Shruti Bagla

8 Questions 11 Answers 0 Followers

Questions related from Shruti Bagla

How can we convert position of a nucleotide from cDNA to ORF to genomic seq?

I routinely use Mutation Taster to predict functional impact of a mutation in silico. However the input on MT is either ORF position, cDNA (transcript: ORF with UTRs) or genomic location on the...

11 July 2019 3,432 3 View

Can anyone help me with some sequencing analysis files?

Our lab outsourced whole exome sequencing to a company, and I received the analyzed files recently. I have always been a wet lab person, and do not understand most of the file types, and how to...

30 March 2018 5,780 5 View

How to test if two distant mutations are on the same allele?

I have two mutations(of interest) on a gene, one of which is in intron (splicing region) and another coding sequence. i want to check two things: whether the intronic mutation is resulting in a...

07 August 2017 2,654 3 View

What is the best marker to study Vascularization in Human cortex using RT-PCR?

We are interested in looking at vascularization and angiogenesis in some human brain samples. The ideal way would be to use immunostaining but our lab is not developed for IHC or any...

20 June 2016 547 1 View

How can I do S-TuD or siRNA treatment to study the effect on differentiation?

I want to study the effect of gene knockdown on differentiation. If I plate the cells for 4 hours, before adding the siRNA or S-TuD, and then add fresh media with retinoic acid to induce...

18 August 2015 1,394 3 View

How do you use Quinolinic acid for cell culture treatment?

I want to design an experiment where we treat the neuroblastoma with quinolinic acid. Has anyone done this? Or treatment of primary cultures with QA? Where do you buy QA? And how do you suspend...

08 May 2015 6,929 2 View

How do you account for cell confluency when performing knock down studies in differentiated vs undifferentiated cells?

I am trying to knock down a gene of interest using siRNA in SH-SY5Y cells. But the amount of siRNA I use is mostly based on the well surface area etc. I use 50pmol/well in a 6-well plate. So is it...

18 March 2015 4,603 3 View

Any suggestion for a transfection reagent for Sy5Y cells for siRNA transfection?

Hi, We have used FuGENE 6 (Promega) to transfect Sy5Y cells with plasmid DNA, but I just spoke to the promega tech support and they do not recommend FuGENE products or any of their transfection...

04 November 2014 4,524 2 View