3dgnome.cent.uw.edu.pl

3D-GNOME - 3D chromatin organization webserver

3D-GNOME - 3D chromatin organization webservice. 3D genome organization plays a critical role in its functioning. The recent advent of Chromosome Conformation Capture (3C) based techniques such as ChIA-PET and Hi-C allows us to investigate this organization by means of either creating a contact map (or heatmap) representing the frequency of interactions between pairs of genomic loci, or by identifying a set of strong, confident interactions. Laboratory of Functional and Structural Genomics, CeNT, 2016.

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3D-GNOME - 3D chromatin organization webserver | 3dgnome.cent.uw.edu.pl Reviews

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3D-GNOME - 3D chromatin organization webservice. 3D genome organization plays a critical role in its functioning. The recent advent of Chromosome Conformation Capture (3C) based techniques such as ChIA-PET and Hi-C allows us to investigate this organization by means of either creating a contact map (or heatmap) representing the frequency of interactions between pairs of genomic loci, or by identifying a set of strong, confident interactions. Laboratory of Functional and Structural Genomics, CeNT, 2016.

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6 tutorial

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3D-GNOME - 3D chromatin organization webserver | 3dgnome.cent.uw.edu.pl Reviews

https://3dgnome.cent.uw.edu.pl

3D-GNOME - 3D chromatin organization webservice. 3D genome organization plays a critical role in its functioning. The recent advent of Chromosome Conformation Capture (3C) based techniques such as ChIA-PET and Hi-C allows us to investigate this organization by means of either creating a contact map (or heatmap) representing the frequency of interactions between pairs of genomic loci, or by identifying a set of strong, confident interactions. Laboratory of Functional and Structural Genomics, CeNT, 2016.

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3D-GNOME - 3D chromatin organization webserver

http://3dgnome.cent.uw.edu.pl/about

If you have any problems, questions or suggestions please do not hesitate to contact us. We can be reached at przemek.szalaj@uhasselt.be and d.plewczynski@cent.uw.edu.pl. Server design and development, 3D simulations. Przemek graduated from the Warsaw University of Technology with a MSc degree in Computer Science. Currently he is a PhD student at the joint biostatistics and medical biology program of Medical University of Bialystok (Poland) and Hasselt University (Belgium). Server design and deployment.

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3D-GNOME - 3D chromatin organization webserver

http://3dgnome.cent.uw.edu.pl/models

3D-GNOME - 3D chromatin model viewer. Here we present the models for several cell lines obtained from our modelling software. Laboratory of Functional and Structural Genomics, CeNT, 2016. Centre of New Technologies.

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3D-GNOME - 3D chromatin organization webserver

http://3dgnome.cent.uw.edu.pl/browser

Here you can visually browse the clusters from the default dataset or from your own files. You can also create and/or adjust segment split and save it a local file, which can be later used when submitting a job request. Please see Help. Or upload your own data ( format description. Laboratory of Functional and Structural Genomics, CeNT, 2016. Centre of New Technologies.

4

3D-GNOME - 3D chromatin organization webserver

http://3dgnome.cent.uw.edu.pl/request

Please specify the region you want to analyze (eg. "chr1:8966211-11059337"). You can also upload your own data. And modify the modelling settings. Select your data files (please see What are singletons and clusters? And Submitting custom data. If left empty, the default dataset will be used. Use CTCF motif orientation. Laboratory of Functional and Structural Genomics, CeNT, 2016. Centre of New Technologies.

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3D-GNOME - 3D chromatin organization webserver

http://3dgnome.cent.uw.edu.pl/tutorial

In this short tutorial we will describe how you can use the 3D-GNOME web server and demonstrate the sample results. Suppose that we are interested in a 8966211-11059337 region of chromosome 1. To start go to the New request. Page There is a number of options available there, but it is enough to provide the genomic region of interest. Enter the value "chr1:8966211-11059337" in the Region to reconstruct. Field and click the Send request. Means that the request was sent, Started. Fig 1 Graphical representat...

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3D-GNOME - 3D chromatin organization webserver

3D-GNOME - 3D chromatin organization webservice. 3D genome organization plays a critical role in its functioning. The recent advent of Chromosome Conformation Capture (3C) based techniques such as ChIA-PET and Hi-C allows us to investigate this organization by means of either creating a contact map (or heatmap) representing the frequency of interactions between pairs of genomic loci, or by identifying a set of strong, confident interactions. Laboratory of Functional and Structural Genomics, CeNT, 2016.

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