My Zimbio
Top Stories Share

Google+ Badge

Thursday, April 15, 2010

Cat brain: A step toward the electronic equivalent

Cat brain: A step toward the electronic equivalent
Buzz this

Can’t Miss Videos of the Argus Artificial Retina In Action | Singularity Hub

Can’t Miss Videos of the Argus Artificial Retina In Action | Singularity Hub
Buzz this

A French Sidewalk Lets You Power the Streetlights With Your Feet | Fast Company

A French Sidewalk Lets You Power the Streetlights With Your Feet | Fast Company
Buzz this

Chinese Leaf car cleans air as you drive

Chinese Leaf car cleans air as you drive
Buzz this

Bioactive Nanofibers Regenerate Cartilage, Save Your Joints | Singularity Hub

Bioactive Nanofibers Regenerate Cartilage, Save Your Joints | Singularity Hub
Buzz this

Low concentrations of oxygen and nutrients slowing biodegradation of Exxon Valdez oil

Low concentrations of oxygen and nutrients slowing biodegradation of Exxon Valdez oil
Buzz this

Water-Cooled Supercomputers On the Way | LiveScience

Water-Cooled Supercomputers On the Way | LiveScience
Buzz this

Personalized medicine for cancer patients in a new technology era

Personalized medicine for cancer patients in a new technology era
Buzz this

Scientists record fruit fly brain waves - UPI.com

Scientists record fruit fly brain waves - UPI.com
Buzz this

Skin-Printer Looks Promising, Already Successful with Mice (video) | Singularity Hub

Skin-Printer Looks Promising, Already Successful with Mice (video) | Singularity Hub
Buzz this

Babies with three parents may be key to preventing genetic disorders - Times Online

Babies with three parents may be key to preventing genetic disorders - Times Online
Buzz this

Fwd: [MakerBot] Re: New Firmware



---------- Forwarded message ----------
From: Nate True <natetrue@gmail.com>
Date: Thu, Apr 15, 2010 at 8:59 PM
Subject: [MakerBot] Re: New Firmware
To: MakerBot Operators <makerbot@googlegroups.com>


I loaded the new firmware and also had issues getting up to the right
temperature.  My extruder was set to 230 but only ever got to 175, and
my platform was set to 100 but only got heated up to 75.  Rolling back
to the previous extruder firmware returns my Makerbot to working
order. Anyone have any idea why the new firmware has these issues?

On Apr 15, 3:02 pm, Lyndondr <lyndo...@gmail.com> wrote:
> Another thing I keep seeing with these pause and hang issues that on
> one tries is the R1 - 180 ohm resistor the wiki says
>
> "Optional Component: This is the termination resistor for the RS485
> comms. The motherboard is located on one end of the bus, and only one
> extruder at the end of the bus should also have a termination
> resistor. You can remove it or omit it if you have multiple extruders
> and at least one has this resistor in place. This component can be
> placed in any orientation. "
>
> The key line here is "at least one has this resistor in place". The
> link below seems to confirm my theory. If you have ever worked with
> the old coax network cables you had to have a resistor at each end for
> it to work I think this is a similar situation. If I ever have this
> issue this will be the first thing I try. One thing that does puzzle
> me is why is this problem not more wide spread.
>
> http://www.lafraze.net/nbernard/makerbot/index.html
>
> On Apr 14, 3:34 pm, Chorca <cho...@gmail.com> wrote:
>
>
>
> > Here's the full story:
>
> > Been running a MakerBot for about two weeks here.. Been making parts
> > for a mendel, and started having issues where the x/y would pause and
> > the extruder would keep extruding, resulting in blobs that ruined the
> > print. Tried everything listed in the makerbot FAQ including moving
> > the machine, turning off fluorescent lights, twisting stepper wires,
> > rewiring to keep stepper wires away from comm wires, new ethernet
> > cable for connection to extruder, removed optostop cables, tried
> > different ports, looked for solder issues, etc. Tried the newer
> > firmware that was out, found that 2.0 a1 caused axis inversion issues.
> > Moved back to 1.6 on the motherboard, and 2.0a1 on the extruder, which
> > seemed to mostly fix the problem. It would still pause occasionally,
> > but only for a second, then pick back up.
>
> > A few days ago the extruder started having issues during a print, the
> > filament was buckling in the extruder even though the nozzle was to
> > temp. Decided to rebuild the nozzle. Tore it apart, cleaned everything
> > perfectly, redid threads with a tap/die, installed new MakerGear
> > HeatCore, affixed thermistor to nozzle, installed new PEEK barrier,
> > etc. Restarted printing, worked fine. Installed a .01uf cap between
> > the motor terminals to try and lower EMI output from the motor.
>
> > Yesterday I found the new firmware was at release 0 now, Tried it,
> > axis inversion problems were fixed, but extruder now would not get up
> > to temp. Was getting up to 170 when set to 240. Went back to old 1.8
> > firmware, temps resumed normal operation. Tried to print, same
> > filament buckling issue happened again. Rebuilt extruder a second
> > time, cleaning everything. Reinstalled, and it was still having this
> > issue. After about 5 mins of testing after the second rebuild, I
> > noticed the extruder had turned the drive motor off, and the temps
> > were falling. I reset the board, rewrote the firmware, and tried it
> > again. This time, the motor only came on for about 5 seconds before
> > going off, and it seemed to reset, the way the temps began falling.
> > Tried it a third time, and it just blipped on for about 1/2sec before
> > shutting down again. Lost comm when this happened as well.
>
> > Every time though, it's able to get right up to temp with no problems.
> > Plastic oozes out of the tip, but i can't get the plastic through.
> > Extruder controller will not turn on the motor any longer. I don't
> > know what the issue might be with the controller.. not sure if an H
> > bridge is burned out, we have a bad solder joint or something else is
> > wrong. I'm going to be trying my extruder controller (techzone remix)
> > that I got for my mendel to see if that works properly. Worst case i
> > plan to mount up my Wade's extruder with the heatcore and run that
> > with the mendel extruder controller running makerbot software.
>
> > Any ideas are appreciated. I doubt it's the firmware as when it failed
> > the last time, it was back on 1.8 - heated platform support.
>
> > On Apr 14, 3:01 pm, Lyndondr <lyndo...@gmail.com> wrote:
>
> > > What version firmware were you using and what are you ate know. When
> > > you say your controller "Borked", you may have to get a little more
> > > technical or talk down to me what ever the case may be. If I were to
> > > guess your barrel is not heating, and that can be a few different
> > > things.
>
> > > On Apr 14, 12:03 pm, Chorca <cho...@gmail.com> wrote:
>
> > > > I loaded this up last night and had some issues before my extruder
> > > > controller board died. I don't believe the firmware did that, since
> > > > i've been having issues for some time now, but I was not able to get
> > > > the heater to get up to temp.. the PWM seemed to level off way too
> > > > soon.. i.e. I had the temp set to 240, and it would only get to 170.
> > > > Other than that, it seemed to work in concert with the new mobo
> > > > firmware well, though I couldn't really test it as my extruder
> > > > controller borked shortly after.
>
> > > > On Apr 13, 11:39 pm, Lyndondr <lyndo...@gmail.com> wrote:
>
> > > > > Here is a link to all the firmware stuff.
>
> > > > >  http://github.com/makerbot/G3Firmware
>
> > > > > On Apr 13, 7:26 pm, Jarek <supersonik...@gmail.com> wrote:
>
> > > > > > Downloaded and updated the firmware on my cupcake, but I'm really
> > > > > > curious as to what it does. Does anyone know a website where I can
> > > > > > view a changelog of the firmwares?

--
You received this message because you are subscribed to the Google Groups "MakerBot Operators" group.
To post to this group, send email to makerbot@googlegroups.com.
To unsubscribe from this group, send email to makerbot+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/makerbot?hl=en.


Buzz this

DARPA Spills Details on its Plans for the Transformer TX Flying Car | Popular Science

DARPA Spills Details on its Plans for the Transformer TX Flying Car | Popular Science
Buzz this

Phusion® Hot Start II High-Fidelity DNA Polymerase(F-549), Hot Start PCR, NEB

Phusion® Hot Start II High-Fidelity DNA Polymerase(F-549), Hot Start PCR, NEB
Buzz this

Saturn's moon Enceladus leaves plasma bubbles in its wake

Saturn's moon Enceladus leaves plasma bubbles in its wake
Buzz this

Future Watch: A.I. comes of age - Computerworld

Future Watch: A.I. comes of age - Computerworld
Buzz this

NASA to rocket humanoid robot to International Space Station | NetworkWorld.com Community

NASA to rocket humanoid robot to International Space Station | NetworkWorld.com Community
Buzz this

Fwd: What kits do people prefer for cDNA synth, and why?



---------- Forwarded message ----------
From: Nathan McCorkle <nmz787@gmail.com>
Date: Thu, Apr 15, 2010 at 1:35 PM
Subject: Re: What kits do people prefer for cDNA synth, and why?
To: diybio@googlegroups.com


The kit I used this morning included AMV reverse transcriptase, which has higher functioning temp which is better for denaturing secondary RNA structures... not sure how big a problem that is with mRNA.

It doesn't seem like RNase H activity is much of a problem since I'm looking to amplify only a certain mRNA, rather than make a library... does that make sense, or is RNase H activity just bad/useless ? 


On Thu, Apr 15, 2010 at 2:07 PM, Stanley Han <zhan528@gmail.com> wrote:
NEB kit doesn't seem to be robust. I don't know whay. Invitrogen has a Rt enzyme that has no endo H activity so that yo get more cDNA.Clontech seems to be good too. They are all more expensive.

