Selected papers using IpraCell HeLa and other mammalian cells


• Barabino, S.M.L., Sproat, B.S. and Lamond, A.I. (1992). Antisense probes tardeted to an internal domain in U2 snRNP specifically inhibit the second step of pre-mRNA splicing. Nucl. Ac. Res. 20, 4457-4464.

• Calvio, C., Neubauer, G., Mann, M. and Lamond, A.I. (1995). Identification of hnRNP P2as TLS/FUS using electrospray mass spectometry. RNA 1, 724-733.

• Damier, L., Domenjoud, L. and Branlant, C. (1997). The D1-A2 and D2-A2 pairs of splice sites from human immunodeficiency virus Type 1 are highly efficient in vitro, in spite of an unusual branch site. Biochem. Biophys. Res. Comm. 237, 182-187.

• Fabrizio, P., Laggerbauer, B., Lauber, J., Lane, W.S. and Lührmann, R. (1997). An evolutionary conserved U5 SnRNP-specific protein is a GTP-binding factor closely related to the ribosomal translocase EF-2. EMBO Journal 16, 4092-4106.

• Hackel, W.., Fischer, V. and Lührmann, R. (1994). A 69 kD protein that associates reversibly with the Sm core domain of several spliceosomal SnRNP species. J. Cell Biol. 124, 261-272.

• Kleren, M., Blank, V., Logest, F., Vandekerckhove, J., Lottspeich, F., Le Ball, O., Urban, M.B., Kourilsky, Ph., Bauerle, P.A. and Israel, A; (1990). The DNA binding subunit of NF-KB is identical to factor KBF, and homologous to the rel oncogene product. Cell 62, 1007-1018.

• Kreivi, J.P., Trinkle-Mulcahy, L., Lyon, C.E., Morrice, N.A., Cohen, P., Lamond, A.I. (1997). Purification and characterisation of p99, a nuclear modulator of protein phosphatase 1 activity FEBS Letters 420, 57­62.

• Laggerbauer, B., Lauber, J. and Lührmann, R. (1996). Identification of an RNA-dependent ATPase activity in mammalian U5 SnRNPs. Nucl. Ac. Res. 24, 868-875.

• Lamm, G.M., Blencowe, B.J., Sproat, B.S., Iribarren, A.M., Ryder, U. and Lamond, A.I. (1991). Antisense probes containing 2-aminoadenosine allow efficient depletion of U5 snRNP from HeLa splicing extracts. Nucl. Ac. Res. 19, 3193-3198.

• Lauber, J., Fabrizio, P., Teigelkamp, S., Lane, W.S., Hartmann, E. and Lührmann, R. (1996). The HeLa 200 kDa U5 SnRNP-specific protein and its homologue in Saccharomyces cerevisiae are members of the DEXH-box protein family of putative RNA helicases. EMBO Journal 15, 4001-4015.

• Lauber, J., Plessel, G., Prehn, S., Will, C.L., Fabrizio, P., Grôning, K., Lane, W.S. and Lührmann, R. (1997). The human U4/U6 SnRNP contains 60 and 90 kD proteins that are structurally homologous to the yeast splicing factors Prp4p and Prp3p. RNA. 3, 926-941.

• Mermoud, J.E., Cohen, P. and Lamond, A.I. (1992). Ser/Thr-specific protein phosphatases are required for both catalytic steps of pre-mRNA splicing. Nucl. Ac. Res. 20, 5263-5269.

• Plessel, G., Fischer, U. and Lührmann, R, (1994). m3G cap hypermethylation of U1 small nuclear ribonucleoprotein (SnRNP) in vitro : evidence that the U1 small nuclear RNA-(guanosine-N2)­methyltransferase is a non-SnRNP cytoplasmic protein that requires a binding site on the Sm core domain. Molecular and Cellular Biology 14, 4160-4172.

• Rossmanith, W., Tullo, A., Potuschak, T., Karwan, R. (1995). Human mitochondrial tRNA processing. J. Biol. Chem. 270, 12885-12891.

• Ryder, U., Sproat, B.S. and Lamond, A.I. (1990). Sequence-specific affinity selection of mammalian splicing complexes. Nucl. Ac. Res. 18, 7373-7379.

