Bioinformatics (or making apples as big as a house)

Bioinformatics (or making apples as big as a house)
CS/Informatics Honors Memo Dalkilic, PhD Assistant Professor School of Informatics Adjunct Assistant Professor Computer Science

Computer Science / Informatics Honors
What we’ll do today... old and busted Biology—study of life new hotness Bioinformatics—study of life using computers Thursday, September 20, 2018 Computer Science / Informatics Honors

What we’ll learn about... a little chemistry a little biology a little IT (Information Technology) some cool bioinformatics Thursday, September 20, 2018 Computer Science / Informatics Honors

How are we gonna do that? Take a journey together... ask questions do stuff ponder about things Thursday, September 20, 2018 Computer Science / Informatics Honors

Who am I? Memo Dalkilic Grew up in Austin, Texas Family is in Crown Point now Favorite thing—Kan What do I do for a living—vocation What do I do for fun—avocation Thursday, September 20, 2018 Computer Science / Informatics Honors

Who are you? Name Intended Specialty if you were a bug, what would you be? Thursday, September 20, 2018 Computer Science / Informatics Honors

Part I—Chemistry Everything in the universe is made-up of atoms nucleus proton and neutrons electron shell electrons Thursday, September 20, 2018 Computer Science / Informatics Honors

There are a lot of elements...
Chemistry: The Periodic Table - the Table's pattern and arrangement reflects the arrangement of electrons in the atom. Elements have different atomic numbers - the number of protons or electrons increases up the table as electrons fill the shells. Elements have different atomic masses - the number of protons plus neutrons increases up the table. Rows - elements of each row have the same number of energy levels (shells). Columns - elements have the same number of electrons in the outermost energy level or shell (one to eight). Thursday, September 20, 2018 Computer Science / Informatics Honors

Elements can be combined
build things using chemical bonds—electricity desk mp3 player people doughnuts Thursday, September 20, 2018 Computer Science / Informatics Honors

What’s that look like? Thursday, September 20, 2018 Computer Science / Informatics Honors

Gas.. methane Thursday, September 20, 2018 Computer Science / Informatics Honors

Table salt Thursday, September 20, 2018 Computer Science / Informatics Honors

Bling bling Thursday, September 20, 2018 Computer Science / Informatics Honors

Chemistry deals with... stuff built from the periodic table using chemical bonds...molecules Thursday, September 20, 2018 Computer Science / Informatics Honors

One special atom Carbon C diamond graphite (pencil) talcum powder Buckey balls Thursday, September 20, 2018 Computer Science / Informatics Honors

Chemistry of carbon molecules
Organic chemistry Carbon, Hydrogen, Nitrogen Biochemistry is organic chemistry of living organisms Thursday, September 20, 2018 Computer Science / Informatics Honors

Chemical structure lines and points....
Thursday, September 20, 2018 Computer Science / Informatics Honors

eat the spicy cinnamon beans...
google the effects of cinnamaldehyde Let’s go to and see what kinds of chemistry there are If you were going to pick one, what would it be? Thursday, September 20, 2018 Computer Science / Informatics Honors

A little more chemistry (and physics)
O2 is oxygen...using the Internet—what other molecules are in the air? Thursday, September 20, 2018 Computer Science / Informatics Honors

What is biology? bios—means living things logos—means to study Biology is the study of living things Thursday, September 20, 2018 Computer Science / Informatics Honors

Biology is the study of living things Let’s see what’s at IU Thursday, September 20, 2018 Computer Science / Informatics Honors

What area of biology do you like?
if you were asked to pick an area of biology, what would it be? why? Thursday, September 20, 2018 Computer Science / Informatics Honors

What do computers do? give bits and get bits what we have done take reality (analog) encode it into make-believe (digital) digital means bits Conceptual  Logical  Physical Thursday, September 20, 2018 Computer Science / Informatics Honors

What do computers do? encode means to represent one thing as another...example Encoding is hieroglyphics as sounds Thursday, September 20, 2018 Computer Science / Informatics Honors

What do computers do? encoding colors encode Thursday, September 20, 2018 Computer Science / Informatics Honors

Create a webpage using bits...
<html> <header> <title>Color me bad</title> <body bgcolor="#FF0000"> <font color = "#0000FF"> Hello, World! </body> </html> Thursday, September 20, 2018 Computer Science / Informatics Honors

Computer Science (CS) Let’s see what’s at IU If you picked an area of computer science, what would it be? Why? Thursday, September 20, 2018 Computer Science / Informatics Honors

All life has a set of directions that show how a living thing is built and run encoding—the set of directions DNA The encoding is done with only four symbols: A, C, T, G Thursday, September 20, 2018 Computer Science / Informatics Honors

All life has a set of directions that show how a living thing is built
Central Dogma of Biology Thursday, September 20, 2018 Computer Science / Informatics Honors

All life has a set of directions that show how a living thing is built
Biological procedures and computational challenges... Thursday, September 20, 2018 Computer Science / Informatics Honors

A couple of definitions
A gene is a portion of DNA that codes for a protein—sometimes more than one! Potential benefits— more food, mad hops for everyone,... A genome is the entire gene (genetic) content of a thing (organism) Thursday, September 20, 2018 Computer Science / Informatics Honors

What are some problems we’re working on?
Figure out what the genome means—it’s like a big book with one scrambled word Find out how different genomes are related Find how one gene in one organism is related to another gene in another organism See whether genes are related—how they’re regulated Thursday, September 20, 2018 Computer Science / Informatics Honors

Some more examples Motif discovery using De Bruijn Graphs Clustering using biconnected Graphs Fun, exciting projects Thursday, September 20, 2018 Computer Science / Informatics Honors

Some more examples CATPA (Curation and Alignment Tool for Protein Analysis Thursday, September 20, 2018 Computer Science / Informatics Honors

Bioinformatics is... using the encodings and computers to discover things about genes is often called Genomics using the encodings and computers to discover things about proteins is often called Proteomics Thursday, September 20, 2018 Computer Science / Informatics Honors

Bioinformatics is... using models to study complex relationships in an organism Biocomplexity software engineering principles to make better science Informatics Thursday, September 20, 2018 Computer Science / Informatics Honors

How closely are we related to other organisms?
Human to human 99.9% Human to Chimp 98% Human to Mouse 84.9% Human to Cow 87.1% Thursday, September 20, 2018 Computer Science / Informatics Honors

How closely are we related to other organisms?

What other things to genes do?

Thanks very much! me if you’d like to discuss anything or just give a shout out... Thanks to Dr. Springer, Dr. Kim, Dr. Tang, Rupali, Jim,...., and Kan Thursday, September 20, 2018 Computer Science / Informatics Honors

Image Acknowledgements
Most of the images were taken from the web—this presentation was intended to encourage college students to continue on to graduate school. Thursday, September 20, 2018 Computer Science / Informatics Honors

Bioinformatics (or making apples as big as a house)

Similar presentations

Presentation on theme: "Bioinformatics (or making apples as big as a house)"— Presentation transcript:

Similar presentations

About project

Feedback

Log in

Auth with social network:

Bioinformatics (or making apples as big as a house)

Similar presentations

Presentation on theme: "Bioinformatics (or making apples as big as a house)"— Presentation transcript:

Similar presentations

About project

Feedback