User:Ahmad A. Mannan
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IMPERIAL 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 28th APRIL
- Time: 3-4PM
- Venue: HUXLEY 747
COMPILATION OF PAPERS TO READ
- [X] - Noise in Gene Expression is Coupled to Growth Rate[1]
- [X] - Division in Escherichia coli is triggered by a size-sensing rather than a timing mechanism[2]
- [X] - The quantitative and condition-dependent Escherichia coli proteome[3]
- [X] - Learning (from) the errors of a systems biology model[4]
- [X] - Dynamics of Epigenetic Regulation at the Single-Cell Level[5]
- [X] - Emergent genetic oscillations in a synthetic microbial consortium [6]
- [X] - Cell-Size Control and Homeostasis in Bacteria [7]
- [X] - Exploiting Nongenetic Cell-to-Cell Variation for Enhanced Biosynthesis [8] - Paper of the lab of | Dr Fuzhong Zhang
- Measurement of gene regulation in individual cells reveals rapid switching between promoter states[9]
- Slow Protein Fluctuations Explain the Emergence of Growth Phenotypes and Persistence in Clonal Bacterial Populations [10]
- Stress‐response balance drives the evolution of a network module and its host genome [11]
- Evolutionary consequences of drug resistance: shared principles across diverse targets and organisms [12]
- A noisy linear map underlies oscillations in cell size and gene expression in bacteria [13]
- Replication of DNA in bacteria with heterogeneous generation times [14]
- Duplication of the bacterial cell and its initiation [15]
- Dilution of the cell cycle inhibitor Whi5 controls budding-yeast cell size [16]
- A growth‐rate composition formula for the growth of E. coli on co‐utilized carbon substrates [17]
- Macromolecular Crowding as a Regulator of Gene Transcription [18]
- Cell Size and the Initiation of DNA Replication in Bacteria [19]
- How fast-growing bacteria robustly tune their ribosome concentration to approximate growth-rate maximisation [20]
- Optimization of lag time underlies antibiotic tolerance in evolved bacterial populations [21]
- Does evolutionary theory need a rethink? [22]
- A cross-chiral RNA polymerase ribozyme [23]
- Cell cycle: It takes three to find the exit [24]
- Loss of growth homeostasis by genetic decoupling of cell division from biomass growth: implication for size control mechanisms [25]
- Causal signals between codon bias, mRNA structure, and the efficiency of translation and elongation [26]
- Cell dynamics and gene expression control in tissue homeostasis and development [27]
- Conditional density-based analysis of T cell signaling in single-cell data [29]
- Evolution of context dependent regulation by expansion of feast/famine regulatory proteins [30]
- Carbon source-dependent expansion of the genetic code in bacteria [31]
- Reducing the genetic code induces massive rearrangement of the proteome [32]
- Conserved codon composition of ribosomal protein coding genes inEscherichia coli, Mycobacterium tuberculosis and Saccharomyces cerevisiae: lessons from supervised machine learning in functional genomics [33]
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.
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.
