Models

20 Models visible to you, out of a total of 23

The main goal is to provide a principled analysis workflow addressing specific issues of mass-spectrometry metabolite measurements in the context of testing in multiple studies with a high number of hypotheses

Shiny-Application of an analysis pipeline for preprocessing, association and covariate selection of metabolite data with clinical and lifestyle factors in one or more seperate studies. Preprocessing steps include transformation, outlier filtering and batch-adjustment. Analyses include uni-
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Creator: René Hänsel

Contributor: René Hänsel

This is a set of MATLAB procedures for automated segmentation and counting of macrophages in multiple IHC stained tissue samples.
Execution assumes that three aligned single-channel greyscale images of a given tissue area are available, representing IHC stainings with CD14 and CD163 antibodies (targeting macrophages) as well as DAPI staining (targeting cell cores). After detection of evaluation subregion (based on DAPI channel information), IHC stained macrophages will be masked and counted (based
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Creators: René Hänsel, Marcus Wagner

Contributor: René Hänsel

The platform is intended for visualization of expression- and mutation-driven changes in biological pathway activities in cancer datasets available in ICGC. The impact of somatic mutations on protein-protein interactions were calculated using Mechismo. Overall activity of biological pathway was evaluated using Pathway Signal Flow algorithm. The application provides interactive heatmaps for pathway output sink node activities and pathway images with mapped affected interactions and output node
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Creators: Christoph Beger, Siras Hakobyan

Contributor: Christoph Beger

The PREMM5 has been developed as a pretest to decide whether patients suspected of having Lynch syndrome should be tested for germline mismatch repair gene mutations. In contrast to "PREMM1,2,6" it can be used to predict mutation probabilities in unaffected index patients.
"PREMM5" is a logistic regression model. It calculates the risk of having a mutation in the mismatch repair genes MLH1, MSH2/EPCAM, MSH6 and PMS2 (for single genes and overall) based on the personal and familial cancer history
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Creators: René Hänsel, Kastrinos et al.

Contributor: René Hänsel

The PREMM1,2,6 has been developed as a pretest to decide whether patients suspected of having Lynch syndrome should be tested for germline mismatch repair gene mutations.
"PREMM1,2,6" is a logistic regression model. It calculates the risk of having a mutation in the mismatch repair genes MLH1, MSH2 and MSH6 (for single genes and overall) based on the personal and familial cancer history of the proband (colorectal, endometrial, and other Lynch syndrome related cancers).

Creators: René Hänsel, Kastrinos et al.

Contributor: René Hänsel

Motivation:
The eClaus model can be used to calculate mutation risks for BRCA1/2 as well as life-time risks for breast cancer in women from families with multiple and/or early onset cases of breast and ovarian cancer. The model can be used to assist genetic counselors in clinical decision making regarding genetic testing, intensified surveillance, and prophylatic surgery.

Description:
The Claus model is a genetic breast cancer risk calculation model assuming a single rare, highly penetrant gene.
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Creators: Christoph Beger, Claus, E.B. et al. (1991 and 1994)

Contributor: Christoph Beger

Motivation:
The "Manchester Scoring System" can be used to assist clinicians and genetic counselors in the clinical management of families suspected of having hereditary breast and ovarian cancer and to decide whether genetic testing should be performed.

Description:
The "Manchester Scoring System" is an empirical mutation risk prediction model. In its current form, a risk score for the identification of a pathogenic BRCA1/2 mutation is being calculated based on the number of breast and ovarian
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Creators: Christoph Beger, Evans, D.G. et al. (2009)

Contributor: Christoph Beger

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