相关论文: Optimal Down Regulation of mRNA Translation
The most common gene regulation mechanism is when a protein binds to a regulatory sequence to change RNA transcription. However, these sequences are short relative to the genome length, so finding them poses a challenging search problem.…
Optimization problem, nowadays, have more application in all major but they have problem in computation. Calculation of the optimum point in the spaces with the above dimensions is very time consuming. In this paper, there is presented a…
Circulating tumour DNA (ctDNA) detection of molecular residual disease (MRD) in solid tumours correlates strongly with patient outcomes and is being adopted as a new clinical standard. ctDNA levels are known to correlate with tumor volume,…
A transversal topic of my research has been the development and application of computational methods for DNA sequence analysis. The methods I have been developing aim at improving our understanding of the regulation processes happening in…
Under certain cellular conditions, transcription and mRNA translation in prokaryotes appear to be "coupled," in which the formation of mRNA transcript and production of its associated protein are temporally correlated. Such…
We study the problem of finding an optimal radiotherapy treatment plan. A time-dependent Boltzmann particle transport model is used to model the interaction between radiative particles with tissue. This model allows for the modeling of…
The quality of machine translation is rapidly evolving. Today one can find several machine translation systems on the web that provide reasonable translations, although the systems are not perfect. In some specific domains, the quality may…
Multi-task learning has gained popularity due to the advantages it provides with respect to resource usage and performance. Nonetheless, the joint optimization of parameters with respect to multiple tasks remains an active research topic.…
Large scale surveys in mammalian tissue culture cells suggest that the protein expressed at the median abundance is present at 8,000 - 16,000 molecules per cell and that differences in mRNA expression between genes explain only 10-40% of…
Feature-based transfer is one of the most effective methodologies for transfer learning. Existing studies usually assume that the learned new feature representation is \emph{domain-invariant}, and thus train a transfer model $\mathcal{M}$…
Transferring the state of a quantum system to a given distribution of populations is an important problem with applications to Quantum Chemistry and Atomic Physics. In this work we consider exact population transfers that minimize the L^2…
In many important cellular processes, including mRNA translation, gene transcription, phosphotransfer, and intracellular transport, biological "particles" move along some kind of "tracks". The motion of these particles can be modeled as a…
This paper investigates downlink radio resource management (RRM) in millimeter-wave systems with codebook-based hybrid beamforming in a single cell. We consider a practical but often overlooked multi-channel scenario where the base station…
It has been shown that using appropriate channel coding schemes in wireless environments, transmission energy can be significantly reduced by controlling the packet transmission rate. This paper seeks optimal solutions for downlink…
It has been estimated that about 30% of the genes in the human genome are regulated by microRNAs (miRNAs). These are short RNA sequences that can down-regulate the levels of mRNAs or proteins in animals and plants. Genes regulated by miRNAs…
Optimal transportation provides a means of lifting distances between points on a geometric domain to distances between signals over the domain, expressed as probability distributions. On a graph, transportation problems can be used to…
Neural Machine Translation (NMT) currently exhibits biases such as producing translations that are too short and overgenerating frequent words, and shows poor robustness to copy noise in training data or domain shift. Recent work has tied…
Neural autoregressive sequence models smear the probability among many possible sequences including degenerate ones, such as empty or repetitive sequences. In this work, we tackle one specific case where the model assigns a high probability…
Systemic properties of living cells are the result of molecular dynamics governed by so-called genetic regulatory networks (GRN). These networks capture all possible features of cells and are responsible for the immense levels of adaptation…
Central to the functioning of a living cell is its ability to control the readout or expression of information encoded in the genome. In many cases, a single transcription factor protein activates or represses the expression of many genes.…