What tools or methodologies are available to comprehensively analyze RNA expression profiles across various human tissues, specifically to discern and compare transcript variants of a gene
Specific transcript expression may not be a viable option as once the RNA-seq done, the transcripts are usually merged into genes. You can try HPA (human protein atlas), and GePIA2 for gene expression analysis in different tissues.
Hi Mukaram
you can go to the GTEX portal where you'll have enough data for you, including gene expression, transcripts variation, In all tissues from human (Awaiting processing.).
all the best
fred
Thankyou Ayaz, Also can i get some data about the gene expression let's in a particular cancer cell line and control. So I can plot it to show the expression of a particular gene between cancer state and control.
Hi Frederic, Thankyou for the response. I want to ask can i get the public avilable data so that i can plot the same data to see what's changes are better a disease condition and control.
GePIA (http://gepia2.cancer-pku.cn/#analysis)
TCGA (https://portal.gdc.cancer.gov/exploration?filters=%7B%22content%22%3A%5B%7B%22content%22%3A%7B%22field%22%3A%22genes.is_cancer_gene_census%22%2C%22value%22%3A%5B%22true%22%5D%7D%2C%22op%22%3A%22in%22%7D%5D%2C%22op%22%3A%22and%22%7D)
Dear Prof. Mukaram Bhat
Genome browsers often provide links to external databases that contain additional information about transcripts and genes. You may find links to resources such as NCBI Gene, Ensembl, or RefSeq.
- UCSC Genome Browser (https://genome.ucsc.edu/)
- Ensembl Genome Browser (https://www.ensembl.org/)
- NCBI Genome Data Viewer (https://www.ncbi.nlm.nih.gov/genome/gdv/)
- Tools: GTEx (Genotype-Tissue Expression), Integrative Genomics Viewer (IGV), STAR, HISAT2 etc.
Regards
Jogeswar Tripathy
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