Search Results - "Padinhateeri, Ranjith"

α-Synuclein aggregation nucleates through liquid–liquid phase separation by Ray, Soumik, Singh, Nitu, Kumar, Rakesh, Patel, Komal, Pandey, Satyaprakash, Datta, Debalina, Mahato, Jaladhar, Panigrahi, Rajlaxmi, Navalkar, Ambuja, Mehra, Surabhi, Gadhe, Laxmikant, Chatterjee, Debdeep, Sawner, Ajay Singh, Maiti, Siddhartha, Bhatia, Sandhya, Gerez, Juan Atilio, Chowdhury, Arindam, Kumar, Ashutosh, Padinhateeri, Ranjith, Riek, Roland, Krishnamoorthy, G., Maji, Samir K.

“…α-Synuclein (α-Syn) aggregation and amyloid formation is directly linked with Parkinson’s disease pathogenesis. However, the early events involved in this…”
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Role of diffusion and reaction of the constituents in spreading of histone modification marks by Manivannan, Vinoth, Inamdar, Mandar M, Padinhateeri, Ranjith

“…Cells switch genes ON or OFF by altering the state of chromatin via histone modifications at specific regulatory locations along the chromatin polymer. These…”
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High fidelity epigenetic inheritance: Information theoretic model predicts threshold filling of histone modifications post replication by Ramakrishnan, Nithya, Pillai, Sibi Raj B, Padinhateeri, Ranjith

“…During cell devision, maintaining the epigenetic information encoded in histone modification patterns is crucial for survival and identity of cells. The…”
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Role of non-specific interactions in the phase-separation and maturation of macromolecules by Krishnan, Rakesh, Ranganathan, Srivastav, Maji, Samir K, Padinhateeri, Ranjith

“…Phase separation of biomolecules could be mediated by both specific and non-specific interactions. How the interplay between non-specific and specific…”
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Predicting scale-dependent chromatin polymer properties from systematic coarse-graining by Kadam, Sangram, Kumari, Kiran, Manivannan, Vinoth, Dutta, Shuvadip, Mitra, Mithun K., Padinhateeri, Ranjith

“…Simulating chromatin is crucial for predicting genome organization and dynamics. Although coarse-grained bead-spring polymer models are commonly used to…”
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Intermolecular interactions underlie protein/peptide phase separation irrespective of sequence and structure at crowded milieu by Poudyal, Manisha, Patel, Komal, Gadhe, Laxmikant, Sawner, Ajay Singh, Kadu, Pradeep, Datta, Debalina, Mukherjee, Semanti, Ray, Soumik, Navalkar, Ambuja, Maiti, Siddhartha, Chatterjee, Debdeep, Devi, Jyoti, Bera, Riya, Gahlot, Nitisha, Joseph, Jennifer, Padinhateeri, Ranjith, Maji, Samir K.

“…Liquid-liquid phase separation (LLPS) has emerged as a crucial biological phenomenon underlying the sequestration of macromolecules (such as proteins and…”
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Role of nucleosome positioning in 3D chromatin organization and loop formation by Kharerin, Hungyo, Bhat, Paike J, Padinhateeri, Ranjith

“…We present a physics-based polymer model that can investigate 3D organization of chromatin accounting for DNA elasticity, DNA-bending due to nucleosomes, and…”
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Collective force generated by multiple biofilaments can exceed the sum of forces due to individual ones by Das, Dipjyoti, Das, Dibyendu, Padinhateeri, Ranjith

“…Collective dynamics and force generation by cytoskeletal filaments are crucial in many cellular processes. Investigating growth dynamics of a bundle of N…”
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Force-induced dynamical properties of multiple cytoskeletal filaments are distinct from that of single filaments by Das, Dipjyoti, Das, Dibyendu, Padinhateeri, Ranjith

“…How cytoskeletal filaments collectively undergo growth and shrinkage is an intriguing question. Collective properties of multiple bio-filaments (actin or…”
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Nucleosome positioning in a model of active chromatin remodeling enzymes by Padinhateeri, Ranjith, Marko, John F

“…Accounting for enzyme-mediated active sliding, disassembly, and sequence-dependent positioning of nucleosomes, we simulate nucleosome occupancy over…”
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Investigating the Intrinsic Aggregation Potential of Evolutionarily Conserved Segments in p53 by Ghosh, Saikat, Ghosh, Dhiman, Ranganathan, Srivastav, Anoop, A, P, Santosh Kumar, Jha, Narendra Nath, Padinhateeri, Ranjith, Maji, Samir K

“…Protein aggregation and amyloid formation are known to play a role both in diseases and in biological functions. Transcription factor p53 plays a major role in…”
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Statistical mechanics provides novel insights into microtubule stability and mechanism of shrinkage by Jain, Ishutesh, Inamdar, Mandar M, Padinhateeri, Ranjith

“…Microtubules are nano-machines that grow and shrink stochastically, making use of the coupling between chemical kinetics and mechanics of its constituent…”
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A minimal conformational switching-dependent model for amyloid self-assembly by Ranganathan, Srivastav, Ghosh, Dhiman, Maji, Samir K, Padinhateeri, Ranjith

“…Amyloid formation is associated with various pathophysiological conditions like Alzheimer’s and Parkinson’s diseases as well as many useful functions. The…”
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Role of ATP-Hydrolysis in the Dynamics of a Single Actin Filament by Ranjith, Padinhateeri, Mallick, Kirone, Joanny, Jean-François, Lacoste, David

“…We study the stochastic dynamics of growth and shrinkage of single actin filaments taking into account insertion, removal, and ATP hydrolysis of subunits…”
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Probing cellular mechanoadaptation using cell-substrate de-adhesion dynamics: experiments and model by S S, Soumya, Sthanam, Lakshmi Kavitha, Padinhateeri, Ranjith, Inamdar, Mandar M, Sen, Shamik

“…Physical properties of the extracellular matrix (ECM) are known to regulate cellular processes ranging from spreading to differentiation, with alterations in…”
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Nucleosome hopping and sliding kinetics determined from dynamics of single chromatin fibers in Xenopus egg extracts by Ranjith, Padinhateeri, Yan, Jie, Marko, John F

“…Chromatin function in vivo is intimately connected with changes in its structure: a prime example is occlusion or exposure of regulatory sequences via…”
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Binding of DNA-bending non-histone proteins destabilizes regular 30-nm chromatin structure by Bajpai, Gaurav, Jain, Ishutesh, Inamdar, Mandar M, Das, Dibyendu, Padinhateeri, Ranjith

“…Why most of the in vivo experiments do not find the 30-nm chromatin fiber, well studied in vitro, is a puzzle. Two basic physical inputs that are crucial for…”
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Dynamic control of gene expression: How lncRNAs shape transcriptional condensates by Kadam, Sangram, Padinhateeri, Ranjith

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Irregular Chromatin: Packing Density, Fiber Width, and Occurrence of Heterogeneous Clusters by Bajpai, Gaurav, Padinhateeri, Ranjith

“…How chromatin is folded on the length scale of a gene is an open question. Recent experiments have suggested that, in vivo, chromatin is folded in an irregular…”
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Molecular interpretation of ACTH-β-endorphin coaggregation: relevance to secretory granule biogenesis by Ranganathan, Srivastav, Singh, Pradeep K, Singh, Uday, Singru, Praful S, Padinhateeri, Ranjith, Maji, Samir K

“…Peptide/protein hormones could be stored as non-toxic amyloid-like structures in pituitary secretory granules. ACTH and β-endorphin are two of the important…”
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