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• Geo Data Matrix Using R
  I want something like, ID GB_ACC Gene Title Gene Symbol ENTREZ_GENE_ID GO_BP GO_MF ...
• How to annotate GEO microarray datasets with GEOquery?
  Hi, I read the GSE file into R as follows. gse <- getGEO("GSE4928", GSEMatrix=TRUE) Now I...
• Question: From A List Of Gene Symbols To A Bed File With name of the chromosome and Start/end position
  Hi,y'all, I have a list of Gene Symbols,How can i transform Gene Symbols to a .bed file with name...
• microarray gene datasets
  I am having some doubts on How can we integrate GSE with different GPL????
• How to add the gene names on wormbase_genes BED file?
  I did the download of BED file of wormbase_genes from USCS but the file dont have the gene names,...
• How to merge probes with the same gene symbol in soft file?
  Hi all, I have downloaded from GEO one soft file and extracted some specified GSMs . The GSMs s...
• co expression network
  Hello I WANT TO USE coexnet PACKAGE OF BIO CONDUCTOR BUT AFTER DOWNLOADED GSE AND GPL.SOFT I SEE...
• How to add gene names to DGEList and convert to csv? gro-seq groHMM
  I am trying to get expression information from groSeq using groHMM. Following their tutorial, I e...
• Gene expression data from GEO
  This is a follow-up to my post over [here][1] I'm collecting the gene expression data from micro...
• How to get Gene symbols from feature number?
  I am working on microarray data analysis of B cell (GSE2050). They didn't mention the probe set i...
• Python Code to standardize gene name in CSV file
  Hi all, I have a CSV file that includes gene names in different formats for example: PD-L1 might ...
• GSE experiment has two platforms, how to find GSM files specific to one platform without using GEOMetadb
  How to list the GSM files specific to one GPL number and to one GSE ID? I can do this with GEOMe...
• How To Convert Refseq Id To Gene Symbol As Pitx1
  Hi, how can i convert refseqids (mouse) to gene symbols?
• getting probes by gene name
  hi all, how i can have prob matched with Gene symbol: BIN2 in citrus please?
• How to retrieve expression data from GEO for matrix files with names starting with "E-"
  First, I cannot make the R package "GEOQuery" work for some of the datasets (it works for some); ...
• get genomic coordinates plus 5kb from Gene Symbols
  Hi list, I am trying to use RMySQL to get genomic coordinates from a bunch of gene symbols and a...
• Converting multiple GSE data into expression matrix
  Hi guys,I have downloaded 4 GSE microarray datasets from geo with their cel files and their indiv...
• How to extract expression data from RAW data.
  Hello. I downloaded GSE57821 RAW data by getGEOSuppFiles command in R and now I have "filelist.tx...
• How can I add the specie associated name to ensembls ID in a fasta file (cds) ?
  Hi, I download the orthologues fasta file (cds) for one gene in Ensembl, but the fasta file jus...
• Convert gene ID to gene name/symbol in gene set file (GMT)
  Hi, I have obtained gene sets file (GMT) from both KEGG and MSigDB databases. Each of these file...