supplementary information

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associated with our publications

Korsching

Concerning submitted manuscript

Eberhard Korsching, Julian Matschke, Marc Hotfilder.

Splice variants denote differences between a CSC side population of EWSR1-ERG based sarcoma cells, its main population and EWSR1-FLI based cells.

Submitted to IJMM.

The manuscript is accompanied by

Supplementary_File_1 (0.6 MB).
Further_Information_S1_S2_S3_S4 (13 MB).
Supporting_R_workspace (86 MB).

Hotfilder

Concerning publication

Marc Hotfilder, Nikhil Mallela, Jochen Seggewiss, Uta Dirksen, Eberhard Korsching.

Defining a Characteristic Gene Expression Set Responsible for Cancer Stem Cell Like Features in a sub-population of Ewing Sarcoma Cells CADO-ES1.

Int. J. Mol. Sci. 2018, 19, 3908.

Expression data is submitted to ArrayExpress

Supporting information (1.2 MB) accompanying the article.

Gharbi

Concerning publication

Sedigheh Gharbi, Shahriar Khateri, Mohammad Reza Soroush, Mehdi Shamsara, Parisa Naeli, Ali Najafi, Eberhard Korsching*, Seyed Javad Mowla*.

MicroRNA expression in serum samples of sulfur mustard veterans as a diagnostic gateway to improve care.

PLoS One. 2018 Mar 22;13(3):e0194530.

qPCR data is submitted to GEO
or download it from the github repository.

Supporting information (1 MB).

Schaefer

Concerning publication

Christiane Schaefer*, Nikhil Mallela*, Jochen Seggewiss, Birgit Lechtape, Heymut Omran, Uta Dirksen, Eberhard Korsching, Jenny Potratz.

Target Discovery Screens Using Pooled shRNA Libraries and Next Generation Sequencing: a Model Workflow and Analytical Algorithm.

PLoS One. 2018 Jan 31;13(1):e0191570.

Use the ProFED web application and search for profile patterns in experimental designs.

Alternative: local download or github.

Boecker

Concerning publication

Boecker F, Buerger H, Mallela N,
Korsching E.

TMAinspiration: Decode interdependencies in multi-factorial tissue microarray data.

Cancer Informatics. 2016;15:143–149.

Download page.

TMAinspiration was listed in OmicTools from January 19, 2017 to 2020, when the omicX project led by Vincent Henry et al. has ended and the website has shut down.

Poos

Concerning publication

Poos K, Smida J, Maugg D, Eckstein G, Baumhoer D, Nathrath M, Korsching E.

Genomic heterogeneity of osteosarcoma - shift from single candidates to functional modules.

PLoS One. 2015 Apr 7;10(4):e0123082.


Download
OS_network_data.cys (0.4 MB)
R scripts (25 KB)
RMA normalized expression data (8.6 MB)
or use the github repository.

Poos

Concerning publication

Poos K, Smida J, Nathrath M, Maugg D, Baumhoer D, Neumann A, Korsching E.

Structuring osteosarcoma knowledge: an osteosarcoma-gene association database based on literature mining and manual annotation.

Database (Oxford). 2014 May 27;2014. pii: bau042.


DATABASE link

Poos

Concerning publication

Poos K, Smida J, Nathrath M, Maugg D, Baumhoer D, Korsching E.

How MicroRNA and Transcription Factor Co-regulatory Networks Affect Osteosarcoma Cell Proliferation.

PLoS Comput Biol. 2013 Aug;9(8):e1003210.

View the supplementary networks:
The Metabolic (C1) or the Signaling (C2)
microRNA and TF co-regulatory networks
or download the modules:
Met_cluster_1.cys (0.6 MB)
Sig_cluster_2.cys (1.2 MB)
You might want to use Cytoscape.

Hungermann

Concerning publication

Hungermann D, Schmidt H, Natrajan R, Tidow N, Poos K, Reis-Filho JS, Brandt B, Buerger H, Korsching E.

Influence of whole arm loss of chromosome 16q on gene expression patterns in oestrogen receptor-positive, invasive breast cancer.

J Pathol. 2011 Aug;224(4):517-28.


Download
JP_supplementary_data.zip (14.2 MB)

Korsching

Concerning publication

Korsching E, Agelopolous K, Schmidt H, Buchroth I, Gosheger G, Wulfing P, Boecker W, Brandt B, Buerger H.

Improvements in the analysis strategy make single nucleotide polymorphism analysis a powerful tool in the detection and characterization of amplified chromosomal regions in human tumors.

Pathobiology. 2006;73(1):18-25.

Download
SNPtool.zip (4.3 MB)