Publications of the Gene Expression and Regulation Group (Marie-Laure Yaspo)

Jones DT, Jäger N, Kool M, Zichner T, Hutter B, Sultan M, Cho YJ, Pugh TJ, Hovestadt V, Stütz AM, Rausch T, Warnatz HJ, Ryzhova M, Bender S, Sturm D, Pleier S, Cin H, Pfaff E, Sieber L, Wittmann A, Remke M, Witt H, Hutter S, Tzaridis T, Weischenfeldt J, Raeder B, Avci M, Amstislavskiy V, Zapatka M, Weber UD, Wang Q, Lasitschka B, Bartholomae CC, Schmidt M, von Kalle C, Ast V, Lawerenz C, Eils J, Kabbe R, Benes V, van Sluis P, Koster J, Volckmann R, Shih D, Betts MJ, Russell RB, Coco S, Paolo Tonini G, Schüller U, Hans V, Graf N, Kim YJ, Monoranu C, Roggendorf W, Unterberg A, Herold-Mende C, Milde T, Kulozik AE, von Deimling A, Witt O, Maass E, Rössler J, Ebinger M, Schuhmann MU, Frühwald MC, Hasselblatt M, Jabado N, Rutkowski S, von Bueren AO, Williamson D, Clifford SC, McCabe MG, Peter Collins V, Wolf S, Wiemann S, Lehrach H, Brors B, Scheurlen W, Felsberg J, Reifenberger G, Northcott PA, Taylor MD, Meyerson M, Pomeroy SL, Yaspo ML, Korbel JO, Korshunov A, Eils R, Pfister SM, Lichter P. Dissecting the genomic complexity underlying medulloblastoma. Nature. 2012 Jul 25. doi: 10.1038/nature11284. [Epub ahead of print]
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Sultan M, Dökel S, Amstislavskiy V, Wuttig D, Sültmann H, Lehrach H, Yaspo ML. A simple strand-specific RNA-Seq library preparation protocol combining the Illumina TruSeq RNA and the dUTP methods. Biochem Biophys Res Commun. 2012 May 15
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Salton M, Elkon R, Borodina T, Davydov A, Yaspo ML, Halperin E, Shiloh Y. Matrin 3 binds and stabilizes mRNA. PLoS One. 2011;6(8):e23882. Epub 2011 Aug 17
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Warnatz HJ, Schmidt D, Manke T, Piccini I, Sultan M, Borodina T, Balzereit D, Wruck W, Soldatov A, Vingron M, Lehrach H, Yaspo ML. The BTB and CNC Homology 1 (BACH1) Target Genes Are Involved in the Oxidative Stress Response and in Control of the Cell Cycle. J Biol Chem. 2011 Jul 1;286(26):23521-32
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Diez-Roux G, Banfi S, Sultan M, Geffers L, Anand S, Rozado D, Magen A, Canidio E, Pagani M, Peluso I, Lin-Marq N, Koch M, Bilio M, Cantiello I, Verde R, De Masi C, Bianchi SA, Cicchini J, Perroud E, Mehmeti S, Dagand E, Schrinner S, Nürnberger A, Schmidt K, Metz K, Zwingmann C, Brieske N, Springer C, Hernandez AM, Herzog S, Grabbe F, Sieverding C, Fischer B, Schrader K, Brockmeyer M, Dettmer S, Helbig C, Alunni V, Battaini MA, Mura C, Henrichsen CN, Garcia-Lopez R, Echevarria D, Puelles E, Garcia-Calero E, Kruse S, Uhr M, Kauck C, Feng G, Milyaev N, Ong CK, Kumar L, Lam M, Semple CA, Gyenesei A, Mundlos S, Radelof U, Lehrach H, Sarmientos P, Reymond A, Davidson DR, DollŽ P, Antonarakis SE, Yaspo ML, Martinez S, Baldock RA, Eichele G, Ballabio A. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. PLoS Biol. 2011 Jan 18;9(1):e1000582
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Warnatz HJ, Querfurth R, Guerasimova A, Cheng X, Haas SA, Hufton AL, Manke T, Vanhecke D, Nietfeld W, Vingron M, Janitz M, Lehrach H, Yaspo ML. Functional analysis and identification of cis-regulatory elements of human chromosome 21 gene promoters. Nucleic Acids Res. 2010 Oct;38(18):6112-23
