Systems - Science topic

Thanks!

An electrogenetic interface to program mammalian gene expression by direct current

Jinbo Huang, Shuai Xue , Peter Buchmann, Ana Palma Teixeira & Martin Fussenegger 

Nature Metabolism (2023)

https://www.researchgate.net/publication/372785410_An_electrogenetic_interface_to_program_mammalian_gene_expression_by_direct_current

DOI: 10.1038/s42255-023-00850-7

###

Abstract:

Wearable electronic devices are playing a rapidly expanding role in the acquisition of individuals’ health data for personalized medical interventions; however, wearables cannot yet directly program gene-based therapies because of the lack of a direct electrogenetic interface. Here we provide the missing link by developing an electrogenetic interface that we call direct current (DC)-actuated regulation technology (DART), which enables electrode-mediated, time- and voltage-dependent transgene expression in human cells using DC from batteries. DART utilizes a DC supply to generate non-toxic levels of reactive oxygen species that act via a biosensor to reversibly fine-tune synthetic promoters. In a proof-of-concept study in a type 1 diabetic male mouse model, a once-daily transdermal stimulation of subcutaneously implanted microencapsulated engineered human cells by energized acupuncture needles (4.5 V DC for 10 s) stimulated insulin release and restored normoglycemia. We believe this technology will enable wearable electronic devices to directly program metabolic interventions.

###

Links between electricity and biology are gradually revealing the true nature of functioning of cells, single cell organisms, plants, and animals.

Dear Mr. Wijngaarden!

I found an article you might see as of value for your work:

Hrusto, A., Runeson, P. & Engström, E. Closing the Feedback Loop in DevOps Through Autonomous Monitors in Operations. SN COMPUT. SCI. 2, 447 (2021). https://doi.org/10.1007/s42979-021-00826-y, Open access:

An additional source of information might be the following article:

Oxfam GB (2022). HOW TO OPERATIONALISE ‘CLOSING THE FEEDBACK LOOP’: WHERE IS THE SOLUTION? Free access: https://www.elrha.org/project-blog/operationalise-closing-feedback-loop-isthe-solution/

Yours sincerely, Bulcsu Szekely

You can look at these pages.

The focus in more on computation than just representation, though.

Quality Management in Industries ( ISO ) - https://www.googleadservices.com/pagead/aclk?sa=L&ai=DChcSEwjJxrf035nxAhVKBCsKHUbCBSAYABAAGgJzZg&ae=2&ohost=www.google.com&cid=CAESQeD2bkvWs1tzq2MX4R_lIfKMOrMuEcZqaO7z0j4okR55VQjdipFtkGt_O19WG2apF0q6fM8aVHKWDLSItOmM8-Tm&sig=AOD64_0dgWFMIa89-C_69kSmupB6csjbJg&q&nis=1&adurl&ved=2ahUKEwjZrq3035nxAhWDwTgGHTskDYAQ0Qx6BAgCEAE

Inevitably. A more interesting question is to do what? And why?

A follow-up comment: looking at the family of cellular IoT (EC-GSM-IoT, LTE-M and NB-IoT), NB-IoT provides the biggest deployment flexibility. Note that EC-GSM-IoT was designed to reuse GSM infrastructure and frequency channels (200kHz bandwidth); around 300-400kbps data rates are possible, but the activity around it in the industry and academia is rather limited, to my best knowledge. On the other hand, LTE-M is to be deployed in-band with LTE, uses wider bandwidth (6 PRB) and provides higher data rates (ideally up to 1Mbps). Finally, NB-IoT is the slowest (data rates no more than ~200kbps), but it only needs 1PRB (180kHz) to operate, meaning that one can either reuse a GSM carrier for it (still preserving 10kHz guardbands), place it in-band with LTE or even allocate NB-IoT within the LTE guardband.

I think the following book is the great source of knowledge:

Olof Liberg et al. "Cellular Internet of Things: Technologies, Standards, and Performance".

I agree. This matter may be considered in the broader context of Control Room based Network or System supervision. This applies to transport networks (Deutsche Bahn as a main railway operator in Europe supervises rails and trains) in electricity (production or electricity transport or distribution operators on their infrastructure), telecom (AT&T supervises its networks and services).

In all these cases you have:

-service layer

-asset layer (assets using infrastructure underneath)

-infrastructure layer

-physical system assets composing the infrastructure.

For each layer you have parameters monitored and alarms.

If you want to go deeper look for ETSI-ISG-NFV, this is about network function virtualisation, and going back and forth from real systems to logical representations

Dear Manoj,

Even if you consider the parameters of a robot/mechanical system as constant, if you work on trajectory tracking problems, the error dynamics of the system can easily become time-varying. See for example for the trajectory tracking control of a biped robot:

I recommend this paper

Following

Consider A=(1,0;1,0)A=(1,0;1,0) and b=(1;1)b=(1;1). Let xx be any solution of this, so x=(1;t)x=(1;t) for some tt.

