A group for scientists interested in quantitative descriptions of gene regulation in pro- and eukaryotes (equilibrium and non-equilibrium protein binding, chromatin rearrangements, covalent modifications, input-output cis-regulatory functions, etc) using approaches of biophysics, molecular and cell biology, bioinformatics, systems biology and synthetic biology.

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• Heba Ebeed

  RNA

  Is there anyone can tell me how can I purify the RNA from DNA by using DNase free RNA for RT_PCR?

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    Gabriela Novak replied

    One more thing, if you don't want to do DNase digestion, you can just design all primers for PCR to go across introns, so that genomic DNA does not get amplified during PCR. However, any genomic DNAOne more thing, if you don't want to do DNase digestion, you can just design all primers for PCR to go across introns, so that genomic DNA does not get amplified during PCR. However, any genomic DNA will also add to your OD of the sample, so you can't standardize your results to the starting amount of total RNA. There are other considerations as well, so if you can, I would recommend DNase treatment.

    Jun 25, 2011
• Heba Ebeed

  PCR

  i want to know how can i perform semi-quantitative PCR as we have no real time PCR in our faculty? and how can i perform the measure for different number of cycles "spectrophotometrically or byi want to know how can i perform semi-quantitative PCR as we have no real time PCR in our faculty? and how can i perform the measure for different number of cycles "spectrophotometrically or by scanning the gel photo and using software"? can anyone help me

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    Gabriela Novak replied

    I used to do exactly that. With the protocol I used you don't need a real-time cycler, just a regular PCR cycler. The protocol is in my paper: http://www.ncbi.nlm.nih.gov/pubmed/11042361 If youI used to do exactly that. With the protocol I used you don't need a real-time cycler, just a regular PCR cycler. The protocol is in my paper: http://www.ncbi.nlm.nih.gov/pubmed/11042361 If you don't have access, email me and I will send it to you.

    Jun 21, 2011
• nur irfan satya adi

  lupus...

  hi..i am a new member of this group, and i want to ask something, about SLE (sistemic lupus erithremosus) is the disease related with some gene.....??, i need clear explanation....

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    Nicole Forster replied

    Hi, I am not so familiar with the medical health part of that disease more with the biological part, but I think people would need to take immunsuppressive medicine all over the entire life since theHi, I am not so familiar with the medical health part of that disease more with the biological part, but I think people would need to take immunsuppressive medicine all over the entire life since the molecular background behind that disease (e.g. mutations) can not get reverted to original stage (healthy stage). The mutation can not get cured.

    Jun 17, 2011

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    Gabriela Novak replied

    Thanks, that is very helpful.

    Mar 30, 2011
• Graeme Smith

  To Logic, or not to Logic that is the question

  Often we label decision systems, that do validity testing logic, when they don't work at all like logic. Are Quantitative Gene Regulation Mechanisms really a form of Logic?

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    Graeme Smith replied

    Thankyou, the paper was very informative. If I understand this properly we have a Non-Mu Trinary logic. Non-Mu because the intermediate position still activates the toggle, but in a much weakerThankyou, the paper was very informative. If I understand this properly we have a Non-Mu Trinary logic. Non-Mu because the intermediate position still activates the toggle, but in a much weaker form. An interesting question would be frequency of state, Does the toggle stay in the intermediate state more often than the two extremes? I am afraid I don't really understand the phase diagram and so can't see this determination in your work. What it sounds like here, is more a State Machine than a logic, but the output can seem logical. If it is a state machine, then other regulatory mechanisms might show a larger number of states, and only the head to head or equivalent GRF's would show the trinary characteristics. If the GRF for head to head regulatory mechanisms stays in the intermediate state more, it could be simulated with a self-centering double throw toggle. If not the simulation would need to be with a spring loaded toggle where it stays in an extreme lysis? and if centered does a low and if pushed to extreme a high output value.

    Mar 16, 2011
• Paolo Manzelli

  NO FUTURE WITH MECHANIC-SCIENCE

  The transition between the old industria lsociety to the renevate knowledge society is the main nterest of EGOCREANET science&development association founded by Paolo Manzelli in 1997 in Italy.
• Nirmala Subramanian

  HPV expression

  I would like to join this group and have discussions on gene expression and its regulation. My research topic is computational virology, so I would get doubts clarified and join discussion on theI would like to join this group and have discussions on gene expression and its regulation. My research topic is computational virology, so I would get doubts clarified and join discussion on the possibly

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    Nirmala Subramanian replied

    tanq sir, I will try them.

    Feb 28, 2011