WSSP-07 Lecture and Lab Files
This web page provides links to materials for the Waksman Student Scholars Program-2007. This information is intended for the students and faculty participating in the program during the 2007 summer and through the 2007-2008 academic year. This material is not intended for general public use and access is password protected. The material on these pages is provided for educational purposes only. Unauthorized use of this material is prohibited. If you wish to download the files or have comments or questions about the material please contact Sue Coletta, Waksman Institute, Rutgers University.
WSSP-07 Lecture notes and figures
Ch. |
Topic | Notes (.doc) |
Notes (.pdf) |
Figures (.ppt) |
| Introduction and overview of project | Ch.0.ppt (1.9M) | |||
1 |
Vectors: Plasmids, Libraries, and Plasmid DNA preps | Ch. 1 1.2 M | Ch. 1 1.4 M | Ch1.ppt (2 M) |
2 |
Restriction enzymes and PCR, Mapping the size of an insert | Ch. 2 1.1 M | Ch. 2 1.3 M | Ch2.ppt (1.3M) |
3 |
DNA Sequencing, Logging onto DSAP | Ch. 3 1.1 M | Ch. 3 988 K | Ch3.ppt (2.2 M) |
4 |
Sequence quality, cropping the ends | Ch. 4 2.2 M | Ch. 4 1.8 M | Ch4.ppt (2.4 M) |
5 |
Editing the waveform | Ch. 5 536 K | Ch. 5 532 K | Ch5.ppt (0.6M) |
6 |
Analysis of XP sequences: determine overlap, contigs | Ch. 6 2.2 M | Ch. 6 1.8 M | Ch6.ppt (1.8M) |
7 |
BLASTN (DNA vs DNA search) | Ch. 7 1.1 M | Ch. 7 1 M | Ch7.ppt (1.1M) |
8 |
BLASTX (Translated DNA vs Protein search) | Ch. 8 452 K | Ch. 8 288 K | Ch8.ppt (0.6M) |
9 |
Determining ORFs, BLASTP (Protein vs Protein search) | Ch. 9 688 K | Ch. 9 684 K | Ch9.ppt (0.4M) |
10 |
Literature Search | Ch. 10 2.1 M | Ch. 10 2.1 M | Ch10.ppt (1.9M) |
11 |
Multiple Sequence alignment and structure analysis | Ch. 11 2.3 M | Ch. 11 2.2 M | Ch11.ppt (XM) |
12 |
Spanning the gap between SP and XP sequences | Ch. 12 1.5 M | Ch. 12 M 1.7 M | Ch12.ppt (2.5 M) |
13 |
Protein analysis, SDS gels, Western Blots |
Ch. 13 1.1 M | Ch. 13 1.6 M | