hms_7091

hms_7091 - Harvard-MIT Division of Health Sciences and...

Info iconThis preview shows pages 1–10. Sign up to view the full content.

View Full Document Right Arrow Icon
Machine Learning Methods for Microarray Data Analysis Marco F. Ramoni Children’s Hospital Informatics Program Harvard Partners Center for Genetics and Genomics Harvard Medical School HST 512 Harvard-MIT Division of Health Sciences and Technology HST.512: Genomic Medicine Prof. Marco F. Ramoni
Background image of page 1

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
HST 512 Outline & Supervised vs Unsupervised & Supervised Classification ü Definition ü Supervision ü Feature Selection ü Differential Analysis ü Normalization & Prediction and Validation ü Probabilistic ü Voting Schemes ü Independent Validation ü Cross Validation & Clustering ü One-dimensional ü Self Organizing Maps ü Hierarchical ü Bayesian ü Temporal & Bayesian networks ü Definitions ü Learning ü Prediction ü Validation
Background image of page 2
HST 512 Central Dogma of Molecular Biology DNA RNA mRNA Proteins Traits Diseases Physiology Drug Resistance Metabolism
Background image of page 3

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
HST 512 Functional Genomics & Goal: Elucidate functions and interactions of genes. & Method: Gene expression is used to identify function. & Tools: Characteristic tools of functional genomics: ü High throughput platforms. ü Computational and statistical data analysis. & Style: The intellectual style is different: ü Research is no longer hypothesis driven. ü Research is based on exploratory analysis. & Issue: Functional genomics is in search of a sound and accepted methodological paradigm.
Background image of page 4
HST 512 Microarray Technology Scope: Microarrays are reshaping molecular biology. Task: Simultaneously measure the expression value of thousands of genes and, possibly, of entire genomes. Definition: A microarray is a vector of probes measuring the expression values of an equal number of genes. Measure: Microarrays measure gene expression values as abundance of mRNA. Types: There are two main classes of microarrays: cDNA: use entire transcripts; Oligonucleotide: use representative gene segments.
Background image of page 5

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
HST 512 Measuring Expression Rationale: Measurement of gene expression reverses the natural expression process. Hybridization: Process of joining two complementary strands of DNA or one each of DNA and RNA to from a double-stranded molecule. Artificial process: Backward the mRNA production. ü DNA samples (probes) are on the microarray. ü Put cellular labeled mRNA on the microarray. ü Wait for the sample to hybridize (bind). ü Scan the image and, for each point, quantify the amount of hybridized mRNA.
Background image of page 6
HST 512 From Tissues to Microarrays Tissues mRNA tagged by fluorescent dye Fluidics Station Image Scanner Data
Background image of page 7

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
HST 512 cDNA microarrays Fix, for each gene, many copies of two functional DNA on a glass. The labeled probes are allowed Fluorescent intensity in each probe to bind to complementary DNA measures which genes are present strands on the microarray. in which sample.
Background image of page 8
HST 512 cDNA Microarray Data Green: genetic material is present in the control but not in the treated sample.
Background image of page 9

Info iconThis preview has intentionally blurred sections. Sign up to view the full version.

View Full DocumentRight Arrow Icon
Image of page 10
This is the end of the preview. Sign up to access the rest of the document.

This note was uploaded on 03/27/2008 for the course HST 512 taught by Professor Ramoni during the Spring '06 term at MIT.

Page1 / 45

hms_7091 - Harvard-MIT Division of Health Sciences and...

This preview shows document pages 1 - 10. Sign up to view the full document.

View Full Document Right Arrow Icon
Ask a homework question - tutors are online