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Omics Technologies

Technological platforms for high-throughput analysis of transcripts and proteins enable characterization of disease phenotype. By mapping the building blocks in healthy humans on the macro-scale in tissue and organs, and on micro-scale in single-cells.

Proteome analysis was employed on a whole anatomic level and published through the Human Protein Atlas portal . Until today, more than 17,000 proteins have been profiled to describe the human proteome. Expression of genes was mapped on transcript level using RNA-seq and on protein level using Immunohistochemical staining of 66 different cell types, immunofluorescent microscopy of cell lines for detection of 16 subcellular localizations. Aiming to confirm and complement the proteomics data I have developed RNA-seq analysis methods for characterization of the human proteome. In addition I have contributed to the design of an interactive database for exploration of the human proteome from single proteins to tissue composition as a research resource.

Publications

  1. Kennedy SA, et al. 2020. Extensive rewiring of the EGFR network in colorectal cancer cells expressing transforming levels of KRAS G13D. Nature Communications 11 (1), 1-14.

  2. Charitou T, et al. 2019. Transcriptional and metabolic rewiring of colorectal cancer cells expressing the oncogenic KRASG13D mutation. British J Cancer. 521:1.

  3. Fasterius E and Al-Khalili Szigyarto C (2018) Analysis of public RNA-sequencing data reveals biological consequences of genetic heterogeneity in cell line populations. Sci Rep, 8: 11226.

  4. Fasterius E, et al. 2017. RNA-sequencing data analysis for cell line authentication. PLoS One. 12(2): e0171435, DOI: 10.1371/journal.pone.0171435.


  5. Uhlén M, et al. 2015 Proteomics. Tissue-based map of the human proteome. Science. 23; 347:1260419. doi: 10.1126/science.1260419.

  6. Wein N, et al. 2014. Translation from a DMD exon 5 IRES results in a functional dystrophin isoform that attenuates dystrophinopathy in humans and mice. Nat Med. doi: 10.1038/nm.3628.

  7. Fagerberg L, et al. 2014 Analysis of the Human Tissue-specific Expression by Genome-wide Integration of Transcriptomics and Antibody-based Proteomics. Mol. Cell. Prot. 13:397-406.