Links

http://www.mouser.com/ProductDetail/BeagleBoard/BB-BONE-000/?qs=ojrz6ACP3aRSdMehdG1Csw%3d%3d

http://principialabs.com/python-web-search-agent/

http://mkrobb.hubpages.com/hub/Almost-Worthless-The-Little-Mermaid-and-Friends

http://www.youtube.com/watch?v=ZZCkIpbc9ss

http://www.youtube.com/watch?v=uJw-9xgVXTE

Interfacing the Propeller to External SRAM with SPI
http://www.parallaxsemiconductor.com/sites/default/files/appnotes/AN012-SRAM-v1.0_0.pdf
http://www.parallax.com/portals/0/help/P8X32A/QnaWeb/

30Mbps SPI to USB - FTDI UM232H
http://www.mouser.com/Search/ProductDetail.aspx?qs=rzPzygjq8vJshyX0tvqkbA%3D%3D

LS TiWi-R2 Wifi module - SPI but no drivers, I wonder if you could just wire it to send out binary TCP/IP packets... reverse engineering the configuration steps might be doable if you spy on the communication with a working device (supposedly there is a linux driver and some OMAP/TI processors)
http://www.mouser.com/ProductDetail/LS-Research/450-0037/?qs=sGAEpiMZZMuz9EkqwWgEDcRrleT5ZvLr
http://www.lsr.com/downloads/tiwi_r2/tiwi_r2_datasheet.pdf
http://www.mouser.com/ProductDetail/LS-Research/450-0037/?qs=sGAEpiMZZMuz9EkqwWgEDcRrleT5ZvLr

http://infocenter.arm.com/help/index.jsp?topic=/com.arm.doc.ddi0290g/I1003230.html

http://comments.gmane.org/gmane.comp.hardware.beagleboard.general/4296

this could work, its sold as being for their PIC32 chips
http://www.microchip.com/wwwproducts/Devices.aspx?dDocName=en548014#2
http://www.mouser.com/ProductDetail/Microchip-Technology/MRF24WB0MB-RM/?qs=sGAEpiMZZMsRr7brxAGoXSHY4wabHGUCy4f236gP2fQ%3d

http://www.uclinux.org/get_started/

Not sure about universal USB drivers for this
http://www.cypress.com/?id=193

AM33X platform page
http://www.ti.com/lsds/ti/dsp/platform/sitara/am33x_device.page?paramCriteria=no

PRU whitepaper
http://www.ti.com/lit/wp/spry136a/spry136a.pdf

http://www.beis.de/Elektronik/DeltaSigma/DeltaSigma.html

arduino PWM stuff
http://arduino.cc/en/Guide/Windows#toc2
http://arduino.cc/en/Tutorial/SecretsOfArduinoPWM

division planes of E.coli
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC107203/

http://en.wikipedia.org/wiki/DATEM
http://en.wikipedia.org/wiki/Magnetotactic_bacteria

http://www.calpoly.edu/~rfrankel/NatRevMicro.pdf
http://2010.igem.org/Team:MIT_mammalian_Bone

PCR+ligase
http://www.nature.com/nmeth/journal/v6/n5/full/nmeth.1318.html
http://www.nature.com/nmeth/journal/v6/n5/abs/nmeth.1318.html

FEP - FEP films can be used to fabricate chemically-inert monolithic membrane valves and pumps in glass microfluidic devices.
http://en.wikipedia.org/wiki/Fluorinated_ethylene_propylene
http://www.alibaba.com/product-gs/272205511/FEP_film_for_chemically_inert_microfluidic.html

"My life's not screwed up, delta S (entropy) just increased." -t-shirt idea


Radio and Biology links/Ideas
MRI
Cellphone + cancer
diathermy


Possible references
http://niremf.ifac.cnr.it/docs/DIELECTRIC/AppendixC.html
http://en.wikipedia.org/wiki/Diathermy

http://www.slavery.org.uk/Bioeffects_of_Selected_Non-Lethal_Weapons.pdf

Russian MIL Document
http://www.dtic.mil/cgi-bin/GetTRDoc?Location=U2&doc=GetTRDoc.pdf&AD=AD0415676

bacterially produced electronic radio circuit
http://www.biofaction.com/synth-ethic/?p=44

