Evaluation of Methods for Cell Nuclear Structure Analysis from Microscopy Data

Abstract

Abstract. Changes in cell nuclear architecture are regulated by complex biological mechanisms that associated with the altered functional properties of a cell. Quantitative analyses of structural alterations of nuclei and their compartments are important for understanding such mechanisms. In this work we present a comparison of approaches for nuclear structure classification, evaluated on 2D per-channel representations from a large 3D microscopy imaging dataset by maximum intensity projection. Specifically, we compare direct classification of pixel data from either raw intensity images or binary masks that contain only information about morphology of the object, but not texture. We evaluate a number of widely used classification algorithms using 2 different cross-validation schemes to assess batch effects. We compare obtained results with the previously reported baselines and discuss novel findings.

Hypothesis: Caco‐2 cell rotational 3D mechanogenomic turing patterns have clinical implications to colon crypts

“…Our pipeline workflow protocol may need to be tailored to each new imaging data format; however, the overall design of the protocol is not expected to drastically change. [17][18][19][20]35 Application of BAC-FISH methods to study colon crypts is feasible in our pilot study (Figure 2B). Correlating morphogenesis with oscillatory gene movement and expression including clarification of the biophysical mechanisms that determine DNA-histone interactions and their regulation by cooperative transcription factors will be required to generate convincing proof of Turing's "gene morphogenesis hypothesis" in primary cells and tissue models.…”

“…Then, the same protocol for automated cell and subnuclear structure labelling can be applied to generate solid volumetric masks of nuclear components. Our pipeline workflow protocol may need to be tailored to each new imaging data format; however, the overall design of the protocol is not expected to drastically change . Application of BAC‐FISH methods to study colon crypts is feasible in our pilot study (Figure B).…”

“…Detailed indepth description and discussion of the rotational 3D mechanogenomic Turing patterns observed during differentiation are included in the supplementary and online material ( Figure 1 and S1) (http:// www.socr.umich.edu/projects/3d-cell-morphometry/data.html). [17][18][19][20] 2 | SOME POTENTIAL APPLICATIONS OF…”

3D Shape Modeling for Cell Nuclear Morphological Analysis and Classification

“…Recent applications have demonstrated the ability of deep neural networks to successfully perform classification, segmentation, and detection on limited amounts of biomedical imaging data [79][80][81] . For example, textural features could possibly increase discriminatory power of the method and provide more information on chromatin reorganization 82 . Since nuclear deformation serves as a proxy to underlying processes, the importance of particular features and the method's ability to classify nuclei does not provide direct insight into the fundamental biological mechanism driving the observed morphometric differences between cell phenotypes or environmental conditions.…”

Innovative Approaches in the Personnel Assessment of Banking Institutions

“…Key words: personnel assessment, banking institution, competency-based approach, Assessment center, Key Performance Indicators. [6; 10]; покращення кадрової політики банку [1]; використання методів оцінювання для підвищення ефективності системи підбору та підготовки персоналу в банківській сфері [3] та з позиції забезпечення фінансовоекономічного прогресу комерційного банку [13].…”