Proteomic Stuff Flashcards
What’s most complicated: Genomics, Transcriptomics, or Proteomics?
Proteomics
Do fold changes in genes / mRNA transcript levels translate proportionally into protein level changes?
NOOOOO… mRNA degrades & protein translation can be insufficient.
The phenomenon describing multi-exon genes encoding for a variety of different proteins is called ______ ________ _______ _______.
pre-mRNA alternative splicing
Why are posttranslational modifications important to study within the branch of proteomics?
Some proteins require mods (ie. Glycosylation / Phosphorylation) to become fully functional.
Expression / Structural / Functional Proteomics: Describe each branch.
Expression: Quantifies protein expression levels.
Structural: 3D determination of structures of proteins on genome-wide scale & how their structure can be applied to functional predictions.
Functional: Characterizing molecular protein networks… How do they function together?
How does Top-Down Proteomic analysis differ from Bottom-Up?
Top-Down: Take protein mixture & directly analyze ionized proteins w/o use of protein digestion.
Bottom-Up: Digest first with Trypsin enzymes, then ionize & assess protein mixture.
What is a con of Bottom-Up Proteomics?
Loss of Post-Translational Modification info… This is conserved with Top-Down approach.
Pro of Bottom-Up Proteomics?
Much cheaper than Top-Down & much more efficient to do.
What is the point of protein separation in Proteomics?
To determine where differential expression (ie. At what stage) of proteins are changing.
Pros of X-Ray Crystallography.
-High Res Protein Structures
-Info on Protein Functions / Interactions
-Essential for Structure Based Drug Design
Cons of X-Ray Crystallography.
-Time Consuming
-$$$
-Specialized Training / Equipment Needed
In comparison to X-Ray Crystallography, what is one disadvantage of NMR Spectroscopy?
Only works for small proteins (X-Ray can do small or large proteins).
Why do we use protein microarrays?
In protein purification, expression profiling, & interaction profiling.
The following are examples of Protein Databases:
Mascot
PEAKS
RCSB
NCBI
X! Tandem
Sequest
RCSB & NCBI
The following are examples of Data Analysis Databases:
Mascot
PEAKS
RCSB
NCBI
X! Tandem
Sequest
Mascot, PEAKS, X! Tandem, Sequest