RF electricity
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC529182/
http://www.macrowave.com/rftech.html

favorite bio antenna candidate structures
http://en.wikipedia.org/wiki/Pacinian_corpuscle
pineal gland

MHZ-GHZ
http://en.wikipedia.org/wiki/Microwave_auditory_effect

sub-kHz
http://www.wired.com/wiredscience/2011/04/bacterial-radio/
http://scienceblogs.com/pharyngula/2011/01/it_almost_makes_me_disbelieve.php

The faster-than-fast Fourier transform - MIT News Office

http://web.mit.edu/newsoffice/2012/faster-fourier-transforms-0118.html

The faster-than-fast Fourier transform - MIT News Office
web.mit.edu
For a large range of practically useful cases, MIT researchers find a way to increase the speed of one of the most important algorithms in the information sciences.

Updates from the Bay

http://www.fgsc.net/fgn51/fgn51metz.html
Bird Medium: an alternative to Vogel Medium
Robert L. Metzenberg, Department of Chemistry and Biochemistry, University of California, Los Angeles CA 90095
Fungal Genetics Newsletter 51:19-20

http://davidchambersdesign.com/get-attributes-of-django-model-or-instance/

http://www.jankoatwarpspeed.com/post/2008/07/27/Enhance-your-input-fields-with-simple-CSS-tricks.aspx
http://www.search-this.com/2007/04/25/optimize-your-css-with-multi-class-elements/

http://api.jquery.com/jQuery.getJSON/
http://stackoverflow.com/questions/798111/how-do-i-json-serialize-a-python-dictionary

http://stackoverflow.com/questions/1151209/how-is-scrolltop-in-jquery-supposed-to-function
http://api.jquery.com/focus/
http://www.devguru.com/technologies/ecmascript/quickref/evhan_onclick.html
http://stackoverflow.com/questions/2665338/implement-code-folding-for-a-report-with-jquery
http://stackoverflow.com/questions/123401/using-jquery-to-find-the-next-table-row
http://hungred.com/how-to/tutorial-jquery-fold-effect-concept-explanation/
http://hungred.com/how-to/tutorial-how-make-your-opening-closing-door-effect-jquery/

http://j5.jbei.org/index.php/Main_Page
http://www.plosone.org/article/info:doi%2F10.1371%2Fjournal.pone.0005553

http://www.turnkeylinux.org/blog/django-celery-rabbitmq
http://celeryproject.org/docs/getting-started/first-steps-with-celery.html
http://comments.gmane.org/gmane.comp.python.amqp.celery.user/752
http://celeryproject.org/docs/cookbook/daemonizing.html
http://docs.celeryq.org/en/latest/userguide/executing.html
http://django-celery.readthedocs.org/en/latest/getting-started/first-steps-with-django.html
http://docs.celeryproject.org/en/latest/getting-started/broker-installation.html

http://www.google.com/search?q=green+chemistry+halo&ie=utf-8&oe=utf-8&aq=t&rls=org.mozilla:en-US:official&client=firefox-a#hl=en&sugexp=esqb,ratio&pq=green%20chemistry%20halo&xhr=t&q=green+chemistry+halo+salt+lake&cp=30&qe=Z3JlZW4gY2hlbWlzdHJ5IGhhbG8gc2FsdCBsYWtl&qesig=cZUivND3-Z9yGNcc5adcmw&pkc=AFgZ2tlCZ7xK2FQEKo2d9qI35PIIhYb5I44I-zf6o5aKcSXVpNv9znfO3yzXC3DDf2iGE4Og5x8_ypxE9zr3UzDn7opbq68nEA&pf=p&sclient=psy&client=firefox-a&hs=c1x&rls=org.mozilla:en-US%3Aofficial&biw=1397&bih=773&source=hp&aq=f&aqi=&aql=&oq=green+chemistry+halo+salt+lake&pbx=1&bav=on.2,or.r_gc.r_pw.&fp=4fd352462ee451d0

http://en.wikipedia.org/wiki/Psychrophile

http://rss.acs.unt.edu/Rdoc/library/PFAM/html/pfamCAZY2AC.html
http://stackoverflow.com/questions/1770205/general-purpose-progressbar-in-django
http://blog.perplexedlabs.com/2008/11/07/real-time-ajax-javascript-progress-bar/

