Archive for: November, 2011

Databases Gone Wild: Why Does The Microsoft Guy Care About The Brain

Nov 30 2011 Published by under Database

Day 3 of 5

I'm talking about the Allen Brain Atlas, named for the Microsoft co-founder and philanthropist Paul Allen.  I picked this database because of all of the neuroscience douches that hang around here at Scientopia.  If you ever wanted to know whether a particular gene was expressed in the brain and where at, this is the database for you.  Thanks to Allen's patronage, this database does a fantastic job and integrating genomics with the neuroanatomy of the mouse.

So go ahead and toss in your favorite gene and see where it lands.

No responses yet

Scibloggers Football Challenge: Week 12

Nov 29 2011 Published by under Uncategorized

1.  PLS (about damn time)

2.  Dr. O

3.  Jade Bio (PLS is catching up)

4.  Chall (another solid performance this week)

5.  Me

6.  GertyZ

7.  Odyssey

8.  Hermie

9.  SugarScientist

10.  Alyssa

11.  Tideliar

Tiddles took this week on the chin just like our friend #Burzynski is taking in the media this week.

One response so far

Databases Gone Wild: Have you met BRENDA?

Nov 29 2011 Published by under Database

Day 2 of the 5 day database series...

No, I'm not talking about crazy Brenda that lives down the street, I'm talking about BRENDA, functional enzyme data collection repository developed and run by the fine folks at the Institute of Biochemistry and Bioinformatics at the Technical University of Braunschweig in Germany.  Want to know a particular Km value for a specific enzyme substrate?  Ask BRENDA.

6 responses so far

Databases Gone Wild: Microarrays

Nov 28 2011 Published by under Database

So this is the first post of the weekly database content.

Thinking about planning a microarray study, see if somebody already did the work for you! GEO is NCBI's microarray data bank and GEA is its UK counterpart. Take a peak.

Gene Expression Omnibus
Gene Expression Omnibus (GEO) is a database repository of high throughput gene expression data and hybridization arrays, chips, microarrays.

Gene Expression Atlas
Gene Expression Atlas is a semantically enriched database of meta-analysis statistics for condition-specific gene expression.

3 responses so far

Zero Sum

Nov 27 2011 Published by under Uncategorized

Apparently you can gain no weight or even come out net negative while eating a shit ton of food for Thanksgiving if you get food poisoning.  I'll leave it at that.

4 responses so far

On Giving Thanks

Nov 24 2011 Published by under Uncategorized

I'm thankful for:
-my family
-my friends
-my coworkers (even the shitty ones)
-all the good folks here at Scientopia
-the fantastic readers of my blog
-even that asshole Tideliar who trolls here on occasion

Have a great day guys, I plan to Occupy Couch today.

One response so far

Scibloggers Fantasy Football: Week 11

Nov 24 2011 Published by under Uncategorized

Its a bit late but then again I don't see anyone else doing it so keep quiet and lets get this over with.  Oh and don't forget to make your picks before today's games start.

1.  Odyssey

2.  Hermie (sorry, he beat you on tie breakers)

3.  GertyZ

4.  Me

5.  Chall 2.0 (the 2.0 designates the new and improved Chall who is on a roll with some sweet picks)

6.  Dr. O

7.  Jade Bio (I think this might be your worst finish ever this season)

8.  PLS

9.  Alyssa

10.  SugarScientist

11.  Namnezia

Nam's Hams suffered a little fail, hopefully the bad fortune doesn't extend to Turkey Day

One response so far

Does anyone remember shotgunning internet?

Nov 23 2011 Published by under Uncategorized

Okay, so this post is obviously irrelevant to anyone that had no experience with dial up internet or is under the age of 30.  Last night I was talking to my wife about some IT stuff and reminisced on working at a call center during my college days doing some dial up ISP support and came onto the topic of shotgunning.  Shotgunning was where you would use two phone lines to basically double your bandwidth to and from your ISP back in the good (read crappy) old dial up days.  Usually at the call center I dealt with folks that could never get this to work, in their defense shotgunning was a bit difficult, but handy if you could get it up and running.  Especially if you were doing a bunch of file transferring or online gaming (think low lag times).

Anyone else ever heard of or did this?

Image from


8 responses so far

Sweeps Week Programming: Databases

Nov 21 2011 Published by under Blogging, Uncategorized

So, I'm throwing caution and what little reputation I have to the wind and guaranteeing content each day next week.  What's the theme you might ask?  I plan on covering a different biomedical database each day and hopefully some new and interesting ones that you haven't heard of before.  So that means I'm going to be going for the more obscure and leaving the low hanging fruit like BLAST, CGAP, dbSNP, and databases of their ilk alone.

If you like what you see or know of a better database let me know.

No responses yet

Shame on you...

Nov 19 2011 Published by under Evil, Uncategorized

Is this really defending yourself? What threat do college kids sitting on the ground pose to scores of police officers in riot gear with batons and pepper spray. Whoever is running the police effort should hopefully form the idea that images of jackbooted storm troopers spraying down peaceful protesters with OC spray does little to elevate their reputation. Maybe instead of sending in the heavies, why don't you have regular uniformed police officers, you know the ones without riot shields, plastic flexcuffs, and ballistic helmets, and let them interact with the protesters. This definitely might go a long ways to lowering the tension of the situation and might make for more productive interactions with the protesters.

I know some might argue that the police need the extra level of equipment for security, but for as large as the Occupy protests are, proportionally very few law enforcement officials have been injured. And as far as the UC Davis Chancellor Linda Katehi's lackadaisical response, well did you not think they would call for your head when you didn't suspend the officers involved in the incident? Your pledge to set up a fact finding commission is just mere lip service to placate the people.

Physical altercations and violence against those who peacefully protest did not quell the demonstrations of the civil rights activists in the 1960s and they will not end the Occupy protests of today. Institutional thuggery may seem like a viable option to bureaucrats to break the will of the people, but discipline and restraint go much further to bridging gaps in hearts and minds.

Use your head, not the damn pepper spray...

4 responses so far

Older posts »