Can any one help me to clear whether the reference genome of related species or transcriptome of the same species is best for novel miRNA prediction?

I have my plant small RNA data from illumina. Done all quality filtration steps and conserved miRNA predictions. Now I have to predict novel miRNAs. In order to align, reference genome is not...

01 February 2018 3,712 8 View

Pathway analysis of denovo assembled transcriptome data using Plantcyc database?

05 June 2016 5,036 6 View

Do any one have an experience in running MIRA for denovo transcriptome assembly?

I ran MIRA with 1.2 GB (after pre processing) of my plant ion proton transcriptome data in a 120 GB RAM system. We are working through a rented server. Currently it is running and generated...

02 March 2016 1,552 4 View

Can i use more background references for miRNA target prediction?

We identified conserved and novel miRNA from my plant samples (non model plant). The targets were predicted through psRNA target using Arabidopsis as the background reference but targets were not...

02 March 2016 6,703 3 View

How to perform pathway analysis for elucidating miRNA regulated pathways?

I have conserved and novel miRNAs of my plant samples and done the target prediction. Can any one please suggest me how could or any computational tools for analyzing the miRNA regulating pathways?

31 December 2015 9,723 9 View

Should I remove rRNAs from transcriptome data while moving on to Denovo assembly?

I have my transcriptome data of plant samples. Since the reference genome of my plant or its closest species is not available i have to go for denovo transcriptome assembly. Before assembly do i...

09 October 2015 7,192 7 View

Could any one help me in identification of novel miRNAs from plant species without a reference genome?

I am currently doing the NGS data analysis of miRNAs from my plant samples and after pre processing the reads were aligned against plant miRNAs from miRBase. In the proceeding step all paper...

08 September 2015 8,751 12 View

What is the characteristic length to determine the Reynolds number for the scattered turbulent fluid flow?

Dear all, I just saw this example in FB on the difference between laminar flow and turbulent flow. The flow from a pipe hits the sink and scattered. The flow from the pipe is characterized as...

02 March 2021 1,999 5 View

Issues with Permeabilization during Flow Cytometry?

Hello Everyone. Currently I am working to characterize macrophages in the myocardium after ischemia-reperfusion injury in rats. Due to the low total cell number isolated from rat hearts I can...

01 March 2021 3,867 3 View

Why do the air flow results vary totally when adding scalar in CFD ?

Dear All, We are using Autodesk cfd to calculate the air flow in a single sided naturally ventilated room, where air flow depends only on buoyancy due to temperature difference between inside and...

25 February 2021 9,602 4 View

Unknown debris sheets observed in cell culture flasks?

Hi, We culture neural progenitor cells in T175 culture flasks coated with PLO-Laminin. We have successfully grown these cells with our protocol for months. Recently, we observed large sheets...

25 February 2021 3,443 4 View

Why anti-CD20 or other antibodies are not used to label target cells in flow cytometry t-cell cytotoxicity assay?

New to the field of cell therapy. Why fluorescent-labeled antibodies to target cell antigens are not used for determining target cell count by flow cytometry in cytotoxicity assay (eg car-t)? Cell...

21 February 2021 3,278 3 View

How to calculate time-averaged fields from Ansys CFX solver?

I would appreciate any comments on the following problem. I need to calculate mean fields (e.g. pressure, velocity and vorticity), for which I activate Trn Stats tab in CFX-Pre. However, what I...

21 February 2021 8,548 7 View

Which software is best to analyse multi-phase fluid flows ?

Hello everyone, hope all is good. I want to analyse multi-phase fluid flow through pipe, which software is best to do so ?

21 February 2021 4,230 8 View

Can anyone help with an Accurate Diffuser Expansion Loss formula for rectangular shaped diffusers in turbulent flow regime?

I have tried Idelchik's Handbook of Hydraulic Resistance 4th Edition (2007 page 300) formulas and across some range the formulas are reported valid for, the law of conservation of energy is...

20 February 2021 2,504 1 View

Oil red O protocol for flow cytometry?

18 February 2021 4,214 3 View

How to read a flow cytometry graph detailing cell cycle?

Hello everyone, When determining cells in different stages of the cell cycle, cells are stain for Brdu and Propidium Iodide. I understand how PI can be used to discriminate between G1 and S/G2...

18 February 2021 3,920 3 View