Matt:LabNotes/2016-4-8
Jump to navigation
Jump to search
Design Padlock Probe Arms for Mouse and Human Housekeeping Gene Probe Set
- For DARTFISH in human and mouse tissues, we are most interested in seeing the heterogeneity and variation in gene expression
- However, to distinguish biological variation from technical noise it would be nice to have some probes for genes that are uniformly detected in each tissue
- Files: Dropbox\GradZhangLab\CA12k_Apr2016\ControlGenes\MouseEmbryo and Dropbox\GradZhangLab\CA12k_Apr2016\ControlGenes\HumanBrain
Mouse Embryo
Gene Selection
- "high_genes_mouse_project.xls" contains 54 high expression genes with lowest variance (variance included)
- Selected top 25 lowest variance genes "Top25_LowVarGenes.txt"
- Includes Gapdh and Actg
Get Transcript Sequences
- Biomart browser interface
Dataset Mus musculus genes (GRCm38.p4) Filters with MGI ID(s): Only MGI symbol [e.g. Mir1901]: [ID-list specified] Status (gene): KNOWN Status (transcript): KNOWN Attributes Ensembl Gene ID Ensembl Transcript ID Chromosome Name Exon Rank in Transcript Exon Chr Start (bp) Exon Chr End (bp) Strand Associated Gene Name