KP Ramirez Week 11
Biological replicates & technical replicates
Compare what they say in their methods with the outline that is on the wiki, did they detail all of their steps or did they leave their information out.
Figure out where the source of the data came from, match the columns of the data that appear on the excel spreadsheet and how they relate to the paper, see what samples correspond to the paper.
- control --> purify RNA --> Label --> cy3 Green
- Experimental --> purify RNA --> Label --> Cy5 Red
With human samples its more difficult then model organisms. With model organisms there are great lengths to show they have the same genetic background. For human samples, all individuals are unique, genes have variations in them making them different from person to person. There is no model control environment. When talking about what tissue is used it becomes more complicated. For example, using blood, organs, skin, on our chips were biopsy taken from men that were taken during treatment. Ratio will be given to us through the software that counts the chips You have to transform the given number by taking the Log (2) of the ratio number. Anything with a positive increase greater then 0 will be increased and anything with a negative decrease less then 0 will be decreased.
Normalize the average intensity of the slide.
Then preform statistical analysis. Using a ttest to determine significance.
Top 10 Definitions
Carcinoma: A malignant new growth that arises from epithelium, found in skin or, more commonly, the lining of body organs. Carcinomas tend to infiltrate into adjacent tissue and spread to distant organs.
Metastatic: The spread of a disease from the organ or tissue of origin to another part of the body.
Disseminate: To scatter or distribute over a considerable area.
Neoplastic: Pertaining to or like a neoplasm with new and abnormal growth.
Cryostat: A vessel, similar in construction to a vacuum flask or dewar used to maintain cold cryogenic temperatures.
Oligonucleotide: A linear sequence of up to 20 nucleotides joined by phosphodiester bonds.
Immunohistochemistry: Histochemistry localization of immunoreactive substances using labeled antibodies as reagents
Transcriptional Control: Control of gene expression by controlling the number of rNA transcripts of a region of dNA. A major regulatory mechanism for differential control of protein synthesis in both pro and eukaryotic cells
Outline
Journal Assignments
