Publications 2006
| Author | Title | Publication |
|---|---|---|
| Aravin, A., Gaidatzis, D., Pfeffer, S., Lagos-Quintana, M., Landgraf, P., Iovino, N., Morris, P., Brownstein, M.J., Kuramochi-Miyagawa, S., Nakano, T., Chien, M., Russo, J.J., Ju, J., Sheridan, R., Sander, C., Zavolan, M., Tuschl, T. | A novel class of small RNAs bind to MILI protein in mouse testes. | Nature 442, 203-207. |
| Chern, T.M., van Nimwegen, E., Kai, C., Kawai, J., Carninci, P., Hayashizaki, Y., Zavolan, M. | A simple physical model predicts small exon length variations. | PLoS Genetics 2, e45. |
| van Nimwegen, E., Paul, N., Sheridan, R., Zavolan, M. | Spa: a probabilistic algorithm for spliced alignment. | PLoS Genetics 2(4), e24. |
| Baralle, M., Skoko, N., Knezevich, A., de Conti, L., Motti, D., Baralle, D., Buratti, E., Baralle, F.E. | NF1 mRNA biogenesis : Effect of the genomic milieu in splicing regulation of NF1 exon 37 region. | FEBS Lett. 58018, 449-56. |
| Raponi, M., Upadhyaya, M. Baralle, D. | Functional splicing assay show a pathogenic intronic mutation in Neurofibromatosis type 1 (NF1) due to intronic sequence exonization. | Human Mutation 27(3), 294-295. |
| Izquierdo, J.M. and Valcárcel, J. | A simple principle to explain the evolution of pre-mRNA splicing. | Genes and Development. 23(2), 150-1. |
| Soares, L.M., Zanier K., Sattler M. and Valcárcel, J. | Intron removal requires proofreading of U2AF / 3’ splice site recognition by DEK. | Science 312(5782), 1961-5. |
| Mendes Soares, L.M., Valcárcel, J. | The expanding transcriptome: the genome as the - Book of Sand. | EMBO Journal 25, 923-931. |
| Soret, J., Gabut, M., and Tazi, J. | SR proteins as potential targets for therapy. | Progress in Molecular and Subcellular Biology (Invited review) 44, 65-87. |
| Kornblihtt, A.R. | Chromatin transcript elongation and alternative splicing. | Nature Structural and Molecular Biology 13, 5-7. |
| Srebrow, A., Kornblihtt, A. R. | The splicing-cancer connection. | Journal of Cell Science 119, 2635-2641. |
| Mühlemann, O., Akusjärvi, G. | Preparation of soluble extracts from adenovirus-infected cells for studies of RNA splicing. | Methods in Molecular Medicine 131, 33-46. |
| Törmänen, H., Backström, E. Carlsson, A., and Akusjärvi, G. | L4-33K, an adenovirus encoded alternative RNA splicing factor. | Journal of Biological Chemistry 281, 36510-36517. |
| de la Mata, M., Kornblihtt, A.R. | RNA polymerase II C-terminal domain mediates regulation of alternative splicing by SRp20. | Nature Structural and Molecular Biology 13, 973-980. (Commented as News and Views in Nature Structural and Molecular Biology 13, 952-953). |
| Ayala, Y.M., Pagani, F., and Baralle, F.E. | TDP43 Depletion Rescues Aberrant CFTR Exon 9 Skipping. | FEBS Letters, 580, 1339-1344. |
| Barbosa-Morais, N., Carmo-Fonseca, M., Aparicio, S. | Systematic genome/wide annotation of spliceosomal proteins reveals differential gene family expansion. | Genome Research 16, 66-77. |
| Gama-Carvalho, M., and Carmo-Fonseca, M. | Heterokaryon assays. | In: Cell Biology – a Laboratory Manual, Ed. Julio Celis, Elsevier Science, USA. |
| Custodio, N., Carvalho, C., Carneiro, T., and Carmo-Fonseca, M. | In situ hybridization for simultaneous detection of DNA, RNA and protein. | In: Cell Biology – a Laboratory Manual, ed. Julio Celis, Elsevier Science, USA. |
| Kozlova, N., |
Studies on the role of NonA in mRNA biogenesis. | Experimental Cell Research 312, 2619-30. |
| Custódio, N., Antoniou, M., Carmo-Fonseca, M. | Abundance of the largest subunit of RNA polymerase II in the nucleus is regulated by nucleo-cytoplasmic shuttling. | Experimental Cell Research 312, 2557-67. |
| Pacheco, T.R., Moita, L.F., Gomes, A.Q., Hacohen, N., Carmo-Fonseca, M. | RNAi Knockdown of hU2AF35 Impairs Cell Cycle Progression and Modulates Alternative Splicing of Cdc25 Transcripts. | Molecular Biology of the Cell 17(10), 4187-4199. |
| Pacheco, T.R., Coelho, M.B., Desterro, J.M.P., Mollet, |
In vivo requirement of the small subunit of U2AF for recognition of a weak 3’ splice site. | Molecular Cellular Biology 26(21), 8183-90. |
| Mollet, |
Diversity of human U2AF splicing factors. | FEBS Journal 273(21), 4807-16. |
| Gama-Carvalho, M., Barbosa-Morais, N.L., Brodsky, A.S., Silver, P.A., Carmo-Fonseca, M. | Genome wide identification of functionally distinct subsets of cellular mRNAs associated with two nucleocytoplasmic-shuttling mammalian splicing factors. | Genome Biology 7(11), R113. |
