Hi everyone,
I'm currently working on a mRNA-seq which was performed by a private company. After obtaining the data, I'm filtering and trying to...
60 results in 0.0036 seconds.
-
About using or not FPKM threshold after DESeq2
-
How to Choose Normalization Methods (TPM/RPKM/FPKM) for mRNA Expression
Why do mRNA expression values need to be normalized?
The unification of mRNA expression value measurements across studies, or the normalization...Last edited by Novogene; 09-04-2024, 02:09 PM. -
Normalizing RNA-seq data vs Normalizing qRT-PCR
I am working on a project to validate the results of RNA-seq differential expression analysis using qRT-PCR. I use BioRad software (CFX Maestro). I'm... -
Script for FPKM with Deseq2 - help
Hello to all.
I'm new in R, but I'm working with RNA-seq data for a work in a course.
Specifically, I have a count matrix similar to that:... -
Cuffnorm's FPKM - advisable to perform TPM conversion?
Hi,
I performed a detailed time-course mRNA-seq experiment without any sequencing replicates (the input RNA, however, was a pool of equal... -
Pca tpm fpkm
Hi all,
I have expression values in TPM and FPKM from RSEM. Is it correct to perform a PCA direclty on these values or I have to manipulate these... -
FPKM vs gene length
Hi,
I used the program RSEM to calculate the expression level of genes in my RNA-seq data (Illumina paired-end) from human cell lines.... -
how does cuffdiff calculate replicate FPKM values?
Hi,
I have two conditions, 5 replicates for each. After running cuffdiff I noticed the FPKM values in gene_exp.diff for one condition do... -
RSEM prep error
Hi! I'm new to bioinformatics and I'm learning the ropes.
I'm trying to estimate abundance following the Trinity-RSEM pipeline. My script... -
Reads Mapped but 0 FPKM for Every Gene
Hi all,
I'm using Tophat 2.1.0 and Cufflinks 2.2.1 to analyze mouse RNA sequencing. I used Tophat to align the reads, and this step appeared... -
How to get FPKM values for Ensembl
Hello Everyone,
I am scratching my head because I just can't seem to find a way to calculate FPKM values for Ensembl genes. I aligned the... -
RNA seq analysis - small number of genes
Hi all,
I am new to RNA seq analysis and want to look at the expression of a small number of genes (8) in some publicly available RNA seq... -
cuffdiff results
Looking at some publicly available RNAseq data. I ran cuffdiff on a pair of tumor-normal RNAseq data downloaded from TCGA, and I'm wondering what those... -
Difference between Cufflinks coverage and HTSeq-count
Hi,
I am struggling to understand the coverage value (not fpkm) produced by cufflinks. In my case it seems to be much lower than the values... -
gene FPKM from eXpress
Hello,
I want to calculate gene-level FPKM values from eXpress data. From eXpress output, I have FPKM values for each isoform of a gene....