On Thu, Apr 15, 2010 at 12:19 PM, Nathan McCorkle <nmz787@gmail.com> wrote:
I am looking for cDNA synth kits and settled on this one at $4.33 a reaction:

I was settled actually, until I used a promega kit this morning after doing a trizol-chloroform RNA extraction. My professor said that trizol is cheap and yields high amounts of RNA, and said that he uses the promega kit because our school prefers to order through VWR... I am still waiting to hear if we get a discount through VWR or not.

If anyone has opinions about the kit I posted through NEB, or has a better recommendation please send quickly, as I'm trying to purchase stuff tomorrow, or at least have money set aside for its purchase. 

--
Nathan McCorkle
Rochester Institute of Technology
College of Science, Biotechnology/Bioinformatics

--
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To post to this group, send email to diybio@googlegroups.com.
To unsubscribe from this group, send email to diybio+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/diybio?hl=en.

--
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To post to this group, send email to diybio@googlegroups.com.
To unsubscribe from this group, send email to diybio+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/diybio?hl=en.



--
Nathan McCorkle
Rochester Institute of Technology
College of Science, Biotechnology/Bioinformatics

--
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To post to this group, send email to diybio@googlegroups.com.
To unsubscribe from this group, send email to diybio+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/diybio?hl=en.

Buzz this

Fwd: Sequencer update



---------- Forwarded message ----------
From: TS Nowlan <apokruphos@gmail.com>
Date: Thu, Apr 15, 2010 at 1:20 PM
Subject: Re: Sequencer update
To: diybio@googlegroups.com


We have an ABI PRISM 310, an older model single-capillary sequencer. There is an electrical fault somewhere, which we are still in the process of hunting down / fixing. I'm not personally familiar with its materials (I'm used to just working with the data afterwards), but once we have it up and running I'm sure we'd happy to help test out your kit however we can.

-Tor



On Thu, Apr 15, 2010 at 11:12 AM, Stanley Han <zhan528@gmail.com> wrote:
What type of ABI instrument do you have? I wonder if you will be interested in testing my dye removal kit with your instrument if you use capillery sequencer---PureSEQ?


On Thu, Apr 15, 2010 at 2:10 PM, Stanley Han <zhan528@gmail.com> wrote:
You need a enzyme that incorporate ddNTP efficiently for sequencing not regular Taq. Bigdye use this kind of Taq.

On Wed, Apr 14, 2010 at 7:39 PM, Mackenzie Cowell <mac@diybio.org> wrote:
I'm organizing a PCR genotyping workshop next weekend and have been looking for a diybio-friendly sanger sequencing provider (haven't actually made accounts or taked to anyone at any companies or sequencing centers yet, though).  It would be extra cool to do some of the sequencing with diybio!  If I got reagents, could you guys do some sequencing on one or two samples?

Also, a general question about sanger sequencing: I'm probably going to use Taq, but I might purchase a higher-fidelity / higher-processivity polymerase.  What sort of read lengths could I typically get from a commercial sanger sequencing provider?  Like, 700-1000 bp?  I would be interested in amplifying like 5kb, if possible.

Cheers,
Mac


On Wed, Apr 14, 2010 at 7:23 PM, Bryan Bishop <kanzure@gmail.com> wrote:
---------- Forwarded message ----------
From: TS Nowlan <apokruphos@gmail.com>
Date: Wed, Apr 14, 2010 at 6:14 PM
Subject: Sequencer update
To: socal-diybio@googlegroups.com


Hey folks,

Things are moving slowly forward with our lovely sequencer, but I
thought it good to put all the docs and whatnot we've managed to find
together in one place. I've found a protocol for using it, a Windows
installer for ABI sequence analysis software (good to convert it into
a non-proprietary format for us to work with) and user's manuals for
the diagnostics system and the sequencer overall. I added links to all
that to the Lab Protocol wiki page, though I imagine it should have
its own page at some point. I'll likely be adding more this afternoon
as I find it.

Here's the link again for those that may have forgotten, or not made
accounts yet:
http://omegahelm.com/diybio/tiki-index.php?page=Lab+Protocols

And of course feel free to edit and add more stuff as you like.

-Tor

--
"And if ye cannot be saints of knowledge, then be at least its warriors."
-- Friedrich Nietzsche



--
- Bryan
http://heybryan.org/
1 512 203 0507

--
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To post to this group, send email to diybio@googlegroups.com.
To unsubscribe from this group, send email to diybio+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/diybio?hl=en.




--
+1.231.313.9062 / mac@diybio.org / @100ideas

--
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To post to this group, send email to diybio@googlegroups.com.
To unsubscribe from this group, send email to diybio+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/diybio?hl=en.


--
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To post to this group, send email to diybio@googlegroups.com.
To unsubscribe from this group, send email to diybio+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/diybio?hl=en.



--
"And if ye cannot be saints of knowledge, then be at least its warriors."
-- Friedrich Nietzsche

--
You received this message because you are subscribed to the Google Groups "DIYbio" group.
To post to this group, send email to diybio@googlegroups.com.
To unsubscribe from this group, send email to diybio+unsubscribe@googlegroups.com.
For more options, visit this group at http://groups.google.com/group/diybio?hl=en.

Buzz this