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Questions related to Bioinformatics
I have to add protease inhibitor and phosphatase inhibitor during cell lysis in a six well plate. How can i calculate the amount of protease and phosphatase inhibitor amount ?
08 March 2022 349 1 View
For my project I need to measure the OD600 of my bacterial cultures over time in 96 wells plates, but due to technical reasons my plates must be sealed. Therefore, I need a seal that allow gas...
07 March 2022 6,202 0 View
Hello, I am struggling to interpret couple of splice site mutations I have encountered and I would like to ask if there is a way to predict the outcome of a given splice site mutation (does it...
02 March 2022 8,013 1 View
Dear All, I am trying to simulate Fe hydrogenases. however, I am unable to parametrise the FeS clusters. There are 4 different types : Fe3S4, Fe4S3, Fe4S4 and Fe attached to Carbon and Nitrogen....
08 February 2022 8,677 3 View
I have the problem, like several other people before, that large proteins get lost during electrophoresis in the SDS PAGE gel. All protein bands below 80 kDa are perfectly separated as usual, the...
18 October 2021 6,118 8 View
Hi, I am looking for a tool (an online/free tool is better) to filter potentially problematic substructures. I found an online tool called "PAINS Remover" (https://www.cbligand.org/PAINS/) but...
12 October 2021 2,207 0 View
I want to identify gene duplication events of specific genes between particular plant species. I also want to calculate the Ka and Ks value between the duplicated genes. It would be a great help...
03 October 2021 6,976 3 View
Transition metals share close properties although have different response during photocatalytic degradation, which of them are best for photocatalytic degradation of aqueous organic pollutants?
30 September 2021 9,739 3 View
Currently I have the code to compare the ED50 values among different treatments = compParm(res2, strVal="e"). What would the code be for a different ED value?
29 July 2021 9,734 1 View
I am getting positive binding energy in Autodock. Is it alright?
08 July 2021 7,718 4 View
Dear experts, I am trying to set up my annealing protocol to make dsDNA out of 2 ssDNA oligos (29 nucleotides each). I have both oligos in the same 100 uM concentrations and use 40 ul of each....
07 July 2021 5,750 1 View
Good morning to everybody, I am working on article with tobacco and Arabidopsis genomic data and. Does anybody know database, server, or programm where I could find orthologs of Arabidopsis...
05 July 2021 7,032 2 View
I have installed the tool Raccoon in ubuntu. I was able to open it and load ligands, receptors , grid and dpf files successfully. However, I could not able the run the command ./RunVS.sh as it...
27 June 2021 788 0 View
I have a 600Mb genome assembly and I'm trying to annotate it. I used mercator, Pokka and RastK, but it's either not compatible or the sequences are larges.
18 June 2021 1,457 4 View
I have the Chip Peak calling sequence data for a gene, and I need to find out Transcription factor binding site at the promoter region of a gene. I have selected the EMSA to find out whether to...
11 June 2021 8,619 3 View
Our power supply we were using to do overnight transfers is broken, and unfortunately was discontinued. For western blots, we transfer overnight in the cold room at 4C with a constant current of...
03 June 2021 7,325 1 View
For PTM site prediction through In Silico method, I try to use this server but it is not responding. Please help me to solve the problem. Thanks in advance.
23 May 2021 2,852 4 View
In western blot, primary antibody usually incubates overnight at 4°C. But the signal after incubation for 1-2 hours at room temperature is also strong enough to detect. If I incubate at room...
13 May 2021 1,727 3 View
one of my student wants to do Pulso-Typing of clinical isolates of S.typhi. i would like to know where this facility is available in Pakistan.
20 April 2021 5,441 0 View
Hello. Everyone. I'm struggling to find some effective methods for detecting mutations in a plant genome or gene level, using mutated plant lines, without WGS or NGS. Is there any recommended...
29 March 2021 2,943 10 View
hi every one I choose a virus to do bioinformatic for it. it has a lot of protein. how should i choose one of them to do docking and MD for? how should i understand which protein is better than...
13 March 2021 5,128 6 View
Hi everybody In the ped format for genotype, alleles of any SNP are represented by two columns (one for each allele, separated by a space). Is a column sufficient for the haplotype to...
28 February 2021 2,537 1 View
I am currently working on gene clustering based on co-expression pattern in mouse brain. The problem is I do not have some solid way to test my result. Are there any suggestions for databases...
23 February 2021 4,915 3 View
Hi everyone, I am working with data obtained from the Geo (NCBI). This data is gene expression found with the Affymetrix Human Genome U133A Array and is analysed to get a log2 from the raw data...
23 February 2021 9,190 3 View