao K.

Nat Methods. 2018 Sep;15(9):741-747. doi: 10.1038/s41592-018-0107-y. Epub 2018 Aug 27.

PMID:
30150754
5.

Effects of human sex chromosome dosage on spatial chromosome organization.

Jowhar Z, Shachar S, Gudla PR, Wangsa D, Torres E, Russ JL, Pegoraro G, Ried T, Raznahan A, Misteli T.

Mol Biol Cell. 2018 Oct 1;29(20):2458-2469. doi: 10.1091/mbc.E18-06-0359. Epub 2018 Aug 9.

6.

A Muscle-Specific Enhancer RNA Mediates Cohesin Recruitment and Regulates Transcription In trans.

Tsai PF, Dell'Orso S, Rodriguez J, Vivanco KO, Ko KD, Jiang K, Juan AH, Sarshad AA, Vian L, Tran M, Wangsa D, Wang AH, Perovanovic J, Anastasakis D, Ralston E, Ried T, Sun HW, Hafner M, Larson DR, Sartorelli V.

Mol Cell. 2018 Jul 5;71(1):129-141.e8. doi: 10.1016/j.molcel.2018.06.008.

7.

Dynamics of Genome Alterations in Crohn's Disease-Associated Colorectal Carcinogenesis.

Hirsch D, Wangsa D, Zhu YJ, Hu Y, Edelman DC, Meltzer PS, Heselmeyer-Haddad K, Ott C, Kienle P, Galata C, Horisberger K, Ried T, Gaiser T.

Clin Cancer Res. 2018 Oct 15;24(20):4997-5011. doi: 10.1158/1078-0432.CCR-18-0630. Epub 2018 Jul 2.

PMID:
29967250
8.

Sex-chromosome dosage effects on gene expression in humans.

Raznahan A, Parikshak NN, Chandran V, Blumenthal JD, Clasen LS, Alexander-Bloch AF, Zinn AR, Wangsa D, Wise J, Murphy DGM, Bolton PF, Ried T, Ross J, Giedd JN, Geschwind DH.

Proc Natl Acad Sci U S A. 2018 Jul 10;115(28):7398-7403. doi: 10.1073/pnas.1802889115. Epub 2018 Jun 26.

9.

The Evolution of Single Cell-derived Colorectal Cancer Cell Lines is Dominated by the Continued Selection of Tumor Specific Genomic Imbalances, Despite Random Chromosomal Instability.

Wangsa D, Braun R, Schiefer M, Gertz EM, Bronder D, Quintanilla I, Padilla-Nash HM, Torres I, Hunn C, Warner L, Buishand FO, Hu Y, Hirsch D, Gaiser T, Camps J, Schwartz R, Schäffer AA, Heselmeyer-Haddad K, Ried T.

Carcinogenesis. 2018 May 23. doi: 10.1093/carcin/bgy068. [Epub ahead of print]

PMID:
29800151
10.

Identification of Novel Targets for Lung Cancer Therapy Using an Induced Pluripotent Stem Cell Model.

Shukla V, Rao M, Zhang H, Beers J, Wangsa D, Wangsa D, Buishand FO, Wang Y, Yu Z, Stevenson H, Reardon E, McLoughlin KC, Kaufman A, Payabyab E, Hong JA, Zhang M, Davis SR, Edelman DC, Chen G, Miettinen M, Restifo N, Ried T, Meltzer PS, Schrump DS.

Ann Am Thorac Soc. 2018 Apr;15(Supplement_2):S127-S128. doi: 10.1513/AnnalsATS.201707-610MG.

11.

Transformation of Accessible Chromatin and 3D Nucleome Underlies Lineage Commitment of Early T Cells.

Hu G, Cui K, Fang D, Hirose S, Wang X, Wangsa D, Jin W, Ried T, Liu P, Zhu J, Rothenberg EV, Zhao K.

Immunity. 2018 Feb 20;48(2):227-242.e8. doi: 10.1016/j.immuni.2018.01.013.

12.

Near-tetraploid cancer cells show chromosome instability triggered by replication stress and exhibit enhanced invasiveness.

