splicecore software platform  (Envisagenics)

Journal: bioRxiv

Article Title: Development and validation of an AI/ML platform for the discovery of splice-switching oligonucleotide targets

doi: 10.1101/2022.10.14.512313

Figure Lengend Snippet: A. Overview of the SpliceCore platform, including SpliceLearn. Using RNA-seq data as its input, the SpliceCore platform performs de-novo transcript assembly using an exon-centric reference transcriptome called TXdb. It integrates several AI/ML algorithms that allow for modular data analysis and is implemented on the Microsoft Azure cloud to efficiently scale resources. SpliceLearn takes disease-specific AS events identified by SpliceCore and uses a novel AI/ML algorithm to identify functional binding sites for SSOs. B. SpliceLearn was trained on splicing regulatory information including SF binding profiles to RNA as well as SF-SF interactions using tree-based learning for upstream introns, exons and downstream introns independently.

Article Snippet: The SpliceCore software platform is Envisagenics’ proprietary technology for the discovery of splicing-modulatory drug targets using RNA-seq data.

Techniques: RNA Sequencing Assay, Functional Assay, Binding Assay

Journal: bioRxiv

Article Title: Development and validation of an AI/ML platform for the discovery of splice-switching oligonucleotide targets

doi: 10.1101/2022.10.14.512313

Figure Lengend Snippet: A. Overlap of AS changes across breast cancer tissue types in TCGA. B. Overlap of AS changes identified in TCGA and in-house cell-line RNA-seq data C. Top seven SpliceCore targets identified in TNBC. The table shows dPSI values for basal vs. luminal tumor cross-comparisons, prevalence across 169 TNBC samples, function of the target candidates, and RT-PCRs with AS changes.

Article Snippet: The SpliceCore software platform is Envisagenics’ proprietary technology for the discovery of splicing-modulatory drug targets using RNA-seq data.

Techniques: RNA Sequencing Assay

Journal: Cell reports

Article Title: Differential Functions of Splicing Factors in Mammary Transformation and Breast Cancer Metastasis

doi: 10.1016/j.celrep.2019.10.110

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Differential Splicing Analysis We used the SpliceCore® software platform ( https://www.envisagenics.com/platform/ ) to identify cancer-related differential splicing events (DSEs).

Techniques: Recombinant, SYBR Green Assay, MTT Assay, Sequencing, shRNA, Software