Tables S1-S16. Table S1. contains list of 220 species covered by current version of iDEP. Table S2. include the 2196 types of gene IDs that can be recognized. Tables S3-S16. are results from the analyses of two example datasets. (XLSX 1970 kb
Supplementary figures and methods. Figures and tables that are directly referenced in the main repor...
Gene coverage calculation (Table S1), reciprocal best BLAST paring (Table S2), full annotation and R...
Differential gene representation analysis results. Table of results of differential gene representat...
Core R functions in iDEP. This code is generated for the analysis of the Hoxa1 dataset. (R 172 kb
Read count file for Hoxd1 knockdown example. This file is derived from short read archive (SRA) SRP0...
An example of R Markdown file generated by iDEP. This code is generated for the analysis of the Hoxa...
An example of customized R code generated by iDEP. This code is generated for the analysis of the Ho...
Read count file for the mouse ionization/p53 dataset. This file was used in our analysis. (CSV 1513 ...
Experiment design file for the mouse ionization/p53 dataset. This file was used in our analysis. (CS...
DNA microarray data of thymic tissue of down syndrome infants. Data is from GSE69210 from NCBI. (CSV...
Supplementary materials (Supplementary Tables S1-S11, Supplementary Figures S1-S31). (DOCX 2225âkb
Results of the Gene Ontology Process enrichment analysis of the 300 top-ranked DE genes and the list...
Table of number of significant genes identified, for each workflow against each reference dataset. (...
Data S2. Information statistics of reads filtering and HQ clean data compared with rRNA. (XLS 26 kb
Table S1. Primers for qPCR. Table S2. The list of all features considered prior to feature selection...
Supplementary figures and methods. Figures and tables that are directly referenced in the main repor...
Gene coverage calculation (Table S1), reciprocal best BLAST paring (Table S2), full annotation and R...
Differential gene representation analysis results. Table of results of differential gene representat...
Core R functions in iDEP. This code is generated for the analysis of the Hoxa1 dataset. (R 172 kb
Read count file for Hoxd1 knockdown example. This file is derived from short read archive (SRA) SRP0...
An example of R Markdown file generated by iDEP. This code is generated for the analysis of the Hoxa...
An example of customized R code generated by iDEP. This code is generated for the analysis of the Ho...
Read count file for the mouse ionization/p53 dataset. This file was used in our analysis. (CSV 1513 ...
Experiment design file for the mouse ionization/p53 dataset. This file was used in our analysis. (CS...
DNA microarray data of thymic tissue of down syndrome infants. Data is from GSE69210 from NCBI. (CSV...
Supplementary materials (Supplementary Tables S1-S11, Supplementary Figures S1-S31). (DOCX 2225âkb
Results of the Gene Ontology Process enrichment analysis of the 300 top-ranked DE genes and the list...
Table of number of significant genes identified, for each workflow against each reference dataset. (...
Data S2. Information statistics of reads filtering and HQ clean data compared with rRNA. (XLS 26 kb
Table S1. Primers for qPCR. Table S2. The list of all features considered prior to feature selection...
Supplementary figures and methods. Figures and tables that are directly referenced in the main repor...
Gene coverage calculation (Table S1), reciprocal best BLAST paring (Table S2), full annotation and R...
Differential gene representation analysis results. Table of results of differential gene representat...
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