User: judhenaosa

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judhenaosa0
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JuanHenaoS
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Posts by judhenaosa

<prev • 12 results • page 1 of 2 • next >
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Comment: C: Unbalanced experiment, samples with and without replicated data
... Hi. The data correspond to metabolomics (MS/MS, 51 metabolites), and proteomics (sommalogic, 1400 proteins approx). I have 40 samples. From them, 10 have a replicated data. I gonna use the data to apply sample clustering via dimensionality reduction approaches like iCluster or MOFA. If you have a ...
written 4 months ago by judhenaosa0
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Unbalanced experiment, samples with and without replicated data
... Dear all. I have a question about how to work with the data I have. The next table is an example of it: -------------- Sample ID Protein 1 Protein 2 Protein 3 Protein 4 Protein 5 sample 1 0.75 0.87 0.23 0.16 0.47 sample 2 0.46 NA NA 0.69 0.18 sample 3 NA 0.75 NA 0.62 0.35 sample 3 0 ...
biostatistics statistics written 4 months ago by judhenaosa0 • updated 4 months ago by Istvan Albert ♦♦ 86k
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Comment: C: Differentially expressed genes analysis Limma microarray
... Thanks for your help. My next question is about the lmFit function. I mean, I want to see the specific effect of the control samples over the treatment samples and the effect of the virusA vs virusB, and extract the differentially expressed genes in each individual case. However, I do not know how ...
written 15 months ago by judhenaosa0
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Differentially expressed genes analysis Limma microarray
... Hi. I have a question. I am working with a microarray with the next samples: * control_rep_1 * control_rep_2 * virusA_rep_1 * virusA_rep_2 * virusA_rep_3 * virusB_rep_1 * virusB_rep_2 * virusB_rep_3 * virusA_virusB_rep_1 * virusA_virusB_rep_2 * virusA_virusB_rep_3 I have to extract the differenti ...
R limma microarrays written 15 months ago by judhenaosa0 • updated 15 months ago by h.mon32k
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Enrichment pathways comparison between conditions
... Hi. I have the pathways obtained from an enrichment analysis for five conditions (Condition_A, Condition_B, Condition_C, and Condition_D). With the pathways lists, I made an intersection set (vennDiagram), and I obtained the number of common pathways for every possible combination just the next tab ...
R enrichment analysis statistics written 17 months ago by judhenaosa0 • updated 16 months ago by egeulgen1.1k
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Comment: C: Multi-factor experiment RNAseq limma-voom
... Hi. I forgot to say that, I have biological replicates n=3. Regards, Juan ...
written 17 months ago by judhenaosa0
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Multi-factor experiment RNAseq limma-voom
... Hi. I have a question about lima-voom design. I have an experiment just like I'm showing you in the next table: Sample cell-type treatment C.A A C S.A A S C.B B C S.B B S N.A A N H. ...
limma rna-seq written 17 months ago by judhenaosa0
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Comment: C: How to exclude some of breast cancer subtypes just by looking at gene expressio
... Sorry. Here a new attempt. ![enter image description here][1] [1]: https://i.ibb.co/XVQ1wm0/histogram.jpg ...
written 2.0 years ago by judhenaosa0
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Comment: C: How to exclude some of breast cancer subtypes just by looking at gene expressio
... Hi. I shared the histogram and the overlap normal curve: data.table$y <- NULL row.names(data.table) <- data.table$Name data.table$Name <- NULL head(data.table) all.data <- unlist(data.table) hist(all.data,probability = T,ylim = c(0,0.12)) curve(dnorm(x,me ...
written 2.0 years ago by judhenaosa0
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Comment: C: How to exclude some of breast cancer subtypes just by looking at gene expressio
... Thanks for your help. I have an expression matrix as I show you n the next table. Name y GAPDH PGK1 BRACA1 PPIA Sample_1 1 -3.862188587 4.0051135284 5.3343408926 -1.5971560514 Sample_2 1 -4.3324333866 4.7910247638 6.9940989042 1.3791251185 Sample_3 1 -5 ...
written 2.0 years ago by judhenaosa0

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