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This folder holds the following references to publications, sorted by year and author.

There are 174 references in this bibliography folder.

Ceraulo, A, Lapillonne, H, Cheok, MH, Preudhomme, C, Dombret, H, Terré, C, Lambert, J, Leverger, G, Bertrand, Y, Mortreux, F, and Wattel, E (2022).
Prognostic impact of ABCA3 expression in adult and pediatric acute myeloid leukemia: an ALFA-ELAM02 joint study
Blood Adv.

Dincã, DM, Lallemant, L, González-Barriga, A, Cresto, N, Braz, SO, Sicot, G, Pillet, L, Polvèche, H, Magneron, P, Huguet-Lachon, A, Benyamine, H, Azotla-Vilchis, CN, Agonizantes-Juárez, LE, Tahraoui-Bories, J, Martinat, C, Hernández-Hernández, O, Auboeuf, D, Rouach, N, Bourgeois, CF, Gourdon, G, and Gomes-Pereira, M (2022).
Myotonic dystrophy RNA toxicity alters morphology, adhesion and migration of mouse and human astrocytes
Nat Commun, 13(1):3841.

Hatat, A, Benoit-Pilven, C, Pucciarelli, A, de Fraipont, F, Lamothe, L, Perron, P, Rey, A, Levra, MG, Toffart, A, Auboeuf, D, Eymin, B, and Gazzeri, S (2022).
Altered splicing of ATG16-L1 mediates acquired resistance to tyrosine kinase inhibitors of EGFR by blocking autophagy in non-small cell lung cancer.
Mol Oncol.

Terrone, S, Valat, J, Fontrodona, N, Giraud, G, Claude, J, Combe, E, Lapendry, A, Polvèche, H, Ameur, LB, Duvermy, A, Modolo, L, Bernard, P, Mortreux, F, Auboeuf, D, and Bourgeois, CF (2022).
RNA helicase-dependent gene looping impacts messenger RNA processing.
Nucleic Acids Res, 50(16):9226-46.

Auboeuf, D (2021).
The Physics-Biology continuum challenges darwinism: Evolution is directed by the homeostasis-dependent bidirectional relation between genome and phenotype
Prog Biophys Mol Biol, 167:121–139.

González-Barriga, A, Lallemant, L, Dincã, DM, Braz, SO, Polvèche, H, Magneron, P, Pionneau, C, Huguet-Lachon, A, Claude, JB, Chhuon, C, Guerrera, IC, Bourgeois, CF, Auboeuf, D, Gourdon, G, and Gomes-Pereira, M (2021).
Integrative Cell Type-Specific Multi-Omics Approaches Reveal Impaired Programs of Glial Cell Differentiation in Mouse Culture Models of DM1
Front Cell Neurosci, 15:662035.

Jarrige, M, Polvèche, H, Carteron, A, Janczarski, S, Peschanski, M, Auboeuf, D, and Martinat, C (2021).
SISTEMA: A large and standardized collection of transcriptome data sets for human pluripotent stem cell research
iScience, 24(7):102767.

Manet, E, Polvèche, H, Mure, F, Mrozek-Gorska, P, Roisné-Hamelin, F, Hammerschmidt, W, Auboeuf, D, and Gruffat, H (2021).
Modulation of alternative splicing during early infection of human primary B lymphocytes with Epstein-Barr virus (EBV): a novel function for the viral EBNA-LP protein
Nucleic Acids Res, 49(18):10657–10676.

Vandermeulen, C, O'Grady, T, Wayet, J, Galvan, B, Maseko, S, Cherkaoui, M, Desbuleux, A, Coppin, G, Olivet, J, Ben Ameur, L, Kataoka, K, Ogawa, S, Hermine, O, Marcais, A, Thiry, M, Mortreux, F, Calderwood, MA, Van Weyenbergh, J, Peloponese, JM, Charloteaux, B, Van den Broeke, A, Hill, DE, Vidal, M, Dequiedt, F, and Twizere, JC (2021).
The HTLV-1 viral oncoproteins Tax and HBZ reprogram the cellular mRNA splicing landscape
PLoS Pathog, 17(9):e1009919.

Ameur, LB, Marie, P, Thenoz, M, Giraud, G, Combe, E, Claude, JB, Lemaire, S, Fontrodona, N, Polveche, H, Bastien, M, Gessain, A, Wattel, E, Bourgeois, CF, Auboeuf, D, and Mortreux, F (2020).
Intragenic recruitment of NF-κB drives splicing modifications upon activation by the oncogene Tax of HTLV-1
Nat Commun, 11(1):3045.

Auboeuf, D (2020).
Physicochemical Foundations of Life that Direct Evolution: Chance and Natural Selection are not Evolutionary Driving Forces
Life (Basel), 10(2).

