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Inferring Markov Chains to Describe Convergent Tumor Evolution With CIMICE

The field of tumor phylogenetics focuses on studying the differences within cancer cell populations. Many efforts are done within the scientific community to build cancer progression models trying to understand the heterogeneity of such diseases. …

LINC01605 Is a Novel Target of Mutant p53 in Breast and Ovarian Cancer Cell Lines

LINC01605 Is a Novel Target of Mutant p53 in Breast and Ovarian Cancer Cell Lines

TP53 is the most frequently mutated gene in human cancers. Most TP53 genomic alterations are missense mutations, which cause a loss of its tumour suppressor functions while providing mutant p53 (mut_p53) with oncogenic features (gain-of-function). …

Ordering regular languages and automata: Complexity

Given an order of the underlying alphabet, we can lift it to the states of a finite deterministic automaton: to compare states we use the order of the strings reaching them. When the order on strings is the co-lexicographic one and this order turns …

Primary cilia sense glutamine availability and respond via asparagine synthetase

Primary cilia sense glutamine availability and respond via asparagine synthetase

Primary cilia are shown to adjust length in response to cellular nutrient availability, with a special role for glutamine-mediated anaplerosis via the enzyme ASNS, which was found to be located at the base of cilia. Consistently, cells lacking cilia …

The kth nearest neighbor method for estimation of entropy changes from molecular ensembles

The kth nearest neighbor method for estimation of entropy changes from molecular ensembles

All processes involving molecular systems entail a balance between associated enthalpic and entropic changes. Molecular dynamics simulations of the end-points of a process provide in a straightforward way the enthalpy as an ensemble average. …

3coSoKu and its declarative modeling

In this paper, we analyze the physical puzzle IcoSoKu, a game about placing some given triangular tiles on the faces of an icosahedron in order to fill the capacities of its vertices, and we propose its generalization called 3coSoKu, admitting an …

Composable partial multiparty session types for open systems

Session types are a well-established framework for the specification of interactions between components of a distributed systems. An important issue is how to determine the type for an open system, i.e., obtained by assembling subcomponents, some of …