Transflooder: Difference between revisions

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There are several levels here. <br>
There are several levels here. <br>
Ordered in terms of system throughput:
 
== Ordered in terms of system throughput ==
 
* Red: Chip integrated mirofluidics … this needs a dedicated chip fab facility
* Red: Chip integrated mirofluidics … this needs a dedicated chip fab facility
* Orange: (DLP resin) 3D printed integrated mirofluidics (hardcoded dense microfluidic functionality in 3D but produceable locally)
* Orange: (DLP resin) 3D printed integrated mirofluidics (hardcoded dense microfluidic functionality in 3D but produceable locally)
Line 12: Line 14:
* Green: Pipetting (and on chip electrostatic droplet manipulation)
* Green: Pipetting (and on chip electrostatic droplet manipulation)
* Blue: (FFF/SLS) 3D printed (or conventionally machined) high througput fluidics
* Blue: (FFF/SLS) 3D printed (or conventionally machined) high througput fluidics
== Ordered in terms of system complexity ==
Same order except blue ends up in the center between yellow and orange. <br>
Crudely FFF or SLS printed microfluidics can pack complexity (meant per volume) somewhere between these two spots. <br>
Thus the resulting systems would not be ginormous in size (also hurting throughput, beside the natural throughput ranking for simple processings). <br>
{{wikitodo|Was there more thinking to this?}} <br>
== Use cases ==
Beside [[one-pot-chemisty]] (particulatly [[one-pot self-assembly]]) <br>
more complex process with iterative introduction and wash out steps may be enabled. <br>
See: [[Iterative self-assembly]] <br>
Temporary attachment to surfaces is one critical tool for these kinds of synthesis processes (aka assays). <br>
Big columns are often used to get enough surface area and yield. <br>
Here the focus is mostly analytics an nano-quantities so tings can be smaller. <br>
Still getting large surface area might remain a challenge. <br>
=== E.g. termination control for peptides/proteins ===
Maybe interesting things to try and explore include <br>
various approached to [[termination control]] for [[de-novo protein]]s:
* [[circumsembly]] evading exponential drop-off in yield but still extending on a chain with a small set of next-up interfaces, <br>evading the [[specificity]] vs [[activity]] [[small orthogonal binding interface matrix dilemma]]
* [[squigglesembly]] terminaltion contrilled 2D (and perhaps 3D) structures by assemblying squiggly 1D shapes
* [[algorithmic self assembly]] extended to the peptide/protein space
== Analytics (why factored out) ==
Quite some analytics are factored out as there are specialized existing monolithic devices for these. <br>
Transfer to these can be a bottleneck. <br>
Increasingly hard to integrate (no claim on completeness):
* SPM microscopy
* Confocal microscopy
* Cryo EM
=== Cryo EM side-notes ===
Some are big expensive and nontrivially to operate.
E.g. for cryso TEM ome beeds access too a modern high res TEM worh well >1M$ (2026).
There devices are researc institutions sometimes time on these can be rented.
There is also very much manual non automated prep needed in shock freezing and inserting samples.
As has been done extensivels for [[structural DNA nanotechnology]].
Stained for crude pictures of individual results.
Unstained more for averages over ensembles by comuting many imaging results to real space.
Good learning resources here: <br>
[https://www.youtube.com/playlist?list=PLWMNFDH3c9erKEYA3ycN1dVWeDPICNr3n Leave to youtube playlist: Cryo-EM_ Grant Jensen]


== Delineation ==
== Delineation ==
Line 27: Line 76:
* mostly motivated by helping along <br>[[incremental path]] - [[bootstrapping]] - [[pathways]]
* mostly motivated by helping along <br>[[incremental path]] - [[bootstrapping]] - [[pathways]]


If anything a "chemputer" would likely be closest to (or could interface with) the (blue marked) high throughput fluidics.
If anything a "chemputer" would likely be closest to (or could interface with) the (blue marked) high throughput fluidics. <br>
This matches the in dashed box indicated "foldamer pre-synthesis in high quantity"


== Related ==
== Related ==
Line 33: Line 83:
* [[Microfluidics]]
* [[Microfluidics]]
* [[Automated research]]
* [[Automated research]]
----
* [[Incremental path]] & [[Mixed path]]
----
* [[Termination control]]
* [[Specificity]] & [[Activity]]
== External links ==
* [https://en.wikipedia.org/wiki/Assay Assay] & [https://en.wikipedia.org/wiki/Analytical_chemistry Analytical chemistry]
* [https://en.wikipedia.org/wiki/Microfluidics Microfluidics]
* [https://en.wikipedia.org/wiki/Automated_synthesis Automated synthesis]
* [https://en.wikipedia.org/wiki/Leroy_Cronin Leroy Cronin], the guy proposing the here tangentially related [[chemputer]].
----
When taken the wrong way this "transflooder" concept seems uncomfortably close to [https://en.wikipedia.org/wiki/Theranos Theranos].