• Salles, B., Provot, C., Calsou, P., Hennebelle, J., Gosset, I. and Fournié, G.J. (1995). A chemiluminescent microplate assay to detect DNA damage induced by genotoxic treatments. Analytical Biochemistry 232, 37-42.

• Ségault, V., Will, C.L., Sproat, B.S. and Lührmann, R. (1995). In vitro reconstitution of mammalian U2 and U5 snRNPs active in splicing : Sm proteins are essential for the formation of functional U2 and U5 SnRNPs. EMBO Journal 14, 7010-4021.

• Sirand-Pugnet, P., Durosay, P., Clouet d'Orval, B., Brody, E., Marie, J. (1995). R-Tropomyosin pre-mRNA folding around a muscle-specific exon interferes with several steps of spliceosome assembly. J. Mol. Biol. 251, 591-602.

• Will, C.L., Rümpler, S., Gunnewiek, J.K., Van Venrooij, W. and Lührmann, R. (1996). In vitro reconstitution of mammalian U1 SnRNPs active in splicing : the U1:C protein enhances the formation of early (E) spliceosomal complexes. Nucl. Ac. Res. 24, 4614-4623.

• Brehm, A., Miska, E.A., MacCance, D.J., Reid, J.L., Bannister, A.J., Kouzarides, T. (1998). Retinoblastoma protein recruits histone deacetylase to repress transcription. Nature 391, 591-601.

• Blencowe, B.J. and Barabino, S.M.L. (1995) Antisense Affinity depletion of RNP particles : In : Tymms, M.J. ed, Methods in Molecular Biology vol 37 : In vitro Transcription and Translation Protocols (pp 67-76). Humana Press inc publ (Totowa, NJ).

• Blencowe, B.J. and Lamond, A.I; (1999). Purification and depletion of RNP particles by antisense affinity chromatography. Meth. in Molecular Biology 118.

• Cairns, C.A. and White, R.J. (1998) p53 is a general represor of RNA polymerase III transcription. EMBO Journal 17, 3112-3123.

• Gell, D. and Jackson, S. P. (1999). Mapping of protein-protein interactions within the DNA-dependent protein kinase complex. Nucl. Ac. Res. 27, 3494-3502.

• Izzard, R.A., Jackson, S.P. and Smith, G.C.M. (1999). Competitive and non-competitive inhibition of the DNA-dependent protein kinase. Cancer Res. 59, 2581-2586.

• Lakin, N.D., Hann, B.C. and Jackson, S.P. (1999) The ataxia-telangiectasia related protein ATR mediates DNA-dependent phosphorylation of P53. Oncogene 68, 3989-3995.

• Smith, G.C., Cary, R.B., Lakin, N.D., Hann, B.C., Teo, S._H., Chen, D.J. and Jackson, S.P. (1999) Purification and DNA binding properties of the ataxia-telangiectasia gene product ATM. Proc. Natl. Acad. Sci. USA 96, 11134-11139.

• Smith, G.C., d'Adda di Fagagna, F., Lakin, N.D. and Jackson, S.P. (1999) Cleavage and inactivation of ATM during apoptosis. Molec. Cell. Biol. 19, 6076-6084.

• Hughes, P., Tratner, I., Ducoux, M., Piard, K., Baldacci, G. (1999) Isolation and identification of the third subunit of mammalian DNA polymerase d by PCNA-affinity chromatography of Mouse FM3A cell extracts. Nucleic Acids Res. 27, 2108-2114.

• Chew, S.L., Baginsky, L., Eperon, I.C. (2000) An exonic splicing silencer in the testes-specific DNA ligase III B exon. Nucleic Acid Res. 28, 402-410.

• Pethe, K., Aumercier, M., Fort, E., Gatot, C. and Menozzi, F.D. (2000) Characterization of the heparin binding site of the mycobacterial Heparin-binding hemagglutinin adhesin. J.Biol.Chem 275,1.

