Curator Dashboard

Software tool that estimates accumulated functional impact bias of somatic mutations in any genomic region of interest based on local simulation of the mutational process affecting it.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software application to detect significant clustering signals across genomic regions. Sequence-based clustering method to identify cancer drivers.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software tool designed to detect rare cancer driver genes from aggregated whole-exome sequencing data.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software tool for detecting microsatellite instability by next-generation sequencing.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software tool for automatic and comprehensive knowledge extraction based on mutational data from sequenced tumor samples from patients. Summarizes somatic mutations, genes and pathways involved in tumorigenesis.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software tool for detection and analysis of homologous recombination events.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software tool to detect somatic mutation hotspot regions in 3D protein structures.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software R package for analysis of mitochondrial DNA using sequencing data. Used for analyzing mtDNA single nucleotide variants and copy number variation. It has two components, mitoCaller and mitoCalc/fastMitoCalc.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software R package containing methods for sub-clonal reconstruction through SNVs and/or CNAs from whole genome or whole exome sequencing data.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software application to group genetic structural variant rearrangements into rearrangement clusters and footprints. Used in the PCAWG-6 project.

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• RRID
• 8 months ago - submitted by Richard Culliford

Software R package for clustering and estimating cancer cell fractions (CCF) of somatic variants (SNVs/SVs) from bulk whole genome/exome data. Used for estimating cancer cell fractions .

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• RRID
• 8 months ago - submitted by Richard Culliford

Core provides VisualSonics Vevo 3100 high-frequency ultrasound imaging unit, small animal imaging station, micro-injection system, anesthesia unit; Linear array transducers (MX250, MX550D, MX700); VevoLab use.

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• RRID
• 8 months ago - by Anonymous

Software RNA-seq analysis pipeline that provides quantitative and locus-specific picture of Transposable Elements expression.

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• RRID
• 8 months ago - by Anonymous

Web-based platform for interactive exploration of ribosome dynamics derived from 5′P mRNA degradome sequencing (5PSeq) data. Focused on changes in ribosome dynamics associated to mRNA decay that in some cases can be obscured in conventional ribosome profiling data.

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• RRID
• 8 months ago - submitted by Irene Stevens

Metabolomics and Machine Learning Core provides metabolite profiling and stable-isotope tracing, molecular modeling, and machine learning to integrate datasets across transcriptomic, proteomic, and metabolomic analysis.

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• SciCrunch
• 8 months ago - submitted by Edyta Vieth

Software application for visual analysis and diagnostic to facilitate machine learning model selection. Visualizing the Scikit-Learn Model Selection Process. Used to evaluate stability and predictive value of machine learning models and improves the speed of the experimental workflow. Provides visual tools for monitoring model performance in real world applications. Provides visual interpretation of the behavior of model in high dimensional feature space.

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• RRID
• 8 months ago - by Anonymous

Software application for object detection with Star-convex Shapes. Used for phase-contrast cell images.

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• RRID
• 8 months ago - by Anonymous

Software R tool for detection of homologous recombination deficiency from shallow whole genome sequencing. Used to assess Homologous Recombination Deficiency of tumor based on the number of Large-scale Genomic Alterations (LGAs).

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• RRID
• 8 months ago - by Anonymous

Chemiluminescence imaging analysis system designed for Western-Blot membrane imaging. High-megapixel camera provides high resolution images and deep-cooled CCD with low background noise improves image quality even in case of long exposure time. For detection of the very weak bands, you can choose multiple binning options of software, from 1x1 to 4x4 binning modes, which collect more signals as you need.

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• RRID
• 8 months ago - by Anonymous

Software tool as novel graph-based, cooperativity-led Markov chain model to exploit cooperativity of weak signals within cancer molecular network to enhance the signal of true molecular vulnerabilities. Used to identify molecular vulnerabilities from multimodal patient data.

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• RRID
• 8 months ago - by Anonymous