Ladet, J and Mortreux, F (2020).
[Circular RNA, actors and biomarkers of cancers]
Med Sci (Paris), 36(10):935–938.

Tanaka, I, Chakraborty, A, Saulnier, O, Benoit-Pilven, C, Vacher, S, Labiod, D, Lam, EWF, Bi?che, I, Delattre, O, Pouzoulet, F, Auboeuf, D, Vagner, S, and Dutertre, M (2020).
ZRANB2 and SYF2-mediated splicing programs converging on ECT2 are involved in breast cancer cell resistance to doxorubicin
Nucleic Acids Res, 48(5):2676–2693.

Benaoudia, S, Martin, A, Puig Gamez, M, Gay, G, Lagrange, B, Cornut, M, Krasnykov, K, Claude, JB, Bourgeois, CF, Hughes, S, Gillet, B, Allatif, O, Corbin, A, Ricci, R, and Henry, T (2019).
A genome-wide screen identifies IRF2 as a key regulator of caspase-4 in human cells
EMBO Rep, 20(9):e48235.

Fontrodona, N, Aub?, F, Claude, JB, Polv?che, H, Lemaire, S, Tranchevent, LC, Modolo, L, Mortreux, F, Bourgeois, CF, and Auboeuf, D (2019).
Interplay between coding and exonic splicing regulatory sequences
Genome Res, 29(5):711–722.

Lemaire, S, Fontrodona, N, Aub?, F, Claude, JB, Polv?che, H, Modolo, L, Bourgeois, CF, Mortreux, F, and Auboeuf, D (2019).
Characterizing the interplay between gene nucleotide composition bias and splicing
Genome Biol, 20(1):259.

Maury, Y, Poydenot, P, Brinon, B, Lesueur, L, Gide, J, Roquevi?re, S, C?me, J, Polv?che, H, Auboeuf, D, Alexandre Denis, J, Pietu, G, Furling, D, Lechuga, M, Baghdoyan, S, Peschanski, M, and Martinat, C (2019).
Pluripotent Stem Cell-Based Drug Screening Reveals Cardiac Glycosides as Modulators of Myotonic Dystrophy Type 1
iScience, 11:258–271.

Auboeuf, D (2018).
Alternative mRNA processing sites decrease genetic variability while increasing functional diversity
Transcription, 9(2):75–87.

Benoit-Pilven, C, Marchet, C, Chautard, E, Lima, L, Lambert, MP, Sacomoto, G, Rey, A, Cologne, A, Terrone, S, Dulaurier, L, Claude, JB, Bourgeois, CF, Auboeuf, D, and Lacroix, V (2018).
Complementarity of assembly-first and mapping-first approaches for alternative splicing annotation and differential analysis from RNAseq data
Sci Rep, 8(1):4307.

Giraud, G, Terrone, S, and Bourgeois, CF (2018).
Functions of DEAD box RNA helicases DDX5 and DDX17 in chromatin organization and transcriptional regulation
BMB Rep, 51(12):613–622.

Miro, J, Bourgeois, CF, Claustres, M, Koenig, M, and Tuffery-Giraud, S (2018).
Identification of Splicing Factors Involved in DMD Exon Skipping Events Using an In Vitro RNA Binding Assay
Methods Mol Biol, 1687:157–169.

Auboeuf, D (2017).
Genome evolution is driven by gene expression-generated biophysical constraints through RNA-directed genetic variation: A hypothesis
Bioessays, 39(10).

Bash-Imam, Z, Th?rizols, G, Vincent, A, Laf?rets, F, Polay Espinoza, M, Pion, N, Macari, F, Pannequin, J, David, A, Saurin, JC, Mertani, HC, Textoris, J, Auboeuf, D, Catez, F, Dalla Venezia, N, Dutertre, M, Marcel, V, and Diaz, JJ (2017).
Translational reprogramming of colorectal cancer cells induced by 5-fluorouracil through a miRNA-dependent mechanism
Oncotarget, 8(28):46219–46233.

Bash-Imam, Z, Therizols, G, Vincent, A, Laforets, F, Polay Espinoza, M, Pion, N, Macari, F, Pannequin, J, David, A, Saurin, J, Mertani, HC, Textoris, J, Auboeuf, D, Catez, F, Dalla Venezia, N, Dutertre, M, Marcel, V, and Diaz, J (2017).
Translational reprogramming of colorectal cancer cells induced by 5-fluorouracil through a miRNA-dependent mechanism.
Oncotarget, 8(28):46219-46233.

Bourgeois, CF and Auboeuf, D (2017).
The RNA helicase DDX5 is a reprogramming roadblock
Stem Cell Investig, 4:79.

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