Technical Reports of the Computer Science Department

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Author: search.filters.author.Rodriguez-Esteban, Raul

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    Cell Maps on the Human Genome
    (2018-06-01) Cherniak, Christopher; Rodriguez-Esteban, Raul
    Sub-cellular organization is significantly mapped onto the human genome: Evidence is reported for a "cellunculus" -- on the model of a homunculus, on the H. sapiens genome. We have previously described a statistically significant, global, supra-chromosomal representation of the human body that appears to extend over the entire genome. Here, we extend the genome mapping model, zooming down to the typical individual animal cell. Basic cell structure turns out to map onto the total genome, mirrored via genes that express in particular cell organelles (e.g., “nuclear membrane”); evidence also suggests similar cell maps appear on individual chromosomes that map the dorsoventral body axis.
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    Global Layout Optimization of Olfactory Cortex and of Amygdala of Rat
    (2005-06) Rodriguez-Esteban, Raul; Cherniak, Christopher
    Principles of connection minimization in the nervous system apply not only to complete neural systems but also to smaller subsystems such as rat olfactory cortex and rat amygdala. These subsystems have a three-dimensional organization, rather than previously-studied two-dimensional and one-dimensional schemes. Nonetheless, wire-cost savings show optimality at similar levels, suggesting neural optimization principles are widespread, followed at multiple scales of the nervous system.
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    Global Optimization of Cerebral Cortex Layout (II)
    (2003-11-25) Cherniak, Christopher; Mokhtarzada, Zekeria; Rodriguez-Esteban, Raul; Changizi, B. K.
    Supplementary supporting material for: UMIACS-TR-2003-102 CS-TR-4534 Global Optimization of Cerebral Cortex Layout (I) C. Cherniak, Z. Mokhtarzada, R. Rodriguez-Esteban, B. Changizi.
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    Global Optimization of Cerebral Cortex Layout (I)
    (2003-11-25) Cherniak, Christopher; Mokhtarzada, Zekeria; Rodriguez-Esteban, Raul; Changizi, B. K.
    Functional areas of mammalian cerebral cortex seem positioned to minimize costs of their interconnections, down to a best-in-a-billion optimality level. The optimization problem here, originating in microcircuit design, is: Given connections among components, what is the physical placement of the components on a surface that minimizes total length of connections? Because of unfeasibility of measuring longrange "wirelength" in the cortex, a simpler adjacency cost was validated. To deal with incomplete information on brain networks, a Size Law was developed that predicts optimization patterns in subnetworks. Macaque and cat cortex rank better in this connection optimization than the wiring of comparably structured computer chips, but somewhat worse than the macroeconomic commodity-flow network among U.S. states. However, cortex wiring conforms to the Size Law better than the macroeconomic patterns, which may indicate cortex optimizing mechanisms involve more global processes. [ See also Supplementary Material: CS-TR-4535 ] UMIACS-TR-2003-102)