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Richard H, Schulz MH, Sultan M, Nürnberger A, Schrinner S, Balzereit D, Dagand E, Rasche A, Lehrach H, Vingron M, Haas SA, Yaspo ML. Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments. Nucleic Acids Res. 2010 Jun;38(10):e112
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Sultan M, Schulz MH, Richard H, Magen A, Klingenhoff A, Scherf M, Seifert M, Borodina T, Soldatov A, Parkhomchuk D, Schmidt D, O'Keeffe S, Haas S, Vingron M, Lehrach H, Yaspo ML. A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science. 2008 Aug 15;321(5891):956-60
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Sultan M, Piccini I, Balzereit D, Herwig R, Saran NG, Lehrach H, Reeves RH, Yaspo ML. Gene expression variation in Down's syndrome mice allows prioritization of candidate genes. Genome Biol. 2007;8(5):R91
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Nonhoff U, Ralser M, Welzel F, Piccini I, Balzereit D, Yaspo ML, Lehrach H, Krobitsch S. Ataxin-2 interacts with the DEAD/H-box RNA helicase DDX6 and interferes with P-bodies and stress granules. Mol Biol Cell. 2007 Apr;18(4):1385-96
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Ralser M, Querfurth R, Warnatz HJ, Lehrach H, Yaspo ML, Krobitsch S. An efficient and economic enhancer mix for PCR. Biochem Biophys Res Commun. 2006 Sep 1;347(3):747-51
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Hu YH, Warnatz HJ, Vanhecke D, Wagner F, Fiebitz A, Thamm S, Kahlem P, Lehrach H, Yaspo ML, Janitz M. Cell array-based intracellular localization screening reveals novel functional features of human chromosome 21 proteins. BMC Genomics 2006 Jun 16; 7:155
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Adjaye J, Huntriss J, Herwig R, BenKahla A, Brink TC, Wierling C, Hultschig C, Groth D, Yaspo ML, Picton HM, Gosden RG, Lehrach H. Primary differentiation in the human blastocyst: comparative molecular portraits of inner cell mass and trophectoderm cells. Stem Cells. 2005 Nov-Dec;23(10):1514-25.
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Kittler R, Putz G, Pelletier L, Poser I, Heninger AK, Drechsel D, Fischer S, Konstantinova I, Habermann B, Grabner H, Yaspo ML, Himmelbauer H, Korn B, Neugebauer K, Pisabarro MT, Buchholz F. An endoribonuclease-prepared siRNA screen in human cells identifies genes essential for cell division. Nature. 2004 Dec 23;432(7020):1036-40.
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Kahlem P, Sultan M, Herwig R, Steinfath M, Balzereit D, Eppens B, Saran NG, Pletcher MT, South ST, Stetten G, Lehrach H, Reeves RH, Yaspo ML. Transcript level alterations reflect gene dosage effects across multiple tissues in a mouse model of down syndrome. Genome Res. 2004 Jul;14(7):1258-67.
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Watanabe H, Fujiyama A, Hattori M, Taylor TD, Toyoda A, Kuroki Y, Noguchi H, BenKahla A, Lehrach H, Sudbrak R, Kube M, Taenzer S, Galgoczy P, Platzer M, Scharfe M, Nordsiek G, Blocker H, Hellmann I, Khaitovich P, Paabo S, Reinhardt R, Zheng HJ, Zhang XL, Zhu GF, Wang BF, Fu G, Ren SX, Zhao GP, Chen Z, Lee YS, Cheong JE, Choi SH, Wu KM, Liu TT, Hsiao KJ, Tsai SF, Kim CG, OOta S, Kitano T, Kohara Y, Saitou N, Park HS, Wang SY, Yaspo ML, Sakaki Y. DNA sequence and comparative analysis of chimpanzee chromosome 22. Nature. 2004 May 27;429(6990):382-8.
