Scott Carlson

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
Current revision (23:17, 19 June 2010) (view source)
 
(36 intermediate revisions not shown.)
Line 1: Line 1:
-
I'm a first year PhD student in MIT's department of Bioengineering.  This content is questionable at best since I'm still figuring out the whole Wiki thing.  For now you can download my [http://web.mit.edu/scottmc/www/Scott_Carlson_CV.pdf CV].  Feel free to read whatever happens to be here.
+
<!-- CSS header information -->
 +
<div style="width: 800px;border: 3px solid #0000E9">
 +
<!-- Wiki header information -->
 +
__NOEDITSECTION__
 +
<!-- Document Body -->
 +
<nonwikionly>
 +
<font size='6'>Scott Carlson</font>
-
Skip to the [[User:Scottmc#Bio|Bio]] if you'd rather read my life story than my research.
+
</nonwikionly>
 +
<div style="padding: .0em .9em .9em">
 +
[[image:Scott_Carlson.png|220px|right]]
 +
{|
 +
|-
 +
__TOC__
 +
|}
 +
I'm a 5th-year graduate student in Biological Engineering at the Massachusetts Institute of Technology.  I work with Professor Forest White on phosphoproteomics applied to diabetes and cancer.
-
=Research=
+
=Research Interests=
-
==Protemics==
+
==Graduate Research==
-
==Biostatistics==
+
=== MAP kinases in cancer and diabetes ===
 +
The mitogen-activated protein kinases (MAPKs) are involved in signal transduction downstream of stress and growth factors.  Activation of JNK in a critical event in development of type II diabetes, and activation of ERK is involved in both diabetes and cancer.  I am combining mass spectrometry a chemical genetics strategy, developed by Kevan Shokat, to identify substrates of these kinases.
-
==Bioengineering==
+
=== Mechanisms of oncogenesis by KRAS mutation ===
 +
Activating mutations in KRAS occur in about 60% of all cancers.  The KRAS oncogene signals through several major pathways, including the Raf/MEK/ERK cascade.  This cascade is a major target for pharmaceutical research because of its importance in KRAS signaling and because it is targeted by other important oncogenes.  My goal is to understand how KRAS activation leads to cancer development by activating this and other pathways.
-
=Curriculum Vitae=
+
=== Regulation of alternative splicing ===
 +
Regulation of mRNA splicing is implicated in development of cancer, and especially in the progression to metastasis.  The splicing factor FOX2 is a global splicing regulator particularly important in development and frequently up-regulated in poorly differentiated cancers.  In collaboration with the Sharp Lab at MIT I am trying to understand how mitogenic and oncogenic signaling affects FOX2 activity.
-
=Other Interests=
 
-
'''Politics'''
+
==Undergraduate Research==
-
Along the way I got involved in politics, martial arts, and computer programming.  I served as Treasurer for the King County Young Democrats, and a Democratic Precinct Committee Officer in 2000-01. I practic
+
===Clinical Proteomics===
 +
Using the combination of informatics and high-throughput experiments to identify clinically relevant diagnostics.  I worked with Dr. Harvey Cohen at Stanford to identify blood biomarkers for Kasawaki disease, monitor juvenile arthritis, and identify premature infants at risk for common disorders.
-
'''Martial Arts'''
+
===Biostatistics===
 +
High-throughput experiments in proteomics and genomics have required a range of new statistical methods.  Protein measurements are often strongly correlated, and correlated variables interfere with most of the statistical analyses.  I applied clustering methods as a form of data-reduction to reduce problems introduced by correlated proteins.
-
'''Europe'''
+
===Computational Genetics===
 +
I worked with Dr. Leonid Kruglyak and Dr. Elaine Ostrander on study of genetic variability among pure-breed dogs.  This work was published in Science (see the CV).
-
'''Computer Programming'''
+
=iGEM=
 +
I'm a graduate student adviser for MIT's undergraduate team for the International Genetically Engineered Machines competition.  See the [http://2008.igem.org iGEM] website or our [[IGEM:MIT/2008|team wiki ]] for more information.
 +
=Curriculum Vitae=
 +
Download my CV [http://web.mit.edu/scottmc/www/Scott_Carlson_CV.pdf here].
-
=Comments?=
+
</div>
-
 
+
-
What's the point of a Wiki homepage if people don't make changes?  Add anything here (limited vulgarity of course)
+
-
 