• Deplus, R., Brenner, C., Burgers, W.A., Putmans, P., Kouzarides, T., de Launoit, Y., Fuks, F. (2002) Dnmt3L is a transcriptional repressor that recruits histone deacetylase. Nucleic Acid Res. 30, n°17, 3831-3838.

• Thomas, T.O., Kjems, J. (2001) SF2/ASF binds to a splicing enhancer in the third HIV-1 tat exon and stimulates U2AF binding independently of the RS domain. J.Mol.Biol. 312, 649-662.

• Tange, T.O., Damgaard, C.K., Guth, S., Valcarel, J., Kjems, J. (2001) The HnRNP A1 protein regulates HIV-1 tat splicing via a novel intron silencer element. EMBO Journal 20, 5748-5758.

• Kyriakopoulou, C., Larsson, P., Liu, L., Schuster, J., Söderbom, F., Kvisebom, L., Virtanen, A. (2005) U1-like snRNAs lacking complementarity to canonical 5'splice sites RNA (submitted for publication).

• Brenner, C., Deplus, R., Didelot, C., Loriot, A., Viré, E., De Smet, C., Gutierrez, A., Danovi, D., Bernard, D., Boon, T., Pelicci, P.G., Amati, B., Kouzarides, T., de Launoit, Y., Di Croce, L. and Fuks, F. (2005) Myc represses transcription through recruitment of DNA methyltransferase corepressor. EMBO Journal 24, 336-346.

• Henry, C., Meda, P., Dasnois, L., Lebtahi, K., Malaisse, W.J., Remacle, C. and Miller, A.O.A. (2004) Culture of porcine neonate pancreatic cells onto two-dimensional microsupport; diabetes cell therapy with reconstituted organoids. Diabetes Research 38, 33-45.

• Marchand, V., Mougin, A., Mereau, A. and Branlant, C. (2005) Study of RNA-Protein interactions and RNA structure in RNP particules In: Westhof, Bindereif, Schön, Hartmann, (eds) Handbook of RNA Biochemistry, Chapter 11, 172-204, Wiley-VCH

• Hallay, H., Locker, N., Ayadi, L., Ropers, D., Guittet, E. and Branlant, C. (2006) Biochemical and NMR study on the competition between proteins SC35, SRp40 and hnRNP A1 at the HIV-1 Tat exon 2 splicing site. J. Biol. Chem., Vol. 281, Issue 48, 37159-37174

• Burgers, W.A., Blanchon, L., Pradhan, S., de Launoit, Y., Kouzarides, T., Fuks, F. (2006) Viral oncoproteins target the DNA methyltransferases. Oncogene

• Bernard, D., Gil, J., Dumont, P., Rizzo, S., Monté, D., Quatannens, B., Hudson, D., Visakorpi, T., Fuks, F. and de Launoit, Y.(2006) The methyl-CpG-binding protein MECP2 is required for prostate cancer cell growth. Oncogene 25, 1358–1366.

• Viré, E., Brenner, C., Deplus, R., Blanchon, L., Fraga, M., Didelot, C., Morey, L., Van Eynde, A., Bernard, D., Vanderwinden, J-M., Bollen, M., Esteller, M., Di Croce, L., de Launoit, Y., and Fuks, F. (2006) The Polycomb group protein EZH2 directly controls DNA methylation. Nature 439, 871-874.

• Hanna, C., Gjerde, D., Nguyen, L., Dickman, M., Brown, P. and Hornby, D. (2006) Micro-scale open-tube capillary separations of functional proteins. Analytical Biochemistry 350, 128-137.

• Jacquenet, S., Méreau, A., Bilodeau, P.S., Damier, L., Martin Stoltzfus, C. and Branlant, C. (2001) A Second Exon Splicing Silencer within Human Immunodeficiency Virus Type 1 tat Exon 2 Represses Splicing of Tat mRNA and Binds Protein hnRNP H*. J. Biol. Chem., 276, No 44, Issue of November 2, 40464-40475

• Azubel, M., Wolf, S.G., Sperling, J. and Sperling, R. (2004) Three-dimensional structure of the nature spliceosome by cryo-electron microscopy. Molec. Cell. 15, 833-839

