Originally posted by GenoMax
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@Yangan: Since your CLC license includes free tech support you may want to contact them about this question (I assume you want to do this within CLC). They may need to provide you with a plugin or custom code to do the action you are referring to.Leave a comment:
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How to extract nucleotide sequeces from tblastx table
Hi there,
I am a new learner of bioinformatics.
I used Trinity to do de novo transcriptome assembly then imported the assembly.fasta file into CLC genomeworkbench 7.0.3 to run tblastx using this assembly file as local database while using all P450 cDNA of Arabidopsis as queries. Next step I would like to map reads to these contigs with hits. However, I don't know how to seive all the contigs with hits (nucleotide sequences) out after using tblastx since all sequences were translated in to amino acid sequences.
I tried "Toolbox-Classical Sequence Analysis-General Sequence Analysis-Extract sequence", but only amino acid sequences were obtained. I could also extract the nucleotide sequence of a single contig every time, but there are thousands of contigs with hits in my case.
Anyone knows how to achieve that?
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The field of immunogenetics explores how genetic variations influence immune responses and susceptibility to disease. In a recent SEQanswers webinar, Oscar Rodriguez, Ph.D., Postdoctoral Researcher at the University of Louisville, and Ruben Martínez Barricarte, Ph.D., Assistant Professor of Medicine at Vanderbilt University, shared recent advancements in immunogenetics. This article discusses their research on genetic variation in antibody loci, antibody production processes,...11-06-2024, 07:24 PM -
Next-generation sequencing (NGS) and quantitative polymerase chain reaction (qPCR) are essential techniques for investigating the genome, transcriptome, and epigenome. In many cases, choosing the appropriate technique is straightforward, but in others, it can be more challenging to determine the most effective option. A simple distinction is that smaller, more focused projects are typically better suited for qPCR, while larger, more complex datasets benefit from NGS. However,...10-18-2024, 07:11 AM
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