Wangsa D, Quintanilla I, Torabi K, Vila-Casadesús M, Ercilla A, Klus G, Yuce Z, Galofré C, Cuatrecasas M, Lozano JJ, Agell N, Cimini D, Castells A, Ried T, Camps J.

FASEB J. 2018 Jul;32(7):3502-3517. doi: 10.1096/fj.201700247RR. Epub 2018 Feb 8.

13.

HiCTMap: Detection and analysis of chromosome territory structure and position by high-throughput imaging.

Jowhar Z, Gudla PR, Shachar S, Wangsa D, Russ JL, Pegoraro G, Ried T, Raznahan A, Misteli T.

Methods. 2018 Jun 1;142:30-38. doi: 10.1016/j.ymeth.2018.01.013. Epub 2018 Feb 10.

14.

Array comparative genomic hybridization of 18 pancreatic ductal adenocarcinomas and their autologous metastases.

Rausch V, Krieg A, Camps J, Behrens B, Beier M, Wangsa D, Heselmeyer-Haddad K, Baldus SE, Knoefel WT, Ried T, Stoecklein NH.

BMC Res Notes. 2017 Nov 6;10(1):560. doi: 10.1186/s13104-017-2886-0.

15.

SMYD5 Controls Heterochromatin and Chromosome Integrity during Embryonic Stem Cell Differentiation.

Kidder BL, He R, Wangsa D, Padilla-Nash HM, Bernardo MM, Sheng S, Ried T, Zhao K.

Cancer Res. 2017 Dec 1;77(23):6729-6745. doi: 10.1158/0008-5472.CAN-17-0828. Epub 2017 Sep 26.

16.

ASXL3 Is a Novel Pluripotency Factor in Human Respiratory Epithelial Cells and a Potential Therapeutic Target in Small Cell Lung Cancer.

Shukla V, Rao M, Zhang H, Beers J, Wangsa D, Wangsa D, Buishand FO, Wang Y, Yu Z, Stevenson HS, Reardon ES, McLoughlin KC, Kaufman AS, Payabyab EC, Hong JA, Zhang M, Davis S, Edelman D, Chen G, Miettinen MM, Restifo NP, Ried T, Meltzer PA, Schrump DS.

Cancer Res. 2017 Nov 15;77(22):6267-6281. doi: 10.1158/0008-5472.CAN-17-0570. Epub 2017 Sep 21.

17.

A multiplex preclinical model for adenoid cystic carcinoma of the salivary gland identifies regorafenib as a potential therapeutic drug.

Chen C, Choudhury S, Wangsa D, Lescott CJ, Wilkins DJ, Sripadhan P, Liu X, Wangsa D, Ried T, Moskaluk C, Wick MJ, Glasgow E, Schlegel R, Agarwal S.

Sci Rep. 2017 Sep 12;7(1):11410. doi: 10.1038/s41598-017-11764-2.

18.

HPV positive neuroendocrine cervical cancer cells are dependent on Myc but not E6/E7 viral oncogenes.

Yuan H, Krawczyk E, Blancato J, Albanese C, Zhou D, Wang N, Paul S, Alkhilaiwi F, Palechor-Ceron N, Dakic A, Fang S, Choudhary S, Hou TW, Zheng YL, Haddad BR, Usuda Y, Hartmann D, Symer D, Gillison M, Agarwal S, Wangsa D, Ried T, Liu X, Schlegel R.

Sci Rep. 2017 Apr 5;7:45617. doi: 10.1038/srep45617.

19.

Transcription-dependent radial distribution of TCF7L2 regulated genes in chromosome territories.

Torabi K, Wangsa D, Ponsa I, Brown M, Bosch A, Vila-Casadesús M, Karpova TS, Calvo M, Castells A, Miró R, Ried T, Camps J.

Chromosoma. 2017 Oct;126(5):655-667. doi: 10.1007/s00412-017-0629-6. Epub 2017 Mar 25.

PMID:
28343235
20.

Nucleome Analysis Reveals Structure-Function Relationships for Colon Cancer.

Seaman L, Chen H, Brown M, Wangsa D, Patterson G, Camps J, Omenn GS, Ried T, Rajapakse I.