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Winter J, Lehmann T, Krauss S, Trockenbacher A, Kijas Z, Foerster J, Suckow V, Yaspo ML, Kulozik A, Kalscheuer V, Schneider R, Schweiger S. Regulation of the MID1 protein function is fine-tuned by a complex pattern of alternative splicing. Hum Genet. 2004 May;114(6):541-52.
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Sakaki Y, Watanabe H, Taylor T, Hattori M, Fujiyama A, Toyoda A, Kuroki Y,Itoh T, Saitou N, Oota S, Kim CG, Kitano T, Lehrach H, Yaspo ML, Sudbrak R, Kahla A, Reinhardt R, Kube M, Platzer M, Taenzer S, Galgoczy P, Kel A, Bloecker H, Scharfe M, Nordsiek G, Hellmann I, Khaitovich P, Paabo S, Chen Z, Wang SY, Ren SX, Zhang XL, Zheng HJ, Zhu GF, Wang BF, Zhao GP, Tsai SF, Wu K, Liu TT, Hsiao KJ, Park HS, Lee YS, Cheong JE, Choi SH. Chimpanzee Chromosome 22 Sequencing Consortium. Human versus chimpanzee chromosome-wide sequence comparison and its evolutionary implication. Cold Spring Harb Symp Quant Biol. 2003;68:455-60.
No abstract available

Gitton Y, Dahmane N, Baik S, Ruiz i Altaba A, Neidhardt L, Scholze M, Herrmann BG, Kahlem P, Benkahla A, Schrinner S, Yildirimman R, Herwig R, Lehrach H, Yaspo ML. A gene expression map of human chromosome 21 orthologues in the mouse. Nature. 2002 Dec 5;420(6915):586-90.
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Fujiyama A, Watanabe H, Toyoda A, Taylor TD, Itoh T, Tsai SF, Park HS, Yaspo ML, Lehrach H, Chen Z, Fu G, Saitou N, Osoegawa K, de Jong PJ, Suto Y, Hattori M, Sakaki Y. Construction and analysis of a human-chimpanzee comparative clone map. Science. 2002 Jan 4;295(5552):131-4.
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Yaspo ML. Taking a functional genomics approach in molecular medicine. Trends Mol Med. 2001 Nov;7(11):494-501. Review.
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Esposito G, Godindagger I, Klein U, Yaspo ML, Cumano A, Rajewsky K. Disruption of the Rev3l-encoded catalytic subunit of polymerase zeta in mice results in early embryonic lethality. Curr Biol. 2000 Oct 5;10(19):1221-4.
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Brunner B, Grutzner F, Yaspo ML, Ropers HH, Haaf T, Kalscheue VM. Molecular cloning and characterization of the Fugu rubripes MEST/COPG2 imprinting cluster and chromosomal localization in Fugu and Tetraodon nigroviridis. Chromosome Res. 2000;8(6):465-76.
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Guipponi M, Yaspo ML, Riesselman L, Chen H, De Sario A, Roizes G, Antonarakis SE. Genomic structure of a copy of the human TPTE gene which encompasses 87 kb on the short arm of chromosome 21. Hum Genet. 2000 Aug;107(2):127-31.
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The Chromosome 21 mapping and sequencing consortium. The DNA sequence of human chromosome 21. Nature. 2000 May 18;405(6784):311-9.
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Slavov D, Hattori M, Sakaki Y, Rosenthal A, Shimizu N, Minoshima S, Kudoh J, Yaspo ML, Ramser J, Reinhardt R, Reimer C, Clancy K, Rynditch A, Gardiner K. Criteria for gene identification and features of genome organization: analysis of 6.5 Mb of DNA sequence from human chromosome 21. Gene. 2000 Apr 18;247(1-2):215-32.
