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

There are 173 references in this bibliography folder.

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.

Mohamed, AM, Balsat, M, Koering, C, Maucort-Boulch, D, Boissel, N, Payen-Gay, L, Cheok, M, Mortada, H, Auboeuf, D, Pinatel, C, El-Hamri, M, Tigaud, I, Hayette, S, Dumontet, C, Cros, E, Flandrin-Gresta, P, Nibourel, O, Preudhomme, C, Thomas, X, Nicolini, F, Solly, F, Guyotat, D, Campos, L, Michallet, M, Ceraulo, A, Mortreux, F, and Wattel, E (2017).
TET2 exon 2 skipping is an independent favorable prognostic factor for cytogenetically normal acute myelogenous leukemia (AML): TET2 exon 2 skipping in AML.
Leuk Res, 56:21-28.

Mohamed, AM, Balsat, M, Koering, C, Maucort-Boulch, D, Boissel, N, Payen-Gay, L, Cheok, M, Mortada, H, Auboeuf, D, Pinatel, C, El-Hamri, M, Tigaud, I, Hayette, S, Dumontet, C, Cros, E, Flandrin-Gresta, P, Nibourel, O, Preudhomme, C, Thomas, X, Nicolini, FE, Solly, F, Guyotat, D, Campos, L, Michallet, M, Ceraulo, A, Mortreux, F, and Wattel, E (2017).
TET2 exon 2 skipping is an independent favorable prognostic factor for cytogenetically normal acute myelogenous leukemia (AML): TET2 exon 2 skipping in AML
Leuk Res, 56:21–28.

Solly, F, Koering, C, Mohamed, AM, Maucort-Boulch, D, Robert, G, Auberger, P, Flandrin-Gresta, P, Ad?s, L, Fenaux, P, Kosmider, O, Tavernier-Tardy, E, Cornillon, J, Guyotat, D, Campos, L, Mortreux, F, and Wattel, E (2017).
An miRNA-DNMT1 Axis Is Involved in Azacitidine Resistance and Predicts Survival in Higher-Risk Myelodysplastic Syndrome and Low Blast Count Acute Myeloid Leukemia
Clin Cancer Res, 23(12):3025–3034.

Solly, F, Koering, C, Mohamed, AM, Maucort-Boulch, D, Robert, G, Auberger, P, Flandrin-Gresta, P, Ades, L, Fenaux, P, Kosmider, O, Tavernier-Tardy, E, Cornillon, J, Guyotat, D, Campos, L, Mortreux, F, and Wattel, E (2017).
An miRNA-DNMT1 Axis Is Involved in Azacitidine Resistance and Predicts Survival in Higher-Risk Myelodysplastic Syndrome and Low Blast Count Acute Myeloid Leukemia.
Clin Cancer Res, 23(12):3025-3034.

Tranchevent, L, Aube, F, Dulaurier, L, Benoit-Pilven, C, Rey, A, Poret, A, Chautard, E, Mortada, H, Desmet, F, Chakrama, FZ, Moreno-Garcia, MA, Goillot, E, Janczarski, S, Mortreux, F, Bourgeois, CF, and Auboeuf, D (2017).
Identification of protein features encoded by alternative exons using Exon Ontology.
Genome Res, 27(6):1087-1097.

Tranchevent, LC, Aub?, F, Dulaurier, L, Benoit-Pilven, C, Rey, A, Poret, A, Chautard, E, Mortada, H, Desmet, FO, Chakrama, FZ, Moreno-Garcia, MA, Goillot, E, Janczarski, S, Mortreux, F, Bourgeois, CF, and Auboeuf, D (2017).
Identification of protein features encoded by alternative exons using Exon Ontology
Genome Res, 27(6):1087–1097.

Auboeuf, D (2016).
Putative RNA-directed adaptive mutations in cancer evolution
Transcription, 7(5):164–187.

Auboeuf, D (2016).
Putative RNA-Directed Adaptive Mutations in Cancer Evolution.
Transcription:0.

Bourgeois, CF, Mortreux, F, and Auboeuf, D (2016).
The multiple functions of RNA helicases as drivers and regulators of gene expression
Nat Rev Mol Cell Biol, 17(7):426–438.

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