User: rob.costa1234

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rob.costa1234150
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Posts by rob.costa1234

<prev • 121 results • page 1 of 13 • next >
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Answer: A: filtering a z score file
... I am also looking how to filter z score file as stated above. Any one here in the forum, has experience working on such files. ...
written 7 days ago by rob.costa1234150
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h5 file of cell ranger
... The h5 file generated - (filtered_gene_bc_matrices_h5 ) by cell ranger pipeline is a normalized data or it is still a raw data? Any suggestion ...
rna-seq written 9 days ago by rob.costa1234150
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cell types for all sequenced data
... If I have a sCRNA seq data, Is it possible to assign each bar code (that is cell) a probable cell type based on expression profile? Are there any tools available for that purpose. If for example 1200 cells sequenced I want to assign each cell a cell type based on human genome. ...
rna-seq written 23 days ago by rob.costa1234150 • updated 23 days ago by Kevin Blighe24k
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Comment: A: plotting a expression data in figure
... Thanks for all suggestions. The purpose of the figure is that I want to show that these 20 genes are deferentially expressed in diseased cases when treated with drug while the same genes are affected to lesser extent or are not affected by drug treatment in healthy animals. ...
written 27 days ago by rob.costa1234150
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5 follow
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plotting a expression data in figure
... I have expression matrix of 20 genes in 5 replicates in healthy vs disease animals treated with a drug. I want to show that the expression level between healthy vs diseased animals ids different. Is there a suggestion how I can put in a figure this information? I can either show correlation but that ...
rna-seq written 27 days ago by rob.costa1234150 • updated 26 days ago by Eric Lim780
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Comment: C: Cell lineage identification from pathway anlaysis
... CIBERSORT need signature genes and provide only LM22 genes as signature for immune cells. It looks lot more complex to draw our own signature from http://fantom.gsc.riken.jp/data/. Thus in the meantime I am just trying to see how the previous cellular deconvolution of micro-array data has evolved. ...
written 29 days ago by rob.costa1234150
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Comment: C: Cell lineage identification from pathway anlaysis
... Kevin, Could you suggest any GUI/ web based old tool that has been used for cellular deconvolution of micro-array data? I googled it but could not find something. ...
written 29 days ago by rob.costa1234150
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Comment: C: Cell lineage identification from pathway anlaysis
... CIBERSORT has one signature genes file LM22 for blood cells. However I want to identify stem cells, mesenchymal and fibroblasts. Is there any data base where I can get signature genes (at least name of genes) for different cell types? Thanks ...
written 6 weeks ago by rob.costa1234150
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Cell lineage identification from pathway anlaysis
... From RNA seq data I am trying to find out the cell types enriched in particular cluster from DE genes, Is there any specific pathway or tool that can allow me to assign the cell identity using from DE genes. thanks ...
rna-seq written 7 weeks ago by rob.costa1234150 • updated 7 weeks ago by Kevin Blighe24k
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RNASeq Highly expressed genes in single sample
... I have to find highly expressed genes in one sample, I can do read count and find out which genes have top 100 Read counts. Can I include and kind of statistics in the list or any other better way of identifying top 100 genes. ...
rna-seq written 8 weeks ago by rob.costa1234150 • updated 6 weeks ago by h.mon16k

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