Molecular Epigenetics

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Molecular Epigenetics Biol 456/656 Molecular Epigenetics Lecture #4 Mon, Aug 31st, 2014

Drosophila Development https://www.youtube.com/watch?v=DsK9R-yfgF4 https://www.youtube.com/watch?v=ePBghFrPb7Y

Drosophila Embryonic Development https://www.youtube.com/watch?v=yE0WRBYh_NM

In situ hybridization (ISH) Antisense RNA probe or DNA probe Probe is labeled for detection (color or radioactivity) Embryo (or any tissue) is prepared (fixed) Hybridization (probe binds RNA in situ) Image captured with microscope

Figure 3 In situ hybridization: detects RNA in space and time

http://insitu.fruitfly.org/cgi-bin/ex/insitu.pl BDGP In situ database http://insitu.fruitfly.org/insitu_image_storage/img_dir_172/insitu172550.jpe

http://insitu. fruitfly. org/cgi-bin/ex/report. pl http://insitu.fruitfly.org/cgi-bin/ex/report.pl?ftype=1&ftext=CG18408

In situ databases available for different species Mouse brain: http://developingmouse.brain-map.org/gene/show/48621 http://www.eurexpress.org/ee/databases/assay.jsp?assayID=euxassay_019787&image=01

http://developingmouse.brain-map.org/gene/show/48621

Eurexpress.com

ISH Spatial information of gene expression Not quantitative Assayed on gene-by-gene basis Amenable to high-throughput study (time consuming)

to all TRANSCRIPT ISOFORMS This is a very small purple slice (equivalent to 47 genes) But accounts for half of all transcript isoforms # of transcript isoforms The pie is equivalent to all GENES (~15,000) The pie is equivalent to all TRANSCRIPT ISOFORMS TIP: try to “narrate” what the figure is trying to say. For clues, see the “results” text or the figure legend “79% of genes in the genome make 5 or less transcript isoforms.” “0.2% of genes in the genome (47 genes) make > 1000 transcript isoforms”

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