56 Some designs incorporate up to 12 independent arrays per slide.
J.; Dong,.; Byrne,.
Westermann, Alexander.; Gorski, Stanislaw.; Vogel, Jörg.
Early attempts edit The word Transcriptome was first used in the 1990s.
A.; Matingou,.; Eveno,.; Houlgatte,.; Decraene,.; Vandenbrouck,.; Tahi,.Auburn, Richard.; Kreil, David.; Meadows, Lisa.; Fischer, Bettina; Matilla, Santiago Sevillano; Russell, Steven."A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome".RNA-Seq leverages deep sampling of the transcriptome with many short fragments from a transcriptome to allow computational reconstruction of the original RNA transcript by aligning reads to a reference genome or to each other ( de novo assembly ).A list of currently available high-throughput sequence aligners is maintained by the EBI.Doi :.1186/gb r86.A b c Velculescu,.Costa, Valerio; Aprile, Marianna; Esposito, Roberta; Ciccodicola, Alfredo."A new resource for cereal genomics: 22K barley GeneChip comes of age".
Chen, James.; Hsueh, Huey-Miin; Delongchamp, Robert.; Lin, Chien-Ju; Tsai, Chen-An.
Paired-end sequencing produces more robust alignments/assemblies, which is beneficial for gene annotation and transcript isoform discovery.
"Expressed sequence tags-ESTablishing bridges between genomes".
"The Genexpress image knowledge base of the human brain transcriptome: a prototype integrated resource for functional and computational genomics".
"Comparison of microarrays and RNA-seq for gene expression analyses of dose-response experiments".RNA-Seq can provide information about the transcription of endogenous retrotransposons that may influence the transcription of neighboring genes by various epigenetic mechanisms that lead to disease."RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays".Added to those considerations is that every species has a different number of genes and therefore requires a tailored sequence yield for an effective transcriptome."Use of a cDNA library for studies on evolution and developmental expression of the chorion multigene families".Raw data is examined for: high quality scores for base calls, GC content matches the expected distribution, the over representation of particular short sequence motifs ( k-mers and an unexpectedly high read duplication rate.The measurement of multiple control genes along with the genes of interest produces a stable reference within a biological context.Microarray image processing must correctly identify the regular grid of features within an image and independently quantify the fluorescence intensity for each feature.10 The nucleotide sequences generated are typically around 100 bp in length, wow 64 bit client 5.1 but can range from 30 bp to over 10,000 bp, depending on the sequencing method used.