| Ben-Ari, S., Toiber, D., Sas, A.S., Soreq, H., and Ben-Shaul, Y. | Modulated splicing-associated gene expression in P19 cells expressing distinct acetylcholinesterase splice variants. | Journal of Neurochemistry 97 Suppl 1, 24-34. PMID: 16635247. |
| Boon, K.L., |
Prp8p dissection reveals domain structure and protein interaction sites. | RNA 12, 198-205. |
| Buratti, E., Baralle, M., and Baralle, F.E. | Defective splicing, disease, and therapy: searching for master checkpoints in exon definition. | Nucleic Acids Research 34, 3494-3510. |
| Costessi, L., Devescovi, G., Baralle, F.E., and Muro, A.F. | Brain-specific promoter and polyadenylation sites of the beta-adducin pre-mRNA generate an unusually long 30'-UTR. | Nucleic Acids Research 34, 243-253. |
| Gabellini, D., D’Antona, G., Moggio, M., Prelle, A., Zecca, C., Adami, R., Angeletti, B., Ciscato, P., Pellegrino, M.A., Bottinelli, R., Green, M.R., Tupler, R. | Facioscapulohumeral Muscular Dystrophy in Transgenic Mice by Over-Expression of FRG1. | Nature 439, 973-977. |
| Gooding, C., Clark, F., Wollerton, M.C., Nagaraj-Grellscheid, S., Groom, H., and Smith, C.W.J. | A class of human exons with predicted distant branch points revealed by analysis of AG dinucleotide exclusion zones. | Genome Biology 7, R1. |
| Grisaru, D., Pick, M., Perry, C., Sklan, E.H., Almog, R., Goldberg, |
Hydrolytic and non-enzymatic functions of acetylcholinesterase co-modulate hematopoietic stress responses. | Journal of Immunology, 176, 27-35. |
| Guil, S., Long, J.C., and |
hnRNP A1 relocalization to the stress granules reflects a role in the stress response. | Molecular and Cellular Biology 26, 5744-5758. PMID: 16847328. |
| Karaduman, R., Fabrizio, P., Hartmuth, K., Urlaub, H., Luhrmann, R. | RNA Structure and RNA-Protein Interactions in Purified Yeast U6 snRNPs. | Journal of Molecular Biology 356, 1248-62. |
| Klingauf, M., Stanek, D., and Neugebauer, K.M. | Enhancement of U4/U6 snRNP association in Cajal bodies predicted by mathematical modeling. | Molcular Biology of the Cell 17, 4972. PMID: 16987958. |
| Kishore, S., and Stamm, S. | The snoRNA HBII-52 regulates alternative splicing of the serotonin receptor 2C. | Science 311, 230-232. |
| Listerman, |
Cotranscriptional coupling of splicing factor recruitment and precursor messenger RNA splicing in mammalian cells. | Nature Structural and Molecular Biology 13, 815 - 822. PMID: 16921380. |
| Kalyna, M., Lopato, S., Voronin, V., Barta, A. | Evolutionary conservation and regulation of particular alternative splicing events in plant SR proteins. | Nucleic Acids Research 34(16), 4395-405. |
| Manival X., Charron C., Fourmann J.B., Godard, F., Charpentier B., and Branlant C. | Crystal structure determination and site-directed mutagenesis of the Pyrococcus abyssi aCBF5-aNOP10 complex reveal crucial roles of the C-terminal domains of both proteins in H/ACA sRNP activity. | Nucleic Acids Research 34, 826-839. |
| Meshorer, E., and Soreq, H. | Virtues and woes of AChE alternative splicing in stress-related neuropathologies. | Trends in Neurosciences 29, 216-224. PMID: 16516310. |
| Neugebauer, K.M. | Keeping tabs on the women: life scientists in |
PLoS Biology 4, e97. PMID: 16602822. |
| Neugebauer, K.M. | Please hold--the next available exon will be right with you. | Nature Structural and Molecular Biology 13, 385-386. PMID: 16738604. |
| Öhrmalm, C., and Akusjärvi, G. | The cellular splicing/transcription regulatory protein p32 represses adenovirus major late transcription unit and causes RNA polymerase II hyperphosphorylation. | Journal of Virology 80, 5010-5020. |
| Sklan, E.H., Berson, A., Birikh, K. R., Gutnick, A., Shahar, O., Shoham, S., and Soreq, H. | Acetylcholinesterase Modulates Stress-Induced Motor Responses Through Catalytic and Noncatalytic Properties. | Biological Psychiatry 60(7), 741-751. PMID: 16904653. |
| Stamm, S., Riethoven, J.J., Le Texier, V., Gopalakrishnan, C., Kumanduri, V., Tang, Y., Barbosa-Morais, N.L., and Thanaraj, T.A. | ASD: a bioinformatics resource on alternative splicing. | Nucleic Acids Research 34, D46-55. |
| Stanek, D., and Neugebauer, K.M. | The Cajal body: a meeting place for spliceosomal snRNPs in the nuclear maze. | Chromosoma 115, 343-354. PMID: 16575476. |
| Wu, C.H., Apweiler, R., Bairoch, A., Natale, D.A, Barker, W.C., Boeckmann, B., Ferro, S., Gasteiger, E., Huang, H., Lopez, R., Magrane, M., Martin, M.J., Mazumder, R., O'Donovan, C., Redaschi, N., and Suzek, B. | The Universal Protein Resource (UniProt): an expanding universe of protein information. | Nucleic Acids Research 34, D187-D91. |