Now, perturbe this to (1,0;1−1/n,1/n2)(1,0;1−1/n,1/n2) and bb unchanged, so pertruebed by 00 (but one could also impose some nontrivial perturbation). The perturbation(s) tends to zero. But the (only) solution is (1;n)(1;n). Thus xnxn does not converge, and one seees that the xnxn and the inverse (in this case it is actually invertible, but one could expand the system to avoid this) of the perturbed system are not bounded.

If I would be "simple", since your refer a need to model "innformatics sytèms", I would suggest to you to consider the set of "languages" that are being standerdized by the Object Management Group (https://www.omg.org/). There you will find "solutions" such as UML, BPML/N...

Nevertheless, keep in mind that currently, these solutions are mostly applied by IT people.

And fare less in the business or in the area of technical people (other than IT).

As a matter of fact, there are various languages and tools to adress yours expectations.

And I have to say also that they are more or less relevant, in terms of "acceptance" notably, depending on the context they are applied. This comes to the fact that there are different "modelling communities", each having its languages and related tools.

So, you should take this context into consideration. And being ready to apply or adapt yourself to different languages and tools, depending on the context you interact with, at some points.

One thing is "syntactically agnostic" : the "ontology" "behind" the modelling languages.

And this is the mastering or, simpler, the sense of such an ontology that allow to "translate" syntactics formalisms from each to the others.

I agree with you that independent research and study are the keys to all difficulties

The cell lines you're using aren't suspension ones, so it might be better to use lipofection approaches, which are likely to get you higher transfection efficiency (see this kit for MDA-MB lines: https://altogen.com/product/mda-mb-transfection-reagent-breast-adenocarcinoma/). I don't know how the electroporation would work, but if there isn't much literature on the topic I would test out different concentrations to find an optimal protocol.

Thanks to you all for helping out.

hello

i'm working on this topic too.

I developed with collaborators an appliance for treating onychophagia

You can read this paper.

Soon we will publish another papers about this topic with a redesigning appliance .

Best regard

Omar Marouane

I think the term autonomous was introduced (to my best knowledge, by LaSalle) in the context of nonlinear systems.

It was easier to obtain stability results for differential equations of the form

x’= f(x), where the time variable does not appear, such as

x’=-3x2+2y2

y’=2x2-y2

and more difficult to obtain stability results for differential equations of the form

x’= f(x,t), where the time variable does appear, either via some external input command, such as

x’=-3x2+2y2+sin(t)

y’=2x2-y2+cos(t)

or via some time varying system parameters, such as

x’=-3sin(t)x2+2y2

y’=2x2-ty2

Therefore, the first case is called autonomous and its behavior is well-defined and the same at any time and is not affected by any time-dependent element, either command or time-varying parameter.

Any other, such as any one of two following examples, is called nonautonomous and the time component makes its behavior to be different at diferent times.

Thank you Daljeet, most appreciated.

What is your interest and/or use of FACS bases on?

Short Circuit Ratio (SCR) < 3 and Xgrid/Rgrid ratio < 5; ▪ The SCR indicates the amount of power (Swpp) that can be accepted by the power system without affecting the power quality (V, f, harmonics, flicker) at the PoC.

Thanks, Sean,

That sounds very logical answer to me. Otherwise estrogen will binding each cell.

Best regards,

Subhash

Dear Prof. Mohamed-Mourad Lafifi, I would like to thank you for your valuble information and time.

Dear Sundararaman,

I suggest to you links and attached files in topics.

-Automation in Construction | Vol 31, Pgs 1-356, (May 2013 ...

-Presentation on The Use of automation in construction industry

https://fr.slideshare.net/.../presentation-on-the-use-of-automation-i...

- Green Technologies: Concepts, Methodologies, Tools and Applications: ...

Best regards

You can search here: https://scholar.google.pt/

You may try to use this potential, http://iopscience.iop.org/article/10.1088/0965-0393/20/3/035005/meta;jsessionid=476C897E32458B1A1956893321030A7A.c1.iopscience.cld.iop.org

And try to estimate it by running few molecular dynamics simulations

thanks for your help 

Dear Preshanthan,

you should measure the effective reaction rate r_eff as a function of the partial pressure of the reactants. For first order kinetics (fast reactions) you can calculate henry's constant H according to:

r_eff=(a×p)/((RT/k_{a, g})+(H/k_{a, l} Ha))

where a is the specific surface per volume, p is the partial pressure, k_{a, g} is the mass transfer coefficient in the gas phase, k_{a, l} is the mass transfer coefficient in the liquid phase and Ha is the Hatta-number

Best,

Sascha

Hello. thank you Roman Fiala. for me, it is clear that impedance spectroscopy is a technique with a reponse according to the frequency. as we know the nyquist reprsentation (Im z vs. Re z) can give several informations about the electochemical system such as the electrolyte resistance. the charge transfer resistance. capacity of double layer....and it can give an aidea about the reactionel proceess (charge transfer, diffusion, adsorption ....) whears the bode presentation concerns the variation of impedance module or the phase according to the frequency. but i think that bode plot used to investigate a phenomena that we can not show by nyquist diagram.

