Generation and analysis of transcriptomics data.
Transcript profiling ("Transcriptomics") is a widely used technique that obtains information on the abundance of multiple mRNA transcripts within a biological sample simultaneously. Therefore, when a number of such samples are analysed, as in a scientific experiment, large and complex data sets are gene-rated. Here, we describe the use of one method commonly used to generate transcriptomics data, namely the use of Affymetrix GeneChip microarrays. Data generated in transcriptomics experiments can be analysed using a multitude of approaches, but a common goal is to identify those transcripts whose abundance is altered by the experimental conditions, or which differ between sets of samples. Here, we describe a simple approach, the calculation of the volcano score, which identifies transcripts with altered abundance, taking into account both the magnitude of the alteration and its statistical significance.
Glaves
Philip D
PD
Molecular Toxicology Group, Safety Assessment Department, AstraZeneca Pharmaceuticals Ltd, Macclesfield, Cheshire, UK.
Tugwood
Jonathan D
JD
D001710:Biotin / Q000378:metabolism; D002478:Cells, Cultured; D018076:DNA, Complementary / Q000096:biosynthesis / Q000235:genetics; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis; D011786:Quality Control; D018075:RNA, Complementary / Q000096:biosynthesis / Q000235:genetics / Q000302:isolation & purification / Q000378:metabolism; D012984:Software; D013053:Spectrophotometry; D013223:Statistics as Topic / Q000379:methods*
D018076:DNA, Complementary; D018075:RNA, Complementary; D001710:Biotin