• SpiderSeqR : R package to automate searching​ and collection of high-throughput multi-omic data-sets from NCBI SRA and GEO.

      Sozanska et al., 2020 bioRxiv

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• Pangaea : A modular Natural Language Processing toolkit for high-throughput mining of biomedical literature.

      Pirvan and Samarajiwa, 2020 bioRxiv

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• Remoat : Microarray platform re-annotation resource (website code base)

      Barbosa-Morais et al., 2009 Nuc. Acids Res.

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• Interferome : Data-resource for type I,II and III Interferon (IFN) target gene identification. Samarajiwa et al., 2009, Nuc. Acids Res.

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• Rcade: R/Bioconductor package for TF direct target identification. Collaboration With Dr Jonathan Cairns and Prof. Simon Tavaré. Kirschner et al., PLoS Genet. 2015

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Under peer review:

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• COBRA-tft : TF direct target identification by integration of ChIP-seq datasets and RNA-seq data

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• ISGverse : A collection of reliable IFN regulated genes identified using RNA-seq data integration and a bespoke statistical method.

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Machine & Deep Learning models:

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• Piranha: ML/DL model for chromatin structure prediction. Martens et al., 2020

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• EMethylNET: ML/DL model for cancer detection. Newsham et al., 2020

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• MethylBoostER: ML model for renal cancer subtype detection. Rossi et al., 2022

  • data​

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Coming Soon:

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• FRoGS 

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• InterferonScape 

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• Senesceome-KG

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