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Lakritz zebrafish differential expression analysis.

This directory contains data and scripts used in the differential expression analysis between WT zebrafish and atoh7 -/- mutant (lakritz) reported by Covello et al.

Relevant files

  • differential-expression-analysis/004_original_marray_annotated_sample_log2.csv contains normalised log2 intensities used for DE analysis in comma-separated format.
  • differential-expression-analysis/Original_Marray_list.xls contains an Excel table with normalised log2 intensities including probe annotations.
  • probe-gene-assignment/significant.annotated.tsv contains the final version of the table with DE probes, including Gene names and Ensembl gene IDs. It is in tab-separated format.
  • probe-gene-assignment/Full-Table.xlsx contains the same data than significant.annotated.tsv, but in Excel format.

Cite

  • Giuseppina Covello, Fernando J. Rossello, Michele Filosi, Felipe Gajardo, Anne-Laure Duchemin, Beatrice F. Tremonti, Michael Eichenlaub, Jose M. Polo, David Powell, John Ngai, Miguel L. Allende, Enrico Domenici, Mirana Ramialison and Lucia Poggi (2020) Transcriptome analysis of the zebrafish atoh7-/- mutant, lakritz, highlights Atoh7-dependent genetic networks with potential implications for human eye diseases. BioRxiv. https://www.biorxiv.org/content/10.1101/2020.04.09.033704v1