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McDonell N, Ramser J, Francis F, Vinet MC, Rider S, Sudbrak R, Riesselman L, Yaspo ML, Reinhardt R, Monaco AP, Ross F, Kahn A, Kearney L, Buckle V, Chelly J. Characterization of a highly complex region in Xq13 and mapping of three isodicentric breakpoints associated with preleukemia. Genomics. 2000 Mar 15;64(3):221-9.
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Orti R, Rachidi M, Vialard F, Toyama K, Lopes C, Taudien S, Rosenthal A, Yaspo ML, Sinet PM, Delabar JM. Characterization of a novel gene, C21orf6, mapping to a critical region of chromosome 21q22.1 involved in the monosomy 21 phenotype and of its murine ortholog, orf5. Genomics. 2000 Mar 1;64(2):203-10.
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Hildmann T, Kong X, O'Brien J, Riesselman L, Christensen HM, Dagand E, Lehrach H, Yaspo ML. A contiguous 3-Mb sequence-ready map in the S3-MX region on 21q22.2 based on high- throughput nonisotopic library screenings. Genome Res. 1999 Apr;9(4):360-72.
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Blechschmidt K, Schweiger M, Wertz K, Poulson R, Christensen HM, Rosenthal A, Lehrach H, Yaspo ML. The mouse Aire gene: comparative genomic sequencing, gene organization, and expression. Genome Res. 1999 Feb;9(2):158-66.
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Rinderle C, Christensen HM, Schweiger S, Lehrach H, Yaspo ML. AIRE encodes a nuclear protein co-localizing with cytoskeletal filaments: altered sub-cellular distribution of mutants lacking the PHD zinc fingers. Hum Mol Genet. 1999 Feb;8(2):277-90.
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Horelli-Kuitunen N, Aaltonen J, Yaspo ML, Eeva M, Wessman M, Peltonen L, Palotie A. Mapping ESTs by fiber-FISH. Genome Res. 1999 Jan;9(1):62-71.
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Gardiner K, Yaspo ML. Report of the seventh international workshop on human chromosome 21 mapping 1997. Cytogenet Cell Genet. 1998;82(1-2):1-12.
No abstract available

Bjorses P, Aaltonen J, Horelli-Kuitunen N, Yaspo ML, Peltonen L. Gene defect behind APECED: a new clue to autoimmunity. Hum Mol Genet. 1998;7(10):1547-53. Review.
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Groet J, Ives JH, South AP, Baptista PR, Jones TA, Yaspo ML, Lehrach H, Potier MC, Van Broeckhoven C, Nizetic D. Bacterial contig map of the 21q11 region associated with Alzheimer's disease and abnormal myelopoiesis in Down syndrome. Genome Res. 1998 Apr;8(4):385-98.
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Yaspo ML, Aaltonen J, Horelli-Kuitunen N, Peltonen L, Lehrach H. Cloning of a novel human putative type Ia integral membrane protein mapping to 21q22.3. Genomics. 1998 Apr 1;49(1):133-6.
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Dahmane N, Ghezala GA, Gosset P, Chamoun Z, Dufresne-Zacharia MC, Lopes C, Rabatel N, Gassanova-Maugenre S, Chettouh Z, Abramowski V, Fayet E, Yaspo ML, Korn B, Blouin JL, Lehrach H, Poutska A, Antonarakis SE, Sinet PM, Creau N, Delabar JM. Transcriptional map of the 2.5-Mb CBR-ERG region of chromosome 21 involved in Down syndrome. Genomics. 1998 Feb 15;48(1):12-23.
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Gosset P, Ghezala GA, Korn B, Yaspo ML, Poutska A, Lehrach H, Sinet PM, Creau N. A new inward rectifier potassium channel gene (KCNJ15) localized on chromosome 21 in the Down syndrome chromosome region 1 (DCR1). Genomics. 1997 Sep 1;44(2):237-41.
