I am working on Transposeq tool. Any help is much appreciated.
http://www.broadinstitute.org/cancer/cga/transposeq
Sorry! I don't work with this tool.
To identify the gain/loss of genes in a set of species? For example, I am interested in identifying the list of tRNA genes which are gained or lost among different strains of bacterial species or...
05 June 2013 5,718 4 View
Is there any tool to identify it or Is there any database with relevant information on it?
02 March 2013 3,400 30 View
For example, some bacteria that thrive in extreme salt water environment will have different pH from other bacterial species in other environments. Is there any database available with these values?
01 February 2013 3,449 0 View
Do early proteins represent highly expressed proteins and late proteins represent lowly expressed proteins? Am I correct? Is there any reliable source? On what basis the proteins are decided that...
31 December 2012 4,231 1 View
I am trying to find, is there is any statistical difference between these two sample groups of data. For example, GCC(A) codon is highly over used in group1 compared to group2. How to get p...
10 November 2012 4,638 6 View
So first I am doing ANOVA to find any differences between the groups (i.e. between 2/3/4-fold codons) and if the difference is significant then using “Tukey’s method” for carrying out multiple...
10 November 2012 6,433 0 View
Correspondence analysis (Multi variate analysis) Currently I am planning to learn correspondence analysis (CA) for my research work. Can anybody teach me how to perform CA and mainly how to...
07 August 2012 1,224 12 View
Is there any database or research team working on developing a database of all temperature-related data for all types of bacteria?
07 August 2012 6,368 18 View
If the above concept is explained in biological example, it will be more helpful for me.
05 June 2012 1,374 3 View
For any species?
05 June 2012 9,708 4 View
I have reverse sequences (AB1 format), can I base on reverse DNA sequences to perform nucleotide alignment, convert nucleotides to amino acids and deposit the sequence in GenBank database?
11 August 2024 5,138 1 View
I'm cloning a fragment of 3200 nts into plasmid. The cloning was successful, however, 02 amino acids were mutated. Now I want to fix these 02 aa by site-directed mutagenesis technique using...
08 August 2024 4,645 2 View
I have been attempting to extract DNA from Bacterial, Fungal and Yeast banked samples (>1e7 cells) using Prepman Ultra reagent and I seem to be struggling to obtain a sequence. Although the...
01 August 2024 2,079 0 View
Hi all. As a beginner in ChIP-seq experiments, I hope you understand that the following questions might be somewhat basic. I am planning to perform ChIP-seq or MeDIP-seq analysis to investigate...
28 July 2024 6,938 1 View
Gene sequencing related trouble shooting
25 July 2024 4,149 2 View
In running two-dimensional gel electrophoresis on bacterial protein, some spots that appear to match a protein sequence have a significantly more acidic isoelectric point than the calculated pI....
24 July 2024 8,076 3 View
Hello researchers, Sorry for my stupid question. I am learning the QIIME2 workflow for analyzing some 16s amplicon NGS fastq data. I found a very nice paper with data and code public available...
20 July 2024 5,405 2 View
Hello all, I extracted RNA from my samples and performed RIP-seq. After annotating the genomic regions using R, I obtained promoters, exons, introns, and UTRs. Given that my samples consist of...
18 July 2024 1,579 2 View
Hi everyone, I am working on a hybridization chain reaction (HCR) and trying to visualize it with gel electrophoresis. The visualization of the HCR works but for the single components of this...
07 July 2024 9,413 4 View
I have DNA samples (extracted by using Qiagen kiit), the 260/280 ratio is consistence 2.1.. for most of the samples. Can I proceed for the whole genome sequencing with these values? NGS.
07 July 2024 3,751 4 View