Hello Dear

The following article may be useful for you with title:

Validity and reliability of measurement instruments used in research

Thanks a lot for your answer

Yasir, I'm not sure that I understand what you are asking.

T-card was a transport ticketing system in NSW (which failed);  Western Australia uses the 'Smart Rider' system (see links).

Could you please clarify your question?

Your matrix should present an right hand system. Therefore, after choosing 2 unit vectors the 3rd one should be the cross product. If you change the sequence of the first 2 unit vectors this will change the sign of the 3rd one.

You need to provide details about solvent, quantity of solvent to be dried and surface over which the coating is given.

To complement Pete's answer, this article was published later and provides an updated approach based on geostatistics:

The IDL codes for those algorithms are provided here:

And here you can find an R package that interfaces the IDL code as well as most Landsat preprocessing steps:

Thank you very much for the reply.

@ Imen Thank you for the reply. I am working with a  "large" (up to 50'000 points) labelled dataset and do discriminative learning. At the moment I am trying out Decision trees and ensembles, but only because they are the fastest to train.

@Bekir

Thank you for the reply. It is really interesting, and good reference. However, I am more in need of a workflow that helps me on the selection of a classifier more than a classifier itself.

Regards,

Gioele

First, you have to analyze the splitting patterns and J constants in order to distinguish among the proton signals of the meta-, ortho- and para- isomers. After that, you will be able to integrate and compare the relative integration and thus knowing the proportion. 

Lieca Delhi

Lithium carbonate or magnesium carbonate are the closest matches. I think you will find the easiest to dose is magnesium oxide (MgO) which dissolves well and convert to hydrogencarbonate in water in contact with air.

Thanks

See the attached report. This applies equally well to communications receivers.

Sir, could you please clarify the question littlebit more. Not getting propely i.e which context? Failure of what material mmc or d2?

Hello..

Factors determining the fission probabilities are:

1) Fission barrier: you can determine using Liquid drop model or Sierk barrier (RFRM)

2)Level density parameter: the ration of level density at saddle to ground state deformation (af/an) can be determined by fitting the measured fission/ER cross sections.

3)Shell correction: As you are talking about excitation energy=10MeV, shell closure effect can persist if your system is shell closed. So you can apply shell correction both at level density parameter and fission barrier.

 You can run a programme like LISE++ or PACE and can play with varying these parameters and you can see how these parameters are influencing the fission cross section.

Maybe you can check out WSO2 DSS, which offers easy to use capabilities to utilise various data sources.

You don't need signal to noise ratio if you already have LOD and LOQ 

OK, Prof. Behnam Farid, thanks for you again.

If your are looking for source code

Mr. Rao,

You could pay attention to:

1. ChemPhysChem, 14, 2013, 311-314, Electrochemically controlled proton-transfer-catalyzed reactions at liquid-liquid interfaces: Nucleophilic substitution on ferrocene methanol, Peljo, P. et al.

2. Tetrahedron, 62, 2006, 9038-9042, Unexpected reactions of ferrocene acetal derived from tartaric acid with alkyllithium: competition between proton abstraction and nucleophilic attack, Zhang, W. et al.

Very interesting question and discussion.

Hi Oscar,

I think, there are several ways to do so:

The notation depends on the audience that you need to address. Can you give some details on that? If you have to talk to techies then maybe Matlab/Simulink is also an idea as those generate more technical models (also visuals...).

Cheers, Marco

This might be of help. Modelling coupled evolution of gene regulatory and metabolic networks (http://www.stats.ox.ac.uk/__data/assets/pdf_file/0018/6156/Hong_Noh_2010.pdf)

Christopher:

Models are of central importance.

Understanding the scope, type and application of different model types is also central to effective integration of different types of knowledge and truth.

Take care, be good to yourself and have fun,

Joe

Graeme and Conrad, my vision is to definitely use a VARIABLE size Payload, which makes everything very flexible. I visualize the OS maintaining a "CAM Payload HEAP" in an area of the RAM, and doing garbage collection there. Therefore, the starting address of each CAM entry could be used as the Payload address associated with that Key. So, only the keys get entered into the pbCAM and there is an associated PAYLOAD ADDRESS. Therefore, a 256b or 512b key will be able to address any RAM size out there. Of course, these have to be VIRTUAL addresses, so, the OS can do its paging and protection properly.

As far as searching for text directly using the CAM , here are some issues : 1) key sizes over 256b or so will make the pbCAM very inefficient due to the VLSI limitations. This will allow us to use FEWER banks in the CAM, which, I am afraid, might diminish the importance of the CAM. But, I will keep these comments in mind when I am designing an FPGA version . 2) Also, sooner or later, you will want the ability to match "not the exact text, but, a part of it. This will make each bank's matching circuitry very sophisticated. Not to mention SIMILARITY MATCHING. This is a total circuits nightmare !

The trick is to put more pressure on the software, and make the hardware simpler, so, you can have MORE CAM, faster. I guess, the question is : can you give me an example application we can accelerate with the CAM ? I was thinking about sorting. If the database entry size is small, you can certainly reduce the sort time from O(N.log N) to O(N).