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Katsanis N, Yaspo ML, Fisher EM. Identification and mapping of a novel human gene, HRMT1L1, homologous to the rat protein arginine N-methyltransferase 1 (PRMT1) gene. Mamm Genome. 1997 Jul;8(7):526-9.
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Korenberg JR, Aaltonen J, Brahe C, Cabin D, Creau N, Delabar JM, Doering J, Gardiner K, Hubert RS, Ives J, Kessling A, Kudoh J, Lafreniere R, Murakami Y, Ohira M, Ohki M, Patterson D, Potier MC, Quackenbush J, Reeves RH, Sakaki Y, Shimizu N, Soeda E, Van Broeckhoven C, Yaspo ML. Report and abstracts of the Sixth International Workshop on Human Chromosome 21 Mapping 1996. Cold Spring Harbor, New York, USA. May 6-8,1996. Cytogenet Cell Genet. 1997;79(1-2):21-52.
No abstract available

Ponnambalam S, Girotti M, Yaspo ML, Owen CE, Perry AC, Suganuma T, Nilsson T, Fried M, Banting G, Warren G. Primate homologues of rat TGN38: primary structure, expression and functional implications. J Cell Sci. 1996 Mar;109 ( Pt 3):675-85.
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Meerabux J, Yaspo ML, Roebroek AJ, Van de Ven WJ, Lister TA, Young BD. A new member of the proprotein convertase gene family (LPC) is located at a chromosome translocation breakpoint in lymphomas. Cancer Res. 1996 Feb 1;56(3):448-51.
Abstract

Saha V, Lillington DM, Shelling AN, Chaplin T, Yaspo ML, Ganesan TS, Young BD. AF6 gene on chromosome band 6q27 maps distal to the minimal region of deletion in epithelial ovarian cancer. Genes Chromosomes Cancer. 1995 Nov;14(3):220-2.
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Dahmane N, Charron G, Lopes C, Yaspo ML, Maunoury C, Decorte L, Sinet PM, Bloch B, Delabar JM. Down syndrome-critical region contains a gene homologous to Drosophila sim expressed during rat and human central nervous system development. Proc Natl Acad Sci U S A. 1995 Sep 26;92(20):9191-5.
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Yaspo ML, Gellen L, Mott R, Korn B, Nizetic D, Poustka AM, Lehrach H. Model for a transcript map of human chromosome 21: isolation of new coding sequences from exon and enriched cDNA libraries. Hum Mol Genet. 1995 Aug;4(8):1291-304.
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Nizetic D, Gellen L, Hamvas RM, Mott R, Grigoriev A, Vatcheva R, Zehetner G, Yaspo ML, Dutriaux A, Lopes C, et al. An integrated YAC-overlap and 'cosmid-pocket' map of the human chromosome 21. Hum Mol Genet. 1994 May;3(5):759-70.
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Yaspo ML, North MA, Lehrach H. Exon-enriched probe derived from a human chromosome 21 YAC by exon-amplification. Nucleic Acids Res. 1993 May 11;21(9):2271-2.
No abstract available | Full Text

Crete N, Delabar JM, Rahmani Z, Yaspo ML, Kraus J, Marks A, Sinet PM, Creau-Goldberg N. Partial physical map of human chromosome 21 from fibroblast and lymphocyte DNA. Hum Genet. 1993 Apr;91(3):245-53.
Abstract

Yaspo ML, Crete N, Chettouh Z, Blouin JL, Rahmani Z, Stehelin D, Sinet PM, Creau-Goldberg N, Delabar JM. New chromosome 21 DNA markers isolated by pulsed field gel electrophoresis from an ETS2-containing Down syndrome chromosomal region. Hum Genet. 1992 Dec;90(4):427-34.
Abstract

Yaspo ML, Theophile D, Aurias A, Crete N, Creau-Goldberg N, Bastard C, Suberville AM, Valensi F, Viguier F, Berger R, et al. Molecular analysis of 12 patients with the t(8;21) translocation and M2 acute myelogenous leukemia. Genes Chromosomes Cancer. 1992 Sep;5(2):166-77.
Abstract