5 citations · 15 across the 5 of their papers we have counts for
6 papers
First-passage processes on a filamentous track in a dense traffic: optimizing diffusive search for a target in crowding conditions
Soumendu Ghosh, Bhavya Mishra, Anatoly B. Kolomeisky +1
Several important biological processes are initiated by the binding of a protein to a specific site on the DNA. The strategy adopted by a protein, called transcription factor (TF),…
A Biologically Motivated Asymmetric Exclusion Process: interplay of congestion in RNA polymerase traffic and slippage of nascent transcript
Soumendu Ghosh, Annwesha Dutta, Shubhadeep Patra +3
We develope a theoretical framework, based on exclusion process, that is motivated by a biological phenomenon called transcript slippage (TS). In this model a discrete lattice repr…
A biologically inspired two-species exclusion model: effects of RNA polymerase motor traffic on simultaneous DNA replication
Soumendu Ghosh, Bhavya Mishra, Shubhadeep Patra +2
We introduce a two-species exclusion model to describe the key features of the conflict between the RNA polymerase (RNAP) motor traffic, engaged in the transcription of a segment o…
First Passage Time in Computation by Tape-Copying Turing Machines: Slippage of Nascent Tape
Soumendu Ghosh, Shubhadeep Patra, Debashish Chowdhury
Transcription of the genetic message encoded chemically in the sequence of the DNA template is carried out by a molecular machine called RNA polymerase (RNAP). Backward or forward…
A Multispecies Exclusion Model Inspired By Transcriptional Interference
Soumendu Ghosh, Tripti Bameta, Dipanwita Ghanti +1
We introduce exclusion models of two distinguishable species of hard rods with their distinct sites of entry and exit under open boundary conditions. In the first model both specie…
Mixed molecular motor traffic on nucleic acid tracks: models of transcriptional interference and regulation of gene expression
Tripti Bameta, Debashish Chowdhury, Dipanwita Ghanti +1
RNA polymerase (RNAP) is molecular machine that polymerizes a RNA molecule, a linear heteropolymer, using a single stranded DNA (ssDNA) as the corresponding template; the sequence…