Samaneh Fazeli Farsani

6 Questions 21 Answers 0 Followers

Questions related from Samaneh Fazeli Farsani

Do you have a solution for use of ligandScout (Evaluation verision) which its conformer generator is not active?

Hi guys, Since I dont have an access to commercial software, I am going to use LigandScout (Evaluation version) for deriving ligand-based pharmacophore Unfortunately for this trial version,...

16 July 2016 8,411 6 View

Structure-based pharmacophore modeling using LigandScout?

Hi guys, I have a question related to structure-based (SB) pharmacophore modeling using LigandScout. There is no PDB file for complex of protein and ligand of interest. In this situation I cannot...

11 July 2016 1,520 4 View

Why should we normalize microarray data-sets (with the same platform, two-color or one-color) with the same normalization method for meta-analysis?

Hi I have studied some papers on meta-analysis of microarray data. Some of authors recommend to normalize two-color data by lowess and one-color data with RMA algorithm. As we know lowess...

23 January 2016 4,784 8 View

Does anyone have experience with meta-analysis of microarray (and RNA-seq) data by R packages like MAMA?

Hi guys I am going to do a meta-analysis on microarray and RNA-seq data sets by R software. Anyone has working experience with MAMA package or another R packages for meta-analysis? And another...

13 January 2016 4,025 10 View

Does anyone have experience with Chimera software for RMSD calculation?

I am going to calculate RMSD between native (from PDB) and my docked complexes. I opened complexes in ArgusLab, removed their proteins, deleted all hydrogen (H) to have analogues with the same...

21 June 2015 9,037 9 View

Are series matrix files of microarray datasets in GEO ready(preprocessed) to use for comparison of missing value imputation methods?

Hi guys, I am going to compare my new missing value imputation (MVI) method with exsiting MVI procedures. I have downloaded series matrix files of different microarray datasets (like GSE3944,...

13 June 2015 3,212 4 View