Mol Cancer Res. 2017 Jul;15(7):821-830. doi: 10.1158/1541-7786.MCR-16-0374. Epub 2017 Mar 3.

21.

FISHtrees 3.0: Tumor Phylogenetics Using a Ploidy Probe.

Gertz EM, Chowdhury SA, Lee WJ, Wangsa D, Heselmeyer-Haddad K, Ried T, Schwartz R, Schäffer AA.

PLoS One. 2016 Jun 30;11(6):e0158569. doi: 10.1371/journal.pone.0158569. eCollection 2016.

22.

Selective advantage of trisomic human cells cultured in non-standard conditions.

Rutledge SD, Douglas TA, Nicholson JM, Vila-Casadesús M, Kantzler CL, Wangsa D, Barroso-Vilares M, Kale SD, Logarinho E, Cimini D.

Sci Rep. 2016 Mar 9;6:22828. doi: 10.1038/srep22828.

23.

Phylogenetic analysis of multiple FISH markers in oral tongue squamous cell carcinoma suggests that a diverse distribution of copy number changes is associated with poor prognosis.

Wangsa D, Chowdhury SA, Ryott M, Gertz EM, Elmberger G, Auer G, Åvall Lundqvist E, Küffer S, Ströbel P, Schäffer AA, Schwartz R, Munck-Wikland E, Ried T, Heselmeyer-Haddad K.

Int J Cancer. 2016 Jan 1;138(1):98-109. doi: 10.1002/ijc.29691. Epub 2015 Aug 28.

24.

An Improved Breast Epithelial Sampling Method for Molecular Profiling and Biomarker Analysis in Women at Risk for Breast Cancer.

Danforth DN, Warner AC, Wangsa D, Ried T, Duelli D, Filie AC, Prindiville SA.

Breast Cancer (Auckl). 2015 Jun 8;9:31-40. doi: 10.4137/BCBCR.S23577. eCollection 2015.

25.

Inferring models of multiscale copy number evolution for single-tumor phylogenetics.

Chowdhury SA, Gertz EM, Wangsa D, Heselmeyer-Haddad K, Ried T, Schäffer AA, Schwartz R.

Bioinformatics. 2015 Jun 15;31(12):i258-67. doi: 10.1093/bioinformatics/btv233.

26.

Chromosome mis-segregation and cytokinesis failure in trisomic human cells.

Nicholson JM, Macedo JC, Mattingly AJ, Wangsa D, Camps J, Lima V, Gomes AM, Dória S, Ried T, Logarinho E, Cimini D.

Elife. 2015 May 5;4. doi: 10.7554/eLife.05068.

27.

A ten-year retrospective analysis of the distribution, use and phenotypic characteristics of the LAD2 human mast cell line.

Kirshenbaum AS, Petrik A, Walsh R, Kirby TL, Vepa S, Wangsa D, Ried T, Metcalfe DD.

Int Arch Allergy Immunol. 2014;164(4):265-70. doi: 10.1159/000365729. Epub 2014 Sep 3.

28.

Telomerase variant A279T induces telomere dysfunction and inhibits non-canonical telomerase activity in esophageal carcinomas.

Zhang Y, Calado R, Rao M, Hong JA, Meeker AK, Dumitriu B, Atay S, McCormick PJ, Garfield SH, Wangsa D, Padilla-Nash HM, Burkett S, Zhang M, Kunst TF, Peterson NR, Xi S, Inchauste S, Altorki NK, Casson AG, Beer DG, Harris CC, Ried T, Young NS, Schrump DS.

PLoS One. 2014 Jul 1;9(7):e101010. doi: 10.1371/journal.pone.0101010. eCollection 2014.

29.

Loss of lamin B1 results in prolongation of S phase and decondensation of chromosome territories.

Camps J, Wangsa D, Falke M, Brown M, Case CM, Erdos MR, Ried T.

FASEB J. 2014 Aug;28(8):3423-34. doi: 10.1096/fj.14-250456. Epub 2014 Apr 14.

30.

Genome-wide analysis of HPV integration in human cancers reveals recurrent, focal genomic instability.

Akagi K, Li J, Broutian TR, Padilla-Nash H, Xiao W, Jiang B, Rocco JW, Teknos TN, Kumar B, Wangsa D, He D, Ried T, Symer DE, Gillison ML.