+
-
 
+
-
=Bio=
+
-
''Go back to [[User:Scottmc#Research|Research]] if you got here by mistake and don't really want to read my life story.''
+
-
 
+
-
'''High School'''
+
-
I'm from Seattle WA, in the Pacific Northwest.  At first I planned to be a computer programmer, and I talked myself several programming languages.  That lasted exactly one week after I got my first programming job.  If you've ever worked in a grey cubicle in corporate America then you understand why I got out.  Otherwise just be grateful that you don't understand that particular type of pain.  After a string of random events I ended up doing genetics and computational biology with Leonid Kruglyak at the Fred Hutchinson Cancer Research Center.  I spent three summers there working on all sorts of computational genetics (genetic linkage analysis, haplotype inference, phylogeny).  Since then, all my research has focused on that stuff.
+
-
 
+
-
'''College'''
+
-
Looking at colleges it was a close call between Stanford and MIT.  Taking it right to the deadline, Stanford won out because of more attractive undergrads and better weather. Turned out to be a good choice because here I am at grad school, and now I've been at both places. (don't be stupid, if weather or hot students actually mattered I'd be at UCSD right now.  I chose Stanford for academic reasons)  I majored in Chemistry with a minor in Bio.  Prof. Richard Zare was my academic advisor but I never even looked at doing research in pure chemistry.
+
-
 
+
-
In my sophomore year I got involved in biostatistics in medical research with Dr. Harvey Cohen in the Dept of Pediatrics at the Stanford med school.  All the details are in the [[User:Scottmc#Research|Research]].  The experience completely reshaped my perspective on science, especially working with data from premature infants.  ''The big picture hits you fast and hard when you find out that half the children in your dataset did not survive.''
+
-
 
+
-
So that's how I ended up moving from Chemistry to Biostastics to Bioengineering.  Along the way I spent some time in Oxford reading History of Science (please excuse the Britishisms, "reading" is the Oxford was of say "took classes in."  At least it would be if Oxford had classes in anything resembling the way we think about them).  The time in England inspired me
+
-
 
+
-
 
+
-
'''Interlude: England'''
+
-
 
+
-
'''MIT'''
+

Current revision

Contents

I'm a 5th-year graduate student in Biological Engineering at the Massachusetts Institute of Technology. I work with Professor Forest White on phosphoproteomics applied to diabetes and cancer.

Research Interests

Graduate Research

MAP kinases in cancer and diabetes

The mitogen-activated protein kinases (MAPKs) are involved in signal transduction downstream of stress and growth factors. Activation of JNK in a critical event in development of type II diabetes, and activation of ERK is involved in both diabetes and cancer. I am combining mass spectrometry a chemical genetics strategy, developed by Kevan Shokat, to identify substrates of these kinases.

Mechanisms of oncogenesis by KRAS mutation

Activating mutations in KRAS occur in about 60% of all cancers. The KRAS oncogene signals through several major pathways, including the Raf/MEK/ERK cascade. This cascade is a major target for pharmaceutical research because of its importance in KRAS signaling and because it is targeted by other important oncogenes. My goal is to understand how KRAS activation leads to cancer development by activating this and other pathways.

Regulation of alternative splicing

Regulation of mRNA splicing is implicated in development of cancer, and especially in the progression to metastasis. The splicing factor FOX2 is a global splicing regulator particularly important in development and frequently up-regulated in poorly differentiated cancers. In collaboration with the Sharp Lab at MIT I am trying to understand how mitogenic and oncogenic signaling affects FOX2 activity.


Undergraduate Research

Clinical Proteomics

Using the combination of informatics and high-throughput experiments to identify clinically relevant diagnostics. I worked with Dr. Harvey Cohen at Stanford to identify blood biomarkers for Kasawaki disease, monitor juvenile arthritis, and identify premature infants at risk for common disorders.

Biostatistics

High-throughput experiments in proteomics and genomics have required a range of new statistical methods. Protein measurements are often strongly correlated, and correlated variables interfere with most of the statistical analyses. I applied clustering methods as a form of data-reduction to reduce problems introduced by correlated proteins.

Computational Genetics

I worked with Dr. Leonid Kruglyak and Dr. Elaine Ostrander on study of genetic variability among pure-breed dogs. This work was published in Science (see the CV).

iGEM

I'm a graduate student adviser for MIT's undergraduate team for the International Genetically Engineered Machines competition. See the iGEM website or our team wiki for more information.

Curriculum Vitae

Download my CV here.

Personal tools