Latest revision as of 16:43, 15 August 2026

This article defines a novel term (that is hopefully sensibly chosen). The term is introduced to make a concept more concrete and understand its interrelationship with other topics related to atomically precise manufacturing. For details go to the page: Neologism.
"Transflooder" concept. "Flooderboard" in analogy to "Motherboard".

The idea here is sort of a microfluidic analog to a general purpose electronic computer. Easily re-programmable to do vastly different tasks.

There are several levels here.

Ordered in terms of system throughput

  • Red: Chip integrated mirofluidics … this needs a dedicated chip fab facility
  • Orange: (DLP resin) 3D printed integrated mirofluidics (hardcoded dense microfluidic functionality in 3D but produceable locally)
  • Yellow: (DLP resin) 3D printed composable "LEGO" (small cubes with ports and certain functions)
  • Green: Pipetting (and on chip electrostatic droplet manipulation)
  • Blue: (FFF/SLS) 3D printed (or conventionally machined) high througput fluidics

Ordered in terms of system complexity

Same order except blue ends up in the center between yellow and orange.
Crudely FFF or SLS printed microfluidics can pack complexity (meant per volume) somewhere between these two spots.
Thus the resulting systems would not be ginormous in size (also hurting throughput, beside the natural throughput ranking for simple processings).
(wiki-TODO: Was there more thinking to this?)

Use cases

Beside one-pot-chemisty (particulatly one-pot self-assembly)
more complex process with iterative introduction and wash out steps may be enabled.
See: Iterative self-assembly
Temporary attachment to surfaces is one critical tool for these kinds of synthesis processes (aka assays).
Big columns are often used to get enough surface area and yield.
Here the focus is mostly analytics an nano-quantities so tings can be smaller.
Still getting large surface area might remain a challenge.

E.g. termination control for peptides/proteins

Maybe interesting things to try and explore include
various approached to termination control for de-novo proteins:

Analytics (why factored out)

Quite some analytics are factored out as there are specialized existing monolithic devices for these.
Transfer to these can be a bottleneck.
Increasingly hard to integrate (no claim on completeness):

  • SPM microscopy
  • Confocal microscopy
  • Cryo EM

Cryo EM side-notes

Some are big expensive and nontrivially to operate. E.g. for cryso TEM ome beeds access too a modern high res TEM worh well >1M$ (2026). There devices are researc institutions sometimes time on these can be rented. There is also very much manual non automated prep needed in shock freezing and inserting samples. As has been done extensivels for structural DNA nanotechnology. Stained for crude pictures of individual results. Unstained more for averages over ensembles by comuting many imaging results to real space.

Good learning resources here:
Leave to youtube playlist: Cryo-EM_ Grant Jensen

Delineation

There is the concept of a "chemputer" advertised by Leroy Cronin.

  • attacking the reproducability crisis in chemistry
  • partly motivated by researching the origin of life
  • focus on more broad and general chemistry
  • focus on a bit bigger quantities
  • (wiki-TODO: Check these assumptions more thoroughly.)

This here is likely a bit different with a specific focus on:

  • foldamers for nanosystems as quite narrow subspace of chemistry (rather than more general chemistry)
  • very low quantities mostly for research and analysis,
    in the context of a mixed path extremely low product quantities might be sufficient),
    the grey part in the graphic leads from low throughput research results to high throughput high quantity product though
    if that is a desiderata for sellable side products.
  • mostly motivated by helping along
    incremental path - bootstrapping - pathways

If anything a "chemputer" would likely be closest to (or could interface with) the (blue marked) high throughput fluidics.
This matches the in dashed box indicated "foldamer pre-synthesis in high quantity"

Related



External links


When taken the wrong way this "transflooder" concept seems uncomfortably close to Theranos.