The genetic information encoded in DNA is read off in living cells through the processes of 'transcription' and 'translation.' The gene produces mRNA molecules (transcription), and mRNAs make proteins (translation) using other macromolecules' help. One fact of life is that these molecular processes are 'noisy.' There are cell-to-cell variations in the mRNA and protein copy numbers even when cells are genetically identical. This noise arguably is a source of 'phenotypic diversity'. We are interested in how molecular regulation affects gene expression noise.
Previously we investigated how molecular competition for transcription factors affects gene expression noise. We are now looking at post-transcriptional regulation of the gene expression by micro-RNAs. Micro-RNAs are small non-coding RNAs that bind to large mRNA molecules and inhibit translation. We are developing stochastic models for micro-RNA mediated negative feedback loops.
Theoretical & Physical Biology Group
Collective cell motility and tissue formation during development
Animal development is a fascinating, complex process that involves a detailed genetic plan and the recruitment of a myriad of molecules for signaling. At an intermediate level, many cells interact through mechano-chemical processes that ultimately give rise to remarkable patterns at the tissue level. The motion of cell collectives plays a central role in tissue formation. In this context, the 'epithelial-to-mesenchymal transition' (EMT) is an essential process by which non-migratory epithelial cells become motile (mesenchymal). This process (and the reverse process, MET) helps sculpt tissues by locally 'fluidizing' them.
Previously we showed that EMT represents an order-to-disorder transition (i.e., correlated to random cell velocities), maintaining body-axis symmetry during vertebrate tail formation. EMT may also represent a transition from 'solid-like' to 'fluid-like' behavior in tissue. In general, we are interested to know how changes in cellular properties (such as cell-cell adhesion, cortical tension, etc.) lead to such transitions at a tissue level by developing computational models of tissues.
We are also interested to understand how cells integrate multiple guidance cues during migration. As a model system, we are currently studying the chemotactic cell migration in a fruit-fly egg chamber, collaborating with developmental biologists.
Main papers on this topic
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Fibronectin is a smart adhesive that both influences and responds to the mechanics of early spinal column development, E Guillon, D Das, D Jülich, AR Hassan, H Geller, S Holley, Elife 9, 2020.
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Organization of embryonic morphogenesis via mechanical information, D Das, D Jülich, J Schwendinger-Schreck et. al., Developmental cell 49, 2019.
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Patterned disordered cell motion ensures vertebral column symmetry, D Das, V Chatti, T Emonet, SA Holley, Developmental cell 42, 2017.