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Questions related to Bioinformatic Tools
Looking for tools with proved accuracy to detect ploidy levels in microbial whole-genomes.
15 October 2020 4,624 3 View
Hello, I am working on drawing a phylogenetic tree with samples sharing some somatic mutations. The basic process of my work is similar to this article. Population dynamics of normal human blood...
15 October 2020 8,404 4 View
Hello all, I am trying to choose torsions for an acyl complex, specifically a bond between a carbon and a cysteine sulfur. I can use the addBond command to create the bond, but the 'Choose...
14 October 2020 3,769 0 View
the 2nd protein is of particular interest as it have two forms. their is an experimental hypothesis that its one form can lead to its self degradation in vitro taking it down from bound complex...
06 October 2020 8,578 1 View
How can I add atomic parameters for the ions Europium (Eu3+) and Americium (Am3+)
05 October 2020 2,337 6 View
The mutations in question are variants of the SARS-CoV-2 reference genome (MN908947.3 NCBI reference) – the first isolate from Wuhan (Wuhan-Hu-1).
05 October 2020 1,939 4 View
What does it mean that The same number of decimals after the "." does not mean the same number of significant figures. (41.5821 = 6 significant figures; 0.0010 = 1 significant figure)?
05 October 2020 9,929 3 View
Based on the protocol specified by CLSI that most clinical laboratories follows for disk diffusion testing.
04 October 2020 7,067 3 View
Dear fellows, I am wondering about, how many bioinformatic tools are required to declare a variant as pathogenic and deleterious?
03 October 2020 6,879 3 View
Hello, I would really apreciate if you recommend some free and friendly bionformatic program to determine if a group of genes obtained by microarray are cancer asociated genes? Greetings and...
24 September 2020 7,812 3 View
I want to use data from TCGA available on cbioportal to perform some statistic analysis (e.g: correlation between mRNA of a certain gene and survival data, correlation between the mRNA levels of...
24 September 2020 1,395 4 View
Dear Scholars, I working on my PhD at the moment and part of my model development involve The Elaboration Likelihood Model (ELM) . I have gone through several research article but unable to find...
22 September 2020 9,706 2 View
I got LC MS/MS data of two different species of animals, How I can calculate difference in protein concentration,when I compare same protein of both species.
21 September 2020 2,517 3 View
Is there any bioinformatics tool that automatically detects the possible occurrence of any type of post-translational modification (PTM) in a given peptide PDB file or in a given peptide as a...
10 September 2020 6,765 1 View
I have 8 IV and 1 DV, they are all dichotomous and categorical data, so I am using Cross-tabulation Chi-square test. So 8 tests conducted. All test have at least one expected count less than 5. So...
30 August 2020 9,945 9 View
The expected peak is around 470bp, but the second peak appears in 900bp and 1100bp. Sequencing result was
18 August 2020 8,699 0 View
There are many tools to identify the protein target for a ligand. When I start with a protein, what are the best tools to figure out the possible chemical ligand for this protein?
10 August 2020 9,280 3 View
Find the difference from multiple views
06 August 2020 7,073 4 View
I was trying to find a plasmid origin of replication, ori-finder did not find it, and also I tried to blast against their database and try to align to other similar bacteria, but with no...
04 August 2020 5,278 8 View
We read that NK cells are CD 3- and CD 56+/CD 16+. Recently I and across two IVD approved kits from two manufacturer for lymphocyte subset assay. Kit from BD (cat no. 644611) have CD16/CD56+...
04 August 2020 9,467 5 View
I am looking for a recent diagnosis for chikungunya virus through computational biology techniques.
23 July 2020 1,253 3 View
Hello, Anybody know if adherent cells (I am using U2OS, but any general information is helpful) progress through the cell cycle when detached from the dish (I use trypsin). I want to start...
16 July 2020 9,387 4 View
Hi, I am working on molecular validation of co-expressed genes in Rice under moisture stress. I have a list of genes that are co-expressed in three rice varieties, under a particular set of...
13 July 2020 7,831 1 View
I am trying to use GPU Accerlation for GROMACS 2020.3. I have installed cuda 11.0 and my NVIDIA graphics card driver is gt-force mx130 and i am running ubuntu 20.04 but when i run the command :...
10 July 2020 8,151 4 View