Can someone suggest some literature on Genome Annotation?

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Is anyone familiar with protein isolation from Plant root?

Dear Friends, I am naive in fielf of Proteomics, I have been searching a protocol for isolation of protein from plant root and shoots. I want to do Protein estimation from isolated proteins. If...

10 November 2014 1,115 2 View

What would be the KEGG equivalent for drug information?

I have pathways from Blast2go tools and want to find my drug related pathways. My genome is resistant to a particular drug. Thanks in advance

01 February 2014 9,936 2 View

How can I assemble MiSeq reads?

I am new at sequencing platforms.

01 February 2014 9,912 4 View

Drug for snp

How to find a drug which is responsible for SMAD4 gene mutation of pancreatic cancer?

01 February 2014 8,772 2 View

Can someone help distinguish bwetween contigs, isotigs and singltons?

When I was reading research papers I found that output of blastx file give these type seqence but in my output I only got contigs. By the way I am not doing transcriptome analysis. I am analyzing...

01 February 2014 2,986 3 View

What is the maximum read depth in samtools?

I have a sorted.bam file but I want to generate a vcf file using samtools. I worry about how to set the Maximum Read Depth. I have searched on the net but they all are saying different things. As...

01 February 2014 3,222 1 View

Anyone know how to solve problem finding protein database for BLASTx ?

I have query file which i got from genemarkhmm tool and which is in nucleotide format. My problem is I want to run BLASTx but It gives me "No alias or index file found for protein database" error....

31 December 2013 2,502 7 View

Can soemone advise on the use of Genemark output?

I have used genemark tool for prediction of gene.

31 December 2013 5,153 6 View

How to remove duplicates and filtration from the Roche 454 sequence fasta file?

31 December 2013 7,552 3 View

How to find SNP and gene by NGS?

I am new in bioinformatics I want to find SNP which are present in S.pneumoniae resistant against ciprofoxcin. What should I do? How to start process?

11 December 2013 7,392 7 View

Can I base on reverse DNA sequences to perform alignment, convert to amino acids and GenBank submission?

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

How to confirm the site-directed mutagenesis result without performing NGS?

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

Why did the authors extrapolate a phenotype that they experimentally proved in one bacterial strain across the whole genus of the organism?

I aim to be as skeptical as possible regarding whether a pair of orthologous genes results in the same phenotype in their different but related bacterial organisms under similar environmental...

05 August 2024 6,787 4 View

Does anyone have issues using Prepman Ultra reagent for MicroSeq ID bacterial, fungal and yeast sample preparation?

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

Seeking Software Recommendations for SELEX NGS Data Analysis?

I am looking for software to help analyze SELEX NGS data, including alignment, sequence enrichment, and other related tasks. Can anyone recommend suitable tools or software? Best wishes, Waleed

30 July 2024 1,061 5 View

Could you try using PeptiCloud and see if it's a useful tool for biology research?

PeptiCloud (www.pepticloud.com) is a bioinformatic platform that allows researchers to organize and share their data for their projects as well as collaborate with others in one place. Through...

28 July 2024 4,762 2 View

Should the amount of DNA input used for ChIP-seq library preparation be matched between the control and experimental groups?

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

If my gene of interest has high GC content can it be problematic in sequencing? What kind of error is expected with GC rich gene sequences??

Gene sequencing related trouble shooting

25 July 2024 4,149 2 View

Does post-translational protein modification cause devisions on observed pI verses calculated pI?

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

Which software tools are best for enhancing diagnostic accuracy in chest X-ray imaging using image reconstruction and neural networks?

I am reaching out to seek your valuable advice and recommendations regarding the best software tools to use for this research. Specifically, I am looking for software with a user-friendly...

22 July 2024 3,794 1 View