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Questions related to Bioinformatics
I have analysed some bioinformatically important information relevant to gene regulation. I want to publish it.
14 July 2020 8,566 3 View
What is the best approach to identify TFs in a non-model organism with limited homology to the closest model organism? Is predicting DNA-binding domains and assuming that most proteins containing...
10 July 2020 5,536 2 View
Hi everyone, We have sequenced genome of data of a comparatively less studied species using Pacbio long read sequencer. Now after initial assembly we compared the contigs with previous version...
26 June 2020 3,760 3 View
this is my first time doing bioinformatics, so a user friendly software would really be good. Thank you.
09 June 2020 7,027 15 View
How important is this in silico study?
05 June 2020 1,318 5 View
In-silico approaches have proved that computational tools can aid in designing effective vaccine candidates, within shorter spans. But without the laboratorial approval on these methods, the...
04 June 2020 10,050 54 View
Hi, currently I'm searching for an affordable laptop with minimum specs for bioinformatics. My work will be NGS analysis (ChIP-seq & RNA-seq) I believe that MacBook is the best choice, but I...
02 June 2020 2,091 4 View
I am currently working on developing a pipeline to optimize k-mer counting. I have some ideas, however, they would work only for small k-values. I am trying to figure out whether k-mer counting is...
23 May 2020 9,470 2 View
Dear all, I made a simple linear regression model with the same scale (i.e. X variables, and Y variable). I need to run this for each year. How to determine incremental significance of added IV's...
19 May 2020 5,193 4 View
I'm trying to find a bioinformatics/database resource besides something like malariatools, which has gene/protein function predictions based on genome loci context information, however databases...
15 May 2020 6,059 0 View
I'm trying to generate a fasta file from a reference including variants in a vcf file. I'm using bcftools and it works. My problem is that I would like to create a fasta where only the mutated...
14 May 2020 5,199 3 View
Whenever I try to add a reference fasta file for computing the GC content in the GetBamCounts function: my.countsV6
12 May 2020 5,365 5 View
I have generate indexes using bowtie2, the generated indexes are with *.bt2 not *.bt2l, so this gives error while generating indexes using tophat2. Can anyone help me to get rid of this error?
04 May 2020 9,978 0 View
The results show me the presence of plasmids, and compares them with plasmids from the database, but I can't find their locations, thank you!
17 April 2020 5,668 1 View
I want to download a specific gene from multiple genomes. In this case, I want to download just the S gene from different coronaviruses. I would like to be able to provide taxonomic IDs and the...
15 April 2020 4,634 5 View
I have differentially expressed circular RNA candidates. Are there any data, database or bioinformatical pipeline to extract circular RNAs can potentially be translated into proteins? Thank you!
11 April 2020 8,713 1 View
Grettings everyone. I'm analyzing transcriptomic data of a mollusc searching new Antimicrobial Peptides and i want to determine if they have putative transcription factor binding sites. Anyone...
23 March 2020 9,309 3 View
Hello everyone, These days I've read many papers regarding RNA-seq and its corresponding analysis, I found when it comes to assembly part, almost every paper would tell how many contigs and...
22 March 2020 3,184 2 View
Hi everyone; I need data on comparison of apolipoproteins expression in the normal liver. I want to know which type of the apolipoproteins is highly expressed than others in the normal...
16 March 2020 935 3 View
I'm identifying plant sequences (for rbcL gene) obtained from insect gut contents using BLAST in the NCBI GenBank database. Most of the sequences have 95-96% of matched identity and a few have of...
01 March 2020 8,351 4 View
I am finding it pretty difficult doing an online program. Does anyone know of any school offering a short program or continuing education in Bioinformatics?
28 February 2020 6,311 3 View
Suppose we have the following single nucleotide polymorphic variant: Reference DNA sequence S0 = G T G A C T G A G C C T Variant DNA sequences S1 = A T G A C T G A G C C T S2 = G A G A C T G A G...
02 February 2020 9,014 4 View
What common study types exist in NGS research and wide genome profiling related to risk assessment studies ? What are the appropriate publishing standards of reporting results from the above...
02 February 2020 7,053 4 View
Hello everybody, I am new with the meta-analysis in Genome Wide Data so I have this doubt. I have read METAL documentation, which is by far the most used meta-analysis software in both EWAS and...
02 February 2020 2,251 2 View