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I have carried out a project to study the eccentric neutron-star binary Circinus X-1 through an extensive series of observational studies with the Rossi X-ray Timing Explorer satellite and through theoretical computer models I developed to…
The current neuron reconstruction pipeline for electron microscopy (EM) data usually includes automatic image segmentation followed by extensive human expert proofreading. In this work, we aim to reduce human workload by predicting…
Developmental constraints have been postulated to limit the space of feasible phenotypes and thus shape animal evolution. These constraints have been suggested to be the strongest during either early or mid-embryogenesis, which corresponds…
In this work, we introduce a Tropical Axial Attention neural reasoning architecture that replaces vanilla softmax dot-product attention with max-plus operators, inducing a piecewise-linear structure aligned with dynamic programming…
The wiring and connectivity of neurons form a structural basis for the function of the nervous system. Advances in volume electron microscopy (EM) and image segmentation have enabled mapping of circuit diagrams (connectomics) within local…
Biological cortical neurons are remarkably sophisticated computational devices, temporally integrating their vast synaptic input over an intricate dendritic tree, subject to complex, nonlinearly interacting internal biological processes. A…
A number of studies have indicated a potential association between prenatal exposure to radiation and late mental disabilities. This is believed to be due to long-term developmental changes and functional impairment of the central nervous…
Microtubules (MTs) nucleated by centrosomes form star-shaped structures referred to as asters. Aster motility and dynamics is vital for genome stability, cell division, polarization and differentiation. Asters move either towards the cell…
The electron microscope (EM) remains the predominant technique for elucidating intricate details of the animal nervous system at the nanometer scale. However, accurately reconstructing the complex morphology of axons and myelin sheaths…
DNA replication in Xenopus laevis is extremely reliable, failing to complete before cell division no more than once in 10,000 times; yet replication origins sites are located and initiated stochastically. Using a model based on 1d theories…
Exoplanet observations are currently analysed with Bayesian retrieval techniques. Due to the computational load of the models used, a compromise is needed between model complexity and computing time. Analysis of data from future facilities,…
Even though there is a plethora of research in Microarray gene expression data analysis, still, it poses challenges for researchers to effectively and efficiently analyze the large yet complex expression of genes. The feature (gene)…
Spatial transcriptomics (ST) technologies enable gene expression profiling with spatial resolution, offering unprecedented insights into tissue organization and disease heterogeneity. However, current analysis methods often struggle with…
As organisms are faced with intense rapidly changing selective pressures, new genetic material is required to facilitate adaptation. Among sources of genetic novelty, gene duplications and transposable elements (TEs) offer new genes or new…
The analysis of eight molecular datasets involving human and teleost examples along with morphological samples from several groups of Neotropical electric fish (Order: Gymnotiformes) were used in this thesis to test the dynamics of both…
Non-human primates (NHPs) serve as critical models for understanding human brain function and neurological disorders due to their close evolutionary relationship with humans. Accurate brain tissue segmentation in NHPs is critical for…
Epilepsy is a chronic neurological condition characterized by recurrent seizures, with global prevalence estimated at 50 million people worldwide. While progress in high-throughput sequencing has allowed for broad-based transcriptomic…
The Transiting Exoplanet Survey Satellite (TESS) mission measured light from stars in ~75% of the sky throughout its two year primary mission, resulting in millions of TESS 30-minute cadence light curves to analyze in the search for…
To achieve excellent performance with modern neural networks, having the right network architecture is important. Neural Architecture Search (NAS) concerns the automatic discovery of task-specific network architectures. Modern NAS…
Freshwater Unionid bivalves have recently faced ecological upheaval through pollution, barriers to dispersal, human harvesting, and changes in fish-host prevalence. Currently, over 70% of species are threatened, endangered or extinct. To…