• Hoffmann,M.H., Tuncel,J., Shriner,K., Tohidast-Akrad, M.Türk;B., Pinol-Roma,S., Serre, G., Schett,G., Smolen,J ;S., Holmdahl,R. and Steiner,G. (2007) The Rheumatoid Arthritis- Associated Autoantigen hnRNP-A2 (RA33) is a Major Stimulation of Autoimmunity in Rats with Pristane-induced Arthritis. The Journal of Immunology 179, 7568-7576

• Roche,K.C., Wiechens,N., Owen-Hughes,T and Perkins, N.D. (2004) The FHA domain protein SNIP1 is a regulator of the cell cycle and cyclin D1 expression. Oncogene 23, 8185-8195

• Rix,V., Hantschel,O., Dürnberger, G.,Lily,L.,Rix,R., Planyavsky,M., Fernbach,N.V., Kaupe,I.,Bennett,K.L., Valent,P., Colinge,J., Köcher,T. and Superti-Furga,G. (2007) Chemica proteomic profiles of the BCR-ABL inhibitors imatinib, nilotinib, and desatinib reveal novel kinase and non kinase targets Blood 110,4055-4063

• Sergeant,D., Moser, M., and Carvell, J. (2007) Measurement and Control of viable cell density in a mammalian cell bioprocessing facility: Validation of the software. Poster presented at the 20th ESACT meeting Dresden, 17-20th June 2007

• Sergeant, D., Vereecke, J., Moser, M., Carvell, J.P., Miller, A.O.A., Poppleton, J. Controlling a constant level of viable biomass in a perfused cytostat using radio-frequency impedance. Poster presented at Cell Engineering Conference, April ,2006.

• Brandt, D., Marion, S., Griffiths, G., Watanabe, T., Kaibuchi, K. and Grosse, R. (2007) Dia 1 and IQGAP1 interact in cell migration and phagocytic cup formation. Journal of Cell Biology 178, 193-200

• Ropers, D., Ayadi, L., Gattoni, R., Jacquenet, S., Damier, L., Branlant, C. and Stévenin, J. (2004) Differential effects of the SR proteins 9G8, SC35, ASF/SF2 and SRp40 on the utilization of the A1 to A5 splicing sites of HIV-1 RNA. J. Biol. Chem., 279, 29963-29973

• Gehring, N.H., Lamprinaki, S., Kulozik, A.E. and Hentze, M. (2009) Dissassembly of exon junction complexes by PYM. Cell 137, 536-548

• Gehring, N.H., Lamprinaki, S., Hentze, M. and Kulozik, A.E. (2009) The hierarchy of exon-junction complex assembly by the spliceosome explains key features of mammalian nonsense-mediated mRNA decay. Plos Biology 7 (5) e 1000120

• Agranat, L., Sperling, J. and Sperling, R. (2010) A novel tissue-specific alternatively spliced form of the A-to-I RNA editing enzyme ADAR2. RNA Biology 7, 1-10

• Rivera-Calzada, A., Spagnolo, L., Laurence H., P., Llorca, O. (2007) Structural model of full-lengh human Ku70-Ku80 heterodimer and its recognition of DNA and DNA-PKcs. EMBO reports 8, 56-62

• Angulo J, Ulryck N, Deforges J, Chamond N, Lopez-Lastra M, Masquida B, Sargueil B (2016) LOOP IIId of the HCV IRES is essential for the structural rearrangement of the 40S-HCV IRES complex. Nucleic Acids Res 44: 1309-1325

• Chamond N, Deforges J, Ulryck N, Sargueil B (2014) 40S recruitment in the absence of eIF4G/4A by EMCV IRES refines the model for translation initiation on the archetype of Type II IRESs. Nucleic Acids Res 42: 10373-10384

• Stefan Reber, Jolanda Stettler1, Giuseppe Filosa, Martino Colombo Daniel Jutzi, Silvia C Lenzken, Christoph Schweingruber, Rémy Bruggmann, Angela Bachi, Silvia ML Barabino, Oliver Mühlemann & Marc-David Ruepp (2016) Minor intron splicing is regulated by FUS and affected by ALS-associated FUS mutants. The EMBO Journal 35: 1504–1521

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