Topological comparison of methods for predicting transcriptional cooperativity in yeast

Background: The cooperative interaction between transcription factors has a decisive role in the control of the fate of the eukaryotic cell. Computational approaches for characterizing cooperative transcription factors in yeast, however, are based on different rationales and provide a low overlap between their results. Because the wealth of information contained in protein interaction networks and regulatory networks has proven highly effective in elucidating functional relationships between proteins, we compared different sets of cooperative transcription factor pairs (predicted by four different computational methods) within the frame of those networks. Results: Our results show that the overlap between the sets of cooperative transcription factors predicted by the different methods is low yet significant. Cooperative transcription factors predicted by all methods are closer and more clustered in the protein interaction network than expected by chance. On the other hand, members of a cooperative transcription factor pair neither seemed to regulate each other nor shared similar regulatory inputs, although they do regulate similar groups of target genes. Conclusion: Despite the different definitions of transcriptional cooperativity and the different computational approaches used to characterize cooperativity between transcription factors, the analysis of their roles in the framework of the protein interaction network and the regulatory network indicates a common denominator for the predictions under study. The knowledge of the shared topological properties of cooperative transcription factor pairs in both networks can be useful not only for designing better prediction methods but also for better understanding the complexities of transcriptional control in eukaryotes.

[Archives de la Parole]. , La parabole de l'enfant prodigue : récit (dravidien, malayālam, province de Madras) / [Sir George Grierson], éd. ; Linguistic survey of India ; [C.K. Gopalamenon], voix

[Traditions. Asie. Inde. Province de Madras [i.e. Chennai]. État du Kérala. Région du Malabar]

[Archives de la Parole]. , Nadar dadā and Dalang dadā : two songs in Kōrwā from Sarguja (C.P.) / [Sir George Grierson], éd. ; Linguistic survey of India ; [Nathu Kōrwā], voix

[Traditions. Asie. Inde. Chhattisgarh. Surguja]

[Archives de la Parole]. , [Chant populaire en khāndeśī] : indo-aryen / [Sir George Grierson], éd. ; Linguistic survey of India ; [K.S. Vani], voix

[Traditions. Asie. Inde. État du Maharashtra. Dhule]

[Archives de la Parole]. , Sīkā me tānge : a song in Chhattīsgaṛhī Hindī from Raipur (C.P.) [i.e. Central Provinces] / [Sir George Grierson], éd. ; Linguistic survey of India ; [Brijlal Raut], voix

[Traditions. Asie. Inde. Chhattisgarh. Raipur]

Autosis is a Na+,K+-ATPase-regulated form of cell death triggered by autophagy-inducing peptides, starvation, and hypoxia-ischemia.

A long-standing controversy is whether autophagy is a bona fide cause of mammalian cell death. We used a cell-penetrating autophagy-inducing peptide, Tat-Beclin 1, derived from the autophagy protein Beclin 1, to investigate whether high levels of autophagy result in cell death by autophagy. Here we show that Tat-Beclin 1 induces dose-dependent death that is blocked by pharmacological or genetic inhibition of autophagy, but not of apoptosis or necroptosis. This death, termed "autosis," has unique morphological features, including increased autophagosomes/autolysosomes and nuclear convolution at early stages, and focal swelling of the perinuclear space at late stages. We also observed autotic death in cells during stress conditions, including in a subpopulation of nutrient-starved cells in vitro and in hippocampal neurons of neonatal rats subjected to cerebral hypoxia-ischemia in vivo. A chemical screen of ~5,000 known bioactive compounds revealed that cardiac glycosides, antagonists of Na(+),K(+)-ATPase, inhibit autotic cell death in vitro and in vivo. Furthermore, genetic knockdown of the Na(+),K(+)-ATPase α1 subunit blocks peptide and starvation-induced autosis in vitro. Thus, we have identified a unique form of autophagy-dependent cell death, a Food and Drug Administration-approved class of compounds that inhibit such death, and a crucial role for Na(+),K(+)-ATPase in its regulation. These findings have implications for understanding how cells die during certain stress conditions and how such cell death might be prevented.

[Archives de la Parole]. , [The silly weaver girl] : récit (dravidien, malayālam, province de Madras) / [Sir George Grierson], éd. ; Linguistic survey of India ; [K.K. Achyutan], voix

[Traditions. Asie. Inde. Province de Madras [i.e. Chennai]. État du Kérala. Kochi]

K. Iran i la proliferació nuclear

Conté: ¿Irán, potencia nuclear?; El reto nuclear de Irán; Dos respuestas al reto nuclear; Con la vista puesta en Irán; La provocación nuclear norcoreana; Irán y la oferta de Obama

Fantaisie en ut mineur, K 475 / Mozart, comp. ; revue et annotée par Lazare-Lévy ; Lazare-Lévy, p

Titre uniforme : [Fantaisies. Piano. KV 475. Do mineur]