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'280
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Forum: Bioinformatician, a jack of all trades, but in the eye of the CV-beholder a master of none? How can your CV reflect the diverse skills that you have as a bioinformatician?
... This probably holds true everywhere, but perhaps more pronounced in research and service centers, or at least I'm under that impression since every bioinformatician I have talked to has been part of a research or service center and has confirmed this. In such facilities, people think bioinformaticia ...
career cv forum industry job written 12 months ago by '280
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Comment: C: Gene (mRNA) - Protein Interaction databases and prediction
... That's exactly the aim: predict computationally (for example RNA-binding capabilities between those proteins and the gene of interest), and if the result is reliable, start an experiment. Are there any known approach to do the prediction? ...
written 2.3 years ago by '280
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Answer: A: Normalized Smith-Waterman similarity score based on pairwise amino acids sequenc
... Here's a naive approach: library("Biostrings") library("seqinr") ## Load protein sequences #Protein_Seq <- read.fasta("Protein_sequneces.fa", seqtype="AA", as.string="TRUE") #Protein_Sequences_Only <- getSequence(Protein_Seq, as.string=TRUE) data("BLOSUM62") ...
written 2.3 years ago by '280
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Gene (mRNA) - Protein Interaction databases and prediction
... I have a set of proteins and I want to find out how they interact with a particular gene. Are there any tools and/or databases that would be suitable for this purpose? ...
gene mrna ppi protein databases written 2.3 years ago by '280 • updated 2.3 years ago by c.chakraborty160
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Comment: C: Classify, organize, and cluster a list of proteins / discovering relations betwe
... "P06909", "Q3UV17", "P07724", "Q61147", "Q6ZPJ3", "P20918", "Q7TT37", "Q62469" ...
written 2.3 years ago by '280
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Comment: C: Classify, organize, and cluster a list of proteins / discovering relations betwe
... Fixed now. It was a mistake. ...
written 2.3 years ago by '280
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Classify, organize, and cluster a list of proteins / discovering relations between a set of proteins and linking them to disease
... I have a list of proteins (only `Uniprot IDs`) and I am interested in discovering relations between them. Most importantly I want to focus on disease pathways and find out whether the proteins I am looking at are part of particular disease(s). Additionally, functional relations, pathway analysis, ...
cluster protein written 2.3 years ago by '280
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Answer: A: NCBI blast remote on specific species
... I know this is an old thread, but it took me a long time to figure out the same---this stuff is not well-documented. So I want to post an answer to this thread to clarify how one can achieve what's asked for in this thread (both the remote and local way). I am using the latest version of **BLAST+** ...
written 2.7 years ago by '280
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Comment: C: Europe: Non-Paid Bioinformatics Internships/Training
... To people reading this thread in the future, don't take the guy above seriously. ...
written 2.7 years ago by '280
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Comment: C: Normalized Smith-Waterman similarity score based on pairwise amino acids sequenc
... I ended up using `R` which was reasonably fast for my limited computational resources. I used `Biostrings::pairwiseAlignment`. ...
written 2.8 years ago by '280

Latest awards to '

Popular Question 2.3 years ago, created a question with more than 1,000 views. For Understanding Kernel Ridge Regression for Drug-Target Interaction
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Europe: Non-Paid Bioinformatics Internships/Training
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Velvet Assembly Online
Popular Question 2.3 years ago, created a question with more than 1,000 views. For How to interpret MUMmer plots? When do you know that your alignment was a good one?
Popular Question 2.3 years ago, created a question with more than 1,000 views. For What is "Total Length" in QUAST?
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Velvet Assembly Parameters
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Genome Assembly for a Beginner
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Jukes-Cantor for Proteins
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Normalized Smith-Waterman Formula
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Percentage of similarity between two contigs files
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Training and/or Master's Thesis at EMBL Heidelberg
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Understanding Kernel Ridge Regression for Drug-Target Interaction
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Europe: Non-Paid Bioinformatics Internships/Training
Popular Question 2.6 years ago, created a question with more than 1,000 views. For How to interpret MUMmer plots? When do you know that your alignment was a good one?
Popular Question 2.6 years ago, created a question with more than 1,000 views. For How to model transcriptional networks from gene expression time-course data
Popular Question 2.7 years ago, created a question with more than 1,000 views. For Training and/or Master's Thesis at EMBL Heidelberg
Scholar 2.7 years ago, created an answer that has been accepted. For A: How to model transcriptional networks from gene expression time-course data
Popular Question 2.7 years ago, created a question with more than 1,000 views. For Europe: Non-Paid Bioinformatics Internships/Training
Popular Question 3.1 years ago, created a question with more than 1,000 views. For Europe: Non-Paid Bioinformatics Internships/Training
Popular Question 3.6 years ago, created a question with more than 1,000 views. For Europe: Non-Paid Bioinformatics Internships/Training
Teacher 3.6 years ago, created an answer with at least 3 up-votes. For A: How to model transcriptional networks from gene expression time-course data
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