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Questions related to Bioinformatics and Computational Biology
factors / parameters for molecular docking result interpretation
08 August 2017 7,989 3 View
Searching for a conference to present my work and get insights in the cutting edge research in my field.
08 August 2017 6,379 2 View
02 August 2017 1,808 2 View
Dear All, I have written a few tcl vmd scripts , those we can also use as VMD commands in tk console. I hope these will be helpful for VMD users. Please have a look at these and let me know your...
07 July 2017 2,356 2 View
Can BLAST perfrom a search including IUPAC ambiguity codes (for example 'M' represents 'A', or 'C'), and 'interpret' their meaning, or are they simply ignored? Thanks!
24 June 2017 9,128 3 View
Iam working with clinical strains isolated from the same hospital and patients with similar background (all CF patients in a CF center). We have the complete sequence of the strains and they are...
22 June 2017 2,319 3 View
Dear folks, Can anyone provide me some trends on circulating disease markers (exosomes or CTCs) as below? 1. Current challenges in characterization (selectivity) 2. Leading technologies (early...
15 June 2017 10,003 1 View
The ortholog groups of 5 species proteins look like: Group1: sp1 sp2 sp3 sp4 sp5 Group2: sp1 sp2_seq1 sp2_seq2 sp3 sp4_seq1 sp4_seq2 sp5 (sp is for species here) As here one can see the Group1...
08 June 2017 4,286 1 View
06 June 2017 3,436 3 View
I try to analyse similarity of short protein sequences (30-150 aa) to characterized proteins using NCBI Blast. Typical E-values of my queries range between 0.0001 and 0.97. Following an E-value...
06 June 2017 3,903 4 View
06 June 2017 688 3 View
06 June 2017 6,746 1 View
Dear colleagues, How would you interpret an enrichment factor of 5 that resulted from the evaluation of a molecular docking strategy? Would it mean that within methodology you find 5 times more...
06 June 2017 5,906 3 View
I am trying to calculate SASA scoring function using dock 6.7. However, I am confused about the interpretation of the score. I have obtained: SA_Descriptor Score: 14.15 How could I interpret it?...
05 May 2017 7,583 4 View
I have a peptide sequence whose structure has been solved in 2 different parts by different groups, so I have 2 pdb files. 1st file contains amino-acid sequence 1-42 ( I need only 16-42 from...
05 May 2017 9,330 2 View
Dear colleagues, I have read the Glide user guide (https://isp.ncifcrf.gov/files/isp/uploads/2010/07/gli55_user_manual.pdf) but I am a little bit confused. Is it possible to just calculate the...
05 May 2017 8,303 5 View
Hi everyone! I'm trying to work on the acquisition of the Raman Spectra of a leaf section using Confocal Raman Spectroscopy. The samples to be used are pure, dried, and powdered leaf samples. I am...
18 April 2017 8,819 1 View
I did profile of miR and company said they choose a panel of high confidence miR. What does this mean?
17 April 2017 8,504 1 View
04 April 2017 4,690 3 View
Good afternoon, I was wondering if Is there a way to work with a database instead of working with separate files in Autodock? It is computationally expensive to do a process file by file. Since...
04 April 2017 8,700 4 View
I have got a sequence of my human promoter of interest-reporter (pGL4) vector of 3Kbp. The promoter sequence is in capital letters (representing the nucleotides) and the reporter vector sequence...
29 March 2017 4,667 4 View
I need to evaluate the accuracy of predicted interactome of an insect species which I constructed by interolog method. I read that I can use ROCR package for it. I got a gold standard positive PPI...
08 March 2017 6,292 1 View
03 March 2017 3,226 5 View
03 March 2017 9,589 1 View