User: pltbiotech_tkarthi

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Posts by pltbiotech_tkarthi

<prev • 64 results • page 2 of 7 • next >
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Comment: A: Number of species for positive selection analysis
... Hello rprog008, Do you have reference that suggest one should not use less than 10 species for Maximum Likelihood method? ...
written 7 months ago by pltbiotech_tkarthi170
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Answer: A: Help with mRNA region annotation
... You have answer from your statements itself as you mentioned the CDS:172-1443, then beyond these limits you should have UTRs at 5' and 3' ends of your mRNA as you have also given the UTRs positions. If you wish to confirm, you should also have genomic sequence to align your mRNA using tools like spl ...
written 7 months ago by pltbiotech_tkarthi170
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Answer: A: Number of species for positive selection analysis
... Maximum Likelihood is a best a method for selection and phylogenetic analysis. Increasing number of species obviously would increase the chance of having higher divergence for a particular ortholog, since you would have a higher chance of synonymous to non-synonymous variations (Ka/Ks). If Ka/Ks is ...
written 7 months ago by pltbiotech_tkarthi170
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Comment: A: finding transcription factors for a list of genes
... Try these tools: http://alggen.lsi.upc.es/cgi-bin/promo_v3/promo/promoinit.cgi?dirDB=TF_8.3 http://jaspar.genereg.net/search?q=&collection=CORE&tax_group=plants ...
written 8 months ago by pltbiotech_tkarthi170
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Comment: A: software for finding age of mutation
... Related post: https://www.biostars.org/p/368198/#368386 ...
written 8 months ago by pltbiotech_tkarthi170 • updated 8 months ago by zx87548.4k
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Comment: A: how find the putative gen from cdna library?
... Try ENSEMBL DNA or Protein BLAST servers and NCBI BLAST servers. Try also this : http://www.softberry.com/berry.phtml?topic=fgenes_plus&group=programs&subgroup=gfs ...
written 8 months ago by pltbiotech_tkarthi170
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Comment: A: Weighted sequence logos and motifs
... Have you tried this? http://fraenkel-nsf.csbi.mit.edu/webmotifs-tryit.html https://academic.oup.com/nar/article/35/suppl_2/W217/2923614 ...
written 8 months ago by pltbiotech_tkarthi170
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Answer: A: Two genes in one SNP
... According to NCBI Gene search, these two genes physically located at adjacent regions in chromosome 11. Concerning TaqI assay for rs1800497;ANKK1|DRD2 for an allele, a SNP polymorphism was observed around 10000bp downstream of DRD2 (at downstream after CDS region of DRD2), where ANKK1 kinase gene al ...
written 8 months ago by pltbiotech_tkarthi170
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Comment: A: How to get the pathway-protein relationship?
... You could try KEGG pathway: https://www.genome.jp/kegg/pathway.html ...
written 8 months ago by pltbiotech_tkarthi170
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Comment: A: how can i download list of genes
... You have to read scientific articles for genes information. Try this for genes involving in pathways of disease or other traits https://www.genome.jp/kegg/pathway.html ...
written 8 months ago by pltbiotech_tkarthi170

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