MicroBiology and Bioinformatics:
http://inst.bact.wisc.edu/551/tiki-index.php?page=Characterization_tests_Denim
http://www.cytoscape.org/

Spectroscopy:
http://www.youtube.com/watch?v=ScAf7OJFtQI
http://www.ahurascientific.com/index.php
http://en.wikipedia.org/wiki/Vycor
http://en.wikipedia.org/wiki/Spatially-offset_Raman_spectroscopy

http://en.wikipedia.org/wiki/Principal_component_analysis

PhD Programs:
http://www.cmu.edu/graduate/academics/guide-to-graduate-degrees-and-programs/carnegie-institute-of-technology.html#Biomedical Engineering
http://biomicrosystems.net/research/
http://www.cmu.edu/me/people/leduc.html
http://www-2.cs.cmu.edu/~zivbj/
http://www.sb.cs.cmu.edu/pages/research.html
http://www.cmu.edu/bio/faculty/berget.html

http://en.wikipedia.org/wiki/Eigenface
http://en.wikipedia.org/wiki/Non-negative_matrix_factorization

Biopython BLASTing

From:
http://www.biopython.org/DIST/docs/tutorial/Tutorial.html

I found this:
http://www.biopython.org/DIST/docs/tutorial/Tutorial.html#htoc82

is it possible to crudely in-vitro translate?

if you had synthetic GFP RNA, could you mix it with a crude cell
extract and see a glow? what about a doing
chromatography/gel-separation on the proteins and mix each one with
the supernatant of a centrifuged cell extract, then mixing with RNA to
look for a glow. in the first case you hope to get lucky, in the
second you would be trying to find the ribosomes, and add in some
amino acids and tRNAs.

To find T7 RNA polymerase from your extract(gotta be in the strain),
you would get this plasmid with a T7 driven GFP:
http://www.addgene.org/pgvec1?f=c&identifier=24387&atqx=(t7%20AND%20gfp)%20AND%20vectype:Bacterial%20Expression&cmd=findpl
(Plasmid 24387: pHL32)

To find normal RNA polymerase from a cell extract, you would get a
"normal" GFP plasmid:
http://www.addgene.org/pgvec1?f=c&identifier=17823&atqx=gfp%20AND%20vectype:Bacterial%20Expression&cmd=findpl
(Plasmid 17823: pBAD*RFPEC2)
http://www.nature.com/nbt/journal/v14/n3/abs/nbt0396-315.html

then feed protein isolates to the plasmid, then feed each of those
samples to your confirmed-to-work translation system, and you find the
glowing sample... that sample had RNA polymerase in it.

So theoretically this logic could yield both a transcription and
translation system, all starting from a GFP RNA, and a GFP DNA.

I can't wait to try this!

Get nautilus file manager to edit ID3 tags

So editing ID3 tags isn't integrated into Nautilus, which is pretty stupid since it does display your ID3 tag information... so I searched online and found these nautilus scripts:
http://mundogeek.net/nautilus-scripts/

but the ID3 editing script requires your mp3 files to be in a certain directory format and filename format... so I edited it to just send the filename you wish to edit, to a GUI ID3 tag editor, kid3... all you need to do is copy the python file into your user nautilus extension folder "/home/(your user name)/.nautilus/python-extensions", then install kid3 (using synaptic or apt-get on ubuntu/debian) and restart nautilus (you might need to go to the command prompt and do a killall "nautilus")

Enjoy!

http://www.nathanmccorkle.com/projects/scripts/nautilus/nautilus-tag-music.python

My beating heart

This past Tuesday I dissected a chicken embryo... I extracted the heart and cut it into small pieces. Then I placed a single piece into an individual well of a 6 well cell culture plate, and added some DMEM + antibiotic media. A few of the chunks I added to an enzyme solution called trypsin which digests the extracellular protein scaffold that holds cells together, then I added some of this cell solution to a well in the plate and added the same growth media.

The next day the heart explants (chunks) were still beating:
Beating chick heart explant
Beating chick heart trypsinized cells