Personal genome construction

Slides:

Advertisements

Similar presentations

Prokaryotic and Eukaryotic Cells. Two Types Of Cells 1. PROKARYOTE 2. EUKARYOTE.

Advertisements

Protists Small in Size, Enormous in Diversity. Taxonomy Review  What are the different groups a species is classified into?  Kingdom  Phylum  Class.

Introduction to the Cell Cell Theory, Prokaryotes and Eukaryotes.

The smallest unit capable of life!

The Cells in Living Things. Cells are the building blocks of living things. Most living things have basic needs: Most living things have basic needs:

Assembling the Tree of Life Diana Lipscomb Program Director, Systematic Biology Program National Science Foundation.

Diversity of Cellular Life

Prokaryotic vs. Eukaryotic Cells Eukaryotic Cells Prokaryotic Cells.

The case:  2005: No production Continued sampling  2006: Detected plants expressing transgene - demonstrated pollen transfer and seed dispersal (Reichman.

Gene Expression Networks Esra Erdin CS 790g Fall 2010.

All life is made of cells Cells discovered after microscope invented 1665: Robert Hooke first observed cork (dead tree bark) –Boxes he saw reminded.

Title Page “The 6 Kingdoms & Viruses” ~Your Name ~4 pictures/drawing of organisms – include kingdom & scientific name. Page 1.

1. Differentiate between the cell membrane and the cell wall in terms of what they do and what they are made from.

Bacteria Protists PlantsFungi Animals 1. The diagram below shows the evolution of eukaryotic cells from prokaryotic cells. Give two reasons why scientists.

 Compare the diagram on pg 504 with the tree of life from chapter 18. What simplifications does this diagram make, how could this simplification be misinterpreted.

Description: Brief review of trophic levels thus far and assessment work that can be used as class work, quiz, or informal assessment. Goals: Describe.

February 13, 2012 STND: (7-3.4) OBJ: Explain how infectious diseases affect the human body EQ: How do infectious diseases affect the human body? FF: HW:

Ecology Terms The ones you have to know. Producer: An organism that can make its own food for energy.

PIK3CA gene amplification in glioblastoma and squamous cell carcinoma (SCC) of the lung. PIK3CA gene amplification in glioblastoma and squamous cell carcinoma.

Unit A Chapter 2.

Protist Evolution BIOL 1407.

Abundance of proteins matching selected subcellular locations and functions in CaCo‐2 cells. Abundance of proteins matching selected subcellular locations.

Principles of using neural networks for predicting molecular traits from DNA sequence Principles of using neural networks for predicting molecular traits.

Chapter 28 Protists Copyright © 2008 Pearson Education, Inc., publishing as Pearson Benjamin Cummings.

Prokaryotes vs Eukaryotes

Sequence alignment of C-terminal phosphorylated plant aquaporins

Heatmaps of the gene mutation distributions in oncogene‐signaling blocks for six representative cancer types. Heatmaps of the gene mutation distributions.

Can you name the 5 kingdoms of life?

Structure of in‐frame deletions.

Kingdoms & Domains.

LIVING THINGS OTHER THAN PLANTS AND ANIMALS

Kingdoms & Classifications

Transdomain taxonomic profiles from subway shotgun metagenomes.

How do we fight disease? Immune System.

INDRA Statements constructed from TRIPS NLP extractions, BioPAX, and BEL INDRA Statements constructed from TRIPS NLP extractions, BioPAX, and BEL An identical.

Alignment time for Clustal Omega (red), MAFFT (blue), MUSCLE (green) and Kalign (purple) against the number of sequences of HomFam test sets. Alignment.

The transcript profiles in the three human cell lines based on RNA sequencing (RNA‐seq). The transcript profiles in the three human cell lines based on.

(A) Compound occurrence frequency plot.

The limiting, degrading entity hypothesis

Response to the Commentaries on the Paper: Propionibacterium acnes Strain Populations in the Human Skin Microbiome Associated with Acne Noah Craft, Huiying.

Multi‐Omics Factor Analysis: model overview and downstream analyses

Phylogenetic analysis of PurR from low-GC Gram-positive bacteria.

Characterization of Factor 5 (oxidative stress response factor) in the CLL data Characterization of Factor 5 (oxidative stress response factor) in the.

Workflow of the wet laboratory, bioinformatics, and data filtering procedures in the process of data filtering for 16S rRNA amplicon sequencing. Workflow.

Recursive construction and error correction of a simple combinatorial library. Recursive construction and error correction of a simple combinatorial library.

Prokaryotic Versus Eukaryotic

Building and using sequence‐expression‐activity maps (SEAMAPs) AThe RBS Library Calculator designs a synthetic RBS library to efficiently search a multi‐dimensional.

DominoEffect R package

Simulation showing that the cell length variability of the entire population can mask abnormal cell length variability at a specific cell cycle period.

Community diversity and metagenome depth interact to influence assembly quality. Community diversity and metagenome depth interact to influence assembly.

Maintenance metabolism alone cannot explain non‐division

Melting behavior of protein complexes

The functional and structural unit of all living organisms.

How do we fight disease? Immune System.

Rare and abundant codons.

BT_0370 galactokinase and BT_371 glucose/galactose transporter

Relative abundances of Propionibacterium species in different skin areas determined by 16S rRNA gene sequence analysis of 10 individuals. Relative abundances.

Integrative omic approaches for the study of host–pathogen interactions Integrative omic approaches for the study of host–pathogen interactions (A) Proteomic.

PhoB also translocates to plant nuclei in leaf and crown cells in response to HK activation with exogenous cytokinin. PhoB also translocates to plant nuclei.

DuMPLING oligonucleotide plasmid library design and production

The Immune System.

TT‐seq analysis of immediate response to T‐cell stimulation

Schematic representation of a transcriptomic evaluation approach.

Microorganism Bell Ringers, Goals and Objectives

Domains are further classified getting more specific at each level.

9-6 Collection and Preservation of Biological Evidence for DNA Analysis Unit 9: DNA.

Expression analysis of IGFBP-3 using human whole-genome microarray.

Number of identical D-loop DNA clones detected in 10 DNA clones derived from liver tumor tissues. Number of identical D-loop DNA clones detected in 10.

General overview of the bioinformatic pipelines for the 16S rRNA gene microbial profiling and shotgun metagenomics. General overview of the bioinformatic.

Presentation transcript:

Personal genome construction Rozowsky et al. Mol Syst Biol (2011)

Detecting exogenous sequences: exceRpt Input: sequences that can not be explained in primary analysis Detecting exogenous sequences: exceRpt We can search for evidence of: 5,242 bacteria 52 fungi 40 plants 32 protists 12 vertebrates 5,758 viruses

Subject N Subject Z Subject S All bacteria Mostly Propionibacterium Could be skin contamination (acne) Subject Z All bacteria Mostly Acinetobacter Prob. laboratory contamination Subject S Mostly bacteria Massive diversity Likely due to saliva (rather than blood) sample