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Questions related to Bioinformatic Tools
I am looking to validate the information generated from metagenomic sequencing. I know that I can carry out qPCR to validate my data. And I guess Random forest regression analysis can be done too....
04 April 2019 7,205 1 View
I’ve used the same normalization and chip to search a gene expression in R2 Genomics Analysis and Visualization Plataform, but I have compared very different cells (like lung cancer and melanoma)....
04 April 2019 7,061 1 View
i want study cancer genome by bioinformatics tools. can advice me in articles or review paper can guide me to do my research.
04 April 2019 5,086 5 View
I’ve read an article where authors analysed some gene expression using MeV and they said that the ”datasets were normalized by the average expression across all samples”. Then, they have used...
04 April 2019 1,648 0 View
I am working on single nucleotide polymorphism studies in Formalin fixed tissues , i want to know how i can find out my selected SNP'S whether its a Germline or somatic?? is there any online...
04 April 2019 1,561 5 View
I performed a large scale methylation analysis by RRBS-Seq on Infinium Human Methylation 450K BeadChip platform with generated raw data in FASTQ format. What are the main steps to do the...
04 April 2019 6,324 4 View
I am aware that TGF-beta (in combination with IL-6) can promote Th17 (and Treg) differentiation, while inhibiting Th1 and Th2. Yet, I wonder if Th17 can produce this cytokine at steady state...
03 April 2019 4,755 3 View
I am dealing with a predicted 40 kDa MAP kinase in WB. I don't have access to LC/MS to make sure of its MW, so I rely on that of the strongest band detected (I'm not worried about faint ones...
27 March 2019 5,840 2 View
hi, I am trying to pull down methyl rich genomic regions using MedIP, but my negetive control ( igG ) shows equivalent enrichment as test. I isolate genomic dna, sonicate it using diagenode...
25 March 2019 963 1 View
I have a 16S rRNA gene sequence of a bacteria. I wish to identify the organism with the help of phylogeny tree. I tried different alignments such as CLUSTALW and MUSCLE for multiple sequence...
13 March 2019 5,258 5 View
After running cufflink for two samples of RNA-Seq data, I used cuffmerge and executed the following command cuffmerge -o -g -s assemblies.txt Where assemblies.txt contains the...
12 March 2019 678 3 View
Recently, I have got my NGS results for 5 bacterial samples; 5 files for each sample (R1.fasatq, R2.fastaq and SNP indel excel file). I tried using HGTector tool ( Article HGTector: An automated...
03 March 2019 9,178 4 View
I have a vast collection of peptide sequences from a proteomics analysis and I would like to match them to the corresponding exons. Does anyone know a user friendly tool/software to do this in a...
03 March 2019 2,551 5 View
Hello, I performed docking for my antibody-antigen complex using Z-dock. Is there any software that I can use to analyse the result of my docking by telling me the exact interacting residue and...
24 February 2019 5,992 3 View
I have tried ProtIdent but could not rely on it completely
18 February 2019 5,992 3 View
I need an integrated platform for the analysis of my untargeted metabolomics data with other omics databases .
08 February 2019 3,714 4 View
I used CRISPR/Cas9 to cut the FOSL1 gene within the last Exon and 3' UTR. RT-qPCR and Western Blot Analysis revealed downregulation of mRNA and protein. How can I find out which exact regulatory...
02 February 2019 3,887 3 View
I have a sequence for a coiled coil and I wish to build a homology model for it. The coiled coil is a homo tetramer with each chain containing 8 repeats of the same alpha helical sequence. There...
02 February 2019 5,538 5 View
02 February 2019 4,694 7 View
I want to design a vector for the CRISPR Case9 for that I am looking for bioinformatic tools which can help be to design my vector for CRISPR and that tool should be user friendly, Unfortunately...
02 February 2019 4,940 2 View
02 February 2019 8,199 4 View
02 February 2019 7,512 3 View
i have amino acid sequence of protein and I am looking for a free tool can predict the 3d structure, also i have the aptamer of this protein and i want to know how they bind with each other ?
02 February 2019 682 6 View
01 February 2019 7,747 3 View