User: Gergana Vandova

gravatar for Gergana Vandova
Reputation:
170
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Trusted
Location:
Stanford, CA
Website:
http://www.linkedin.co...
Last seen:
5 years, 1 month ago
Joined:
7 years, 6 months ago
Email:
g**************@gmail.com

PhD student at Stanford University. Interested in natural products engineering and synthetic biology.

Posts by Gergana Vandova

<prev • 15 results • page 1 of 2 • next >
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Answer: A: What to use for a measure of distance between two sequences?
... I think that conventional way of thinking about the correlation between similarity and distance is the following: Distance = 1 - Similarity ...
written 5.5 years ago by Gergana Vandova170 • updated 5.5 years ago by Alex Reynolds29k
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Answer: A: Tools For Fusion-Protein Linker Design
... This is probably not what you are looking for, but you might consider using naturally occurring linkers. One great example of that is the linkers in modular polyketide assembly lines that catalyze the synthesis of natural products. These are multienzyme complexes, comprising several modules, each on ...
written 5.6 years ago by Gergana Vandova170
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Comment: C: Ncbi Nt Database Size Over Time
... I would assume that most of the data from the different databases will be overlapping and the most rich database will be that from Genbank. But even if you could collect non-reduntant dataset combining all 4 databases, that wouldn't change the overall trend. Unless you would like to be super precise ...
written 5.7 years ago by Gergana Vandova170
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Answer: A: Ncbi Nt Database Size Over Time
... This is the most recent plot I found (ref): And as of the 15th of Feb 2014 Genbank release, there are 157943793171 bases (ref). So you can add this point to the plot as well. ...
written 5.7 years ago by Gergana Vandova170
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Comment: C: Convert Clustal To Nexus Format In Python
... It doesn't work: ValueError: Need a DNA, RNA or Protein alphabet ...
written 5.7 years ago by Gergana Vandova170
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Comment: C: Convert Clustal To Nexus Format In Python
... Trimal works! Thanks! ...
written 5.7 years ago by Gergana Vandova170
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Answer: A: What'S Your Estimate For The Yearly Demand Of Whole Human Genome Sequencing?
... It seems to me that with the new Illumina technology HiSeq X Ten, the number of whole genome sequences per year is going to increase dramatically. Illumina states that each HiSeq X Ten machine will be able to sequence 18 000 human genomes per year. But the bottleneck is that the cost of the HiSeq X ...
written 5.7 years ago by Gergana Vandova170
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Comment: C: How To Perform A Codon Usage Analysis
... Your welcome. You might also want to upvote my answer if you found it useful. Let me know if you have issues using these tools. ...
written 5.7 years ago by Gergana Vandova170
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Answer: A: How To Perform A Codon Usage Analysis
... Would you like to just analyze the codons from your B. subtilis genes or would you like to optimize them for expression in E. coli? If you would like to just analyze them (i.e. see whether there are many rare codon that would stall expression in E. coli), I would use the Gensript rare codon analysi ...
written 5.7 years ago by Gergana Vandova170
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Comment: C: Convert Clustal To Nexus Format In Python
... Do you recommend seqret? ...
written 5.7 years ago by Gergana Vandova170

Latest awards to Gergana Vandova

Popular Question 5.3 years ago, created a question with more than 1,000 views. For How To Open .Ab1 Chromatogram Files In Ubuntu
Teacher 5.6 years ago, created an answer with at least 3 up-votes. For A: How To Perform A Codon Usage Analysis
Autobiographer 5.6 years ago, has more than 80 characters in the information field of the user's profile.

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