Representing Geo Dataset In Xml

Hi.

I'm wondering is there a standard which would represent GEO dataset SOFT file in XML format. Maybe not the measurements but at least factors and other metadata.

geo xml

• 2,533 views • link

updated 14.9 years ago by Lars Juhl Jensen

• written 14.9 years ago by Sergej Andrejev

1 answer

MINiML (MIAME Notation in Markup Language) would seem to be precisely that.

• 0 views • link

written 14.9 years ago by Lars Juhl Jensen

Yes, MINiML is GEO's own alternative to SOFT in XML format...

• 0 views • link

written 14.9 years ago by Neilfws

More posts like this

Finding The Relation Between Gene Expression And Protein Function
written 12.5 years ago by mtyler.jason •

Hi all, I have some microarray dataset like this <a href='http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE1935'>http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE1935</a>. Given this gene expression data, I want to find out which protein function is …
Mirna-Seq Data For Cd34+ Cells
written 12.6 years ago by liu4gre

I posted this question a few days ago and got kindly help. However, the suggested dataset (<a href='http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE24565'>http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE24565</a>) is from RNAseq (maybe I am wrong, …
Dataset Search: Rna-Seq And Affymetrix Hugene Arrays
written 12.9 years ago by polarise

I'm looking for a dataset with precisely the above platforms (i.e. not Affymetrix HuEx or any other array type). I am already aware of the …
How To Merge Two Microarrays Datasets?
written 13.2 years ago by fbrundu

Hi all, I am trying to merge two microarrays datasets, as in <a href='http://www.nature.com/nm/journal/v19/n5/fig_tab/nm.3175_F1.html'>this paper</a>. I did not understand how to do it because the …
Where To Get Cdf Files Needed To Analyze Data Obtained Via The Affymetrix Platform
written 13.4 years ago by rajeshkumar_vinod •

Hello everyone, i was trying to do some microarray data normalization and analysis for learning purpose using matlab, i chose data related to the experiment …
How To Find The Strand-Specific Info In The Public Data From The Illumina Human Body Map 2.0 Project
written 13.5 years ago by camelbbs

Hi, Anyone can guide a while how to find if this public rnaseq data are prepared by strand-specific assay. Thanks a lot! <a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30611">http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30611</a> Ch
Download Geo Tar File Automatically From Linux/Unix
written 13.6 years ago by dfernan

Hi, I'd like to automatically download the tar files from the following links, does anyone knows how to do that? <a href='http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE39977'>http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE39977</a> <a href='http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE36375'>http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE36375</a> Kind …
How To Avoid Mixing Intronic Region When Sequencing Non-Poly-A Rna Using Rna-Seq?
written 13.8 years ago by Hanfei Sun •

The data source is here: <a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30567">http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30567</a> I was wondering how it could avoid mixing intronic RNA (result of pre-mRNA splicing) when using non poly …
Information About The Caltech Rna-Seq Data On Encode And Its Corresponding Microarray Data?
written 14.1 years ago by Tianyang Li •

Hi, I'm wondering if there's more information about <a href="http://hgdownload.cse.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCaltechRnaSeq/">the Caltech RNA-Seq data</a> on ENCODE and the corresponding microarray data (<a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE19090">GSE19090</a>). I'm trying …
How Do I Find Data From A Particular Study In Dbgap?
written 15.2 years ago by Stephen

I want to follow up some GWAS hits for obesity by doing some eQTL analysis in fat and liver tissue. I found <a href="http://www.sciencedirect.com/science/article/pii/S0002929710001023">this paper</a> …