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Microarray: aroma.affymetrix version for HuGene and HuExon
written by Bioinformatics_NewComerHi All, I'm using aroma.affymetrix R package to get exon level summaries. HuEx-1_0-st-**v2** CDF file I got exon level estimates from instructions at: http://www.aroma-project.org/chipTypes/HuGene-1_0-st-v1/ I …
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How do I convert Illumina Human HT-12 v4 probeset IDs to Affymetrix HG-U133A probeset IDs?
written by discipulus •I have some data from Illumina Human HT-12 v4 array and I have a tool that requires Affymetrix HG-U133A probeset IDs. I was wondering if …
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How can I loading and normalising the data for (HuGene-1_0-st-v1) microarray Data In Bioconductor
written by AAhmed •I want to analyse microarray dataset (GSE38642) type HuGene-1_0-st-v1 in Bioconductor I follow the steps in this post http://bioinformatics.knowledgeblog.org/2011/06/20/analysing-microarray-data-in-bioconductor/ I struggled in **Loading and normalising …
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Probe matching between HuEx-1_0-st-v2 and MoGene-1_0-st-v1
written by justinzhang.xl •I want to compare data between affymetrix chips of human `HuEx-1_0-st-v2` and mouse `MoGene-1_0-st-v1`. First step is I need to map probe id between these …
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Is the same probeset_id and transcript_cluster_id in HuGene-1_0-st-v1 ?
written by 64bga •Hi everybody, I'm new in microarrays analysis and I have some `HuGene-1_0-st-v1` .CEL files and when I use BioMart to convert `HuGene-1_0-st-v1` probeset to Ensembl …
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Pipeline For Hugene-1_0-St-V1 Analysis
written by Jason •<p>Hi,</p> <p>Could someone please suggest a tutorial/pipeline, preferably in R, for analysis of HuGene-1_0-st-v1. I have been searching all day and can't find a pipeline …
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Annotation Of Probeset-Level Data Of Affymetrix Hugene-1_0-St-V1 Chip
written by munch •<p>I have some trouble when I try to annotate the probeset-level data on this particular chip: <strong>HuGene-1_0-st-v1</strong>. The AffyIDs ranging: <code>7892501, 7892502, 7892503 ... 8180413, …
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Extract Pre-Normalisation Expression Data From Probe Set Values
written by munch •<p>I want to take a look on the pre-normalised data of some Affymetrix .CEL files (<em>HuGene-1_0-st-v1</em>, so no MM spots on the chip). For this …
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Extracting Data With Biomart / Problems
written by pcmubs •<p>I try to use biomart <a href="http://www.ensembl.org/biomart/martview/">http://www.ensembl.org/biomart/martview/</a> to translate a list of Affy HuGene 1<em>0 st v1 probeset IDs to something I can work with …
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Affymetrix Genechip Probeset Id Question In General And Using R
written by Sandra •Hello everybody! I just started working with data from the Affymetrix GeneChip Mouse Gene 1.0 ST Array and I have two questions about that and …