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
- Division in Escherichia coli is triggered by a size-sensing rather than a timing mechanism[1]
- Slow Protein Fluctuations Explain the Emergence of Growth Phenotypes and Persistence in Clonal Bacterial Populations [2]
- Stress‐response balance drives the evolution of a network module and its host genome [3]
- Emergent genetic oscillations in a synthetic microbial consortium [4]
- Evolutionary consequences of drug resistance: shared principles across diverse targets and organisms [5]
- A noisy linear map underlies oscillations in cell size and gene expression in bacteria [6]
- Replication of DNA in bacteria with heterogeneous generation times [7]
- Duplication of the bacterial cell and its initiation [8]
- Dilution of the cell cycle inhibitor Whi5 controls budding-yeast cell size [9]
- A growth‐rate composition formula for the growth of E. coli on co‐utilized carbon substrates [10]
- Macromolecular Crowding as a Regulator of Gene Transcription [11]
- Cell Size and the Initiation of DNA Replication in Bacteria [12]
- How fast-growing bacteria robustly tune their ribosome concentration to approximate growth-rate maximisation [13]
- Optimization of lag time underlies antibiotic tolerance in evolved bacterial populations [14]
- Does evolutionary theory need a rethink? [15]
- A cross-chiral RNA polymerase ribozyme [16]
- Cell cycle: It takes three to find the exit [17]
- Loss of growth homeostasis by genetic decoupling of cell division from biomass growth: implication for size control mechanisms [18]
- Causal signals between codon bias, mRNA structure, and the efficiency of translation and elongation [19]
- Cell dynamics and gene expression control in tissue homeostasis and development [20]
- Quantitative evolutionary dynamics using high-resolution lineage tracking [21]
with comment HERE
- Conditional density-based analysis of T cell signaling in single-cell data [22]
- Evolution of context dependent regulation by expansion of feast/famine regulatory proteins [23]
- Carbon source-dependent expansion of the genetic code in bacteria [24]
- Reducing the genetic code induces massive rearrangement of the proteome [25]
- Conserved codon composition of ribosomal protein coding genes inEscherichia coli, Mycobacterium tuberculosis and Saccharomyces cerevisiae: lessons from supervised machine learning in functional genomics [26]
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
- Soma Y, Tsuruno K, Wada M, Yokota A, and Hanai T. Metabolic flux redirection from a central metabolic pathway toward a synthetic pathway using a metabolic toggle switch. Metab Eng. 2014 May;23:175-84. DOI:10.1016/j.ymben.2014.02.008 |
Really interesting paper!
- ISBN:9783527318742
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.