Genome Res. 2014 Feb;24(2):185-99. doi: 10.1101/gr.164806.113. Epub 2013 Nov 7.

31.

Spatial dynamics of chromosome translocations in living cells.

Roukos V, Voss TC, Schmidt CK, Lee S, Wangsa D, Misteli T.

Science. 2013 Aug 9;341(6146):660-4. doi: 10.1126/science.1237150.

32.

CKAP2 ensures chromosomal stability by maintaining the integrity of microtubule nucleation sites.

Case CM, Sackett DL, Wangsa D, Karpova T, McNally JG, Ried T, Camps J.

PLoS One. 2013 May 30;8(5):e64575. doi: 10.1371/journal.pone.0064575. Print 2013.

33.

Aneuploidy, oncogene amplification and epithelial to mesenchymal transition define spontaneous transformation of murine epithelial cells.

Padilla-Nash HM, McNeil NE, Yi M, Nguyen QT, Hu Y, Wangsa D, Mack DL, Hummon AB, Case C, Cardin E, Stephens R, Difilippantonio MJ, Ried T.

Carcinogenesis. 2013 Aug;34(8):1929-39. doi: 10.1093/carcin/bgt138. Epub 2013 Apr 25.

34.

Defective telomere elongation and hematopoiesis from telomerase-mutant aplastic anemia iPSCs.

Winkler T, Hong SG, Decker JE, Morgan MJ, Wu C, Hughes WM 5th, Yang Y, Wangsa D, Padilla-Nash HM, Ried T, Young NS, Dunbar CE, Calado RT.

J Clin Invest. 2013 May;123(5):1952-63. doi: 10.1172/JCI67146. Epub 2013 Apr 15.

35.

Cellular exposure to muscle relaxants and propofol could lead to genomic instability in vitro.

Coleman AE, McNeil N, Kovalchuck AL, Wangsa D, Ried T, Wang H.

J Biomed Res. 2012 Mar;26(2):117-24. doi: 10.1016/S1674-8301(12)60021-9.

36.

Concurrent V(D)J recombination and DNA end instability increase interchromosomal trans-rearrangements in ATM-deficient thymocytes.

Bowen S, Wangsa D, Ried T, Livak F, Hodes RJ.

Nucleic Acids Res. 2013 Apr;41(8):4535-48. doi: 10.1093/nar/gkt154. Epub 2013 Mar 6.

37.

Inflammation-mediated genetic and epigenetic alterations drive cancer development in the neighboring epithelium upon stromal abrogation of TGF-β signaling.

Achyut BR, Bader DA, Robles AI, Wangsa D, Harris CC, Ried T, Yang L.

PLoS Genet. 2013;9(2):e1003251. doi: 10.1371/journal.pgen.1003251. Epub 2013 Feb 7.

38.

MicroRNA-24 regulates XIAP to reduce the apoptosis threshold in cancer cells.

Xie Y, Tobin LA, Camps J, Wangsa D, Yang J, Rao M, Witasp E, Awad KS, Yoo N, Ried T, Kwong KF.

Oncogene. 2013 May 9;32(19):2442-51. doi: 10.1038/onc.2012.258. Epub 2012 Jun 25.

39.

Characterization of genome-wide enhancer-promoter interactions reveals co-expression of interacting genes and modes of higher order chromatin organization.

Chepelev I, Wei G, Wangsa D, Tang Q, Zhao K.

Cell Res. 2012 Mar;22(3):490-503. doi: 10.1038/cr.2012.15. Epub 2012 Jan 24.

40.

Spontaneous transformation of murine epithelial cells requires the early acquisition of specific chromosomal aneuploidies and genomic imbalances.

Padilla-Nash HM, Hathcock K, McNeil NE, Mack D, Hoeppner D, Ravin R, Knutsen T, Yonescu R, Wangsa D, Dorritie K, Barenboim L, Hu Y, Ried T.

Genes Chromosomes Cancer. 2012 Apr;51(4):353-74. doi: 10.1002/gcc.21921. Epub 2011 Dec 8.

41.

Genomic instability influences the transcriptome and proteome in endometrial cancer subtypes.

