Can we measure tumour volume or area from H&E stained slides?

I have H&E stained slides of lungs from mouse models of lung cancer. I was wondering if I can calculate tumour volume or area from the H&E stained slides. Thank you. Vrushali

08 September 2017 1,014 1 View

What are the parameters for selecting a transcription factor bound to promoter region when using PROMO:Alggen?

I am interested in finding transcription factors binding to promoter of a virus, Merkel cell polyomavirus. I got several factors with varying dissimilarity. Is there any criteria that can be used...

04 May 2016 632 2 View

How do I find promoter sequence of a viral genome ?

I want to align promoter sequence of a small T antigen and large T antigen of virus (merkel cell polyomavirus). I am aware that for human genome we generally subtract and add 1 kb from genome to...

09 October 2015 8,022 1 View

How to choose a journal to publish your paper?

I have some data from my MSc dissertation which I am thinking of publishing but I am not sure how to publish a paper eg how to choose a journal, impact factor etc. Can anyone provide...

01 February 2015 484 6 View

How much of Bioinformatics knowledge do I need to elucidate the functional effect of missense mutation?

I am a postgraduate student and have completed MSc in Medical genetics. I intend to apply for PhD in future and my current interest lies in analysing missense mutations for their pathogenecity. I...

31 December 2014 7,138 3 View

Does anyone have experience in generating workflow in CLC Genomics Workbench 7.5?

Hello everyone, I am supposed to use CLC Genomics workbench to perform trio analysis to find candidate gene responsible for rare disorder. Can anyone help me in generating Workflow in CLC Genomics?

09 October 2014 8,053 2 View

How can one perform trio analysis using CLC genomics workbench 7.5?

I have a exome sequencing data of parents and their child. We are trying to identify the candidate genes responsible for some abnormality.I have never used CLC genomics workbench. Do I need a...

09 October 2014 3,310 4 View

Computing h bonds in swiss pdb viewer?

I wanted to see the h bond interaction within a protein so I used swiss pdb viewer. Generally it gives only green dotted line as h bonds, but it also gave purple colored dotted line. Can anyone...

07 August 2014 1,714 1 View

Can anyone explain me the russell linding score?

07 August 2014 7,552 2 View

Is there any criteria to choose a chaperon to crystallize a intrinsically disordered region in a protein?

I read an article where an intrinsically flexible protein was crystallized using chaperon (here chaperon is a protein that helps to stabilize other protein) . i was wondering what would be the...

07 August 2014 7,548 5 View

error in running a model in Abaqus

Excessive rotation of nodes in node set ErrNodeExcessRotation-Step1

17 August 2021 0 0 View

error in modelling model in Abaqus

Excessive rotation of nodes in node set ErrNodeExcessRotation-Step1

17 August 2021 0 0 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

MGL tools

20 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

i have some problem with chtMultiRegionSimpleFoam

--> FOAM FATAL ERROR: Maximum number of iterations exceeded From function Foam::scalar Foam::species::thermo::T(Foam::scalar, Foam::scalar, Foam::scalar, Foam::scalar (Foam::species::thermo::*)(Foam::scalar, Foam::scalar) const, Foam::scalar (Foam::species::thermo::*)(Foam::scalar, Foam::scalar) const, Foam::scalar (Foam::species::thermo::*)(Foam::scalar) const) const [with Thermo = Foam::hConstThermo >; Type = Foam::sensibleEnthalpy; Foam::scalar = double; Foam::species::thermo = Foam::species::thermo >, Foam::sensibleEnthalpy>] in file /home/ubuntu/OpenFOAM/OpenFOAM-4.1/src/thermophysicalModels/specie/lnInclude/thermoI.H at line 66. FOAM aborting #0 Foam::error::printStack(Foam::Ostream&) at ??:? #1 Foam::error::abort() at ??:? #2 Foam::heRhoThermo >, Foam::sensibleEnthalpy> > > >::calculate() at ??:? #3 Foam::heRhoThermo >, Foam::sensibleEnthalpy> > > >::correct() at ??:? #4 ? at ??:? #5 __libc_start_main in "/lib/x86_64-linux-gnu/libc.so.6" #6 ? at ??:?

24 March 2021 0 0 View