User:Ahmad A. Mannan
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BIOMATHS JOURNAL CLUB
We put together a journal club for sharing and discussing papers and problems (theory) of mathematical modelling of biological systems (both stochastically and deterministically).
NEXT GATHERING
- Date: THURSDAY 11TH FEBRUARY
- Time: 3-4PM
- Venue: HUXLEY 747
COMPILATION OF PAPERS TO READ
- DONE - Noise in Gene Expression is Coupled to Growth Rate[1]
- Division in Escherichia coli is triggered by a size-sensing rather than a timing mechanism[2]
- Slow Protein Fluctuations Explain the Emergence of Growth Phenotypes and Persistence in Clonal Bacterial Populations [3]
- Stress‐response balance drives the evolution of a network module and its host genome [4]
- Emergent genetic oscillations in a synthetic microbial consortium [5]
- Evolutionary consequences of drug resistance: shared principles across diverse targets and organisms [6]
- A noisy linear map underlies oscillations in cell size and gene expression in bacteria [7]
- Replication of DNA in bacteria with heterogeneous generation times [8]
- Duplication of the bacterial cell and its initiation [9]
- Dilution of the cell cycle inhibitor Whi5 controls budding-yeast cell size [10]
- A growth‐rate composition formula for the growth of E. coli on co‐utilized carbon substrates [11]
- Macromolecular Crowding as a Regulator of Gene Transcription [12]
- Cell Size and the Initiation of DNA Replication in Bacteria [13]
- How fast-growing bacteria robustly tune their ribosome concentration to approximate growth-rate maximisation [14]
- Optimization of lag time underlies antibiotic tolerance in evolved bacterial populations [15]
- Does evolutionary theory need a rethink? [16]
- A cross-chiral RNA polymerase ribozyme [17]
- Cell cycle: It takes three to find the exit [18]
- Loss of growth homeostasis by genetic decoupling of cell division from biomass growth: implication for size control mechanisms [19]
- Causal signals between codon bias, mRNA structure, and the efficiency of translation and elongation [20]
- Cell dynamics and gene expression control in tissue homeostasis and development [21]
- Conditional density-based analysis of T cell signaling in single-cell data [23]
- Evolution of context dependent regulation by expansion of feast/famine regulatory proteins [24]
- Carbon source-dependent expansion of the genetic code in bacteria [25]
- Reducing the genetic code induces massive rearrangement of the proteome [26]
- Conserved codon composition of ribosomal protein coding genes inEscherichia coli, Mycobacterium tuberculosis and Saccharomyces cerevisiae: lessons from supervised machine learning in functional genomics [27]
CONTACT INFORMATION
Please feel free to e-mail me if you would like to suggest another paper to discuss at the group:
- Email me through OpenWetWare
- Visit the home page of our Lab from THIS link.
Publications
Useful Links
- Introductory tutorial
- OpenWetWare help pages
- Link to the tutorial on adjusting images in Wikis.
- Link to download the Wiki construction 'Cheat-Sheet' from my Dropbox. It details the simple commands needed to construct your Wiki pages.
- Further advanced level of editing Cheat-Sheets can be found HERE.
- Beware of copyright issues and fact that figures uploaded will fall under the Creative Commons license. Please see the following link.