Habermann JK, Bündgen NK, Gemoll T, Hautaniemi S, Lundgren C, Wangsa D, Doering J, Bruch HP, Nordstroem B, Roblick UJ, Jörnvall H, Auer G, Ried T.

Mol Cancer. 2011 Oct 31;10:132. doi: 10.1186/1476-4598-10-132.

42.

Cyclooxygenase-2 expression in oral tongue squamous cell carcinoma.

Ryott M, Marklund L, Wangsa D, Elmberger G, Munck-Wikland E.

J Oral Pathol Med. 2011 May;40(5):385-9. doi: 10.1111/j.1600-0714.2010.00992.x.

PMID:
21481000
43.

Genome and transcriptome profiles of CD133-positive colorectal cancer cells.

Gaiser T, Camps J, Meinhardt S, Wangsa D, Nguyen QT, Varma S, Dittfeld C, Kunz-Schughart LA, Kemmerling R, Becker MR, Heselmeyer-Haddad K, Ried T.

Am J Pathol. 2011 Apr;178(4):1478-88. doi: 10.1016/j.ajpath.2010.12.036.

44.

Definitive molecular cytogenetic characterization of 15 colorectal cancer cell lines.

Knutsen T, Padilla-Nash HM, Wangsa D, Barenboim-Stapleton L, Camps J, McNeil N, Difilippantonio MJ, Ried T.

Genes Chromosomes Cancer. 2010 Mar;49(3):204-23. doi: 10.1002/gcc.20730.

45.

Fluorescence in situ hybridization markers for prediction of cervical lymph node metastases.

Wangsa D, Heselmeyer-Haddad K, Ried P, Eriksson E, Schäffer AA, Morrison LE, Luo J, Auer G, Munck-Wikland E, Ried T, Lundqvist EA.

Am J Pathol. 2009 Dec;175(6):2637-45. doi: 10.2353/ajpath.2009.090289. Epub 2009 Nov 5.

46.

Detection of genomic amplification of the human telomerase gene TERC, a potential marker for triage of women with HPV-positive, abnormal Pap smears.

Andersson S, Sowjanya P, Wangsa D, Hjerpe A, Johansson B, Auer G, Gravitt PE, Larsson C, Wallin KL, Ried T, Heselmeyer-Haddad K.

Am J Pathol. 2009 Nov;175(5):1831-47. doi: 10.2353/ajpath.2009.090122.

47.

Integrative genomics reveals mechanisms of copy number alterations responsible for transcriptional deregulation in colorectal cancer.

Camps J, Nguyen QT, Padilla-Nash HM, Knutsen T, McNeil NE, Wangsa D, Hummon AB, Grade M, Ried T, Difilippantonio MJ.

Genes Chromosomes Cancer. 2009 Nov;48(11):1002-17. doi: 10.1002/gcc.20699.

48.

Chromosomal copy number changes of locally advanced rectal cancers treated with preoperative chemoradiotherapy.

Grade M, Gaedcke J, Wangsa D, Varma S, Beckmann J, Liersch T, Hess C, Becker H, Difilippantonio MJ, Ried T, Ghadimi BM.

Cancer Genet Cytogenet. 2009 Aug;193(1):19-28. doi: 10.1016/j.cancergencyto.2009.03.016.

49.

EGFR protein overexpression and gene copy number increases in oral tongue squamous cell carcinoma.

Ryott M, Wangsa D, Heselmeyer-Haddad K, Lindholm J, Elmberger G, Auer G, Avall Lundqvist E, Ried T, Munck-Wikland E.

Eur J Cancer. 2009 Jun;45(9):1700-8. doi: 10.1016/j.ejca.2009.02.027. Epub 2009 Mar 28.

PMID:
19332367
50.

Ki-67 expression predicts locoregional recurrence in stage I oral tongue carcinoma.

Wangsa D, Ryott M, Avall-Lundqvist E, Petersson F, Elmberger G, Luo J, Ried T, Auer G, Munck-Wikland E.

Br J Cancer. 2008 Oct 7;99(7):1121-8. doi: 10.1038/sj.bjc.6604633. Epub 2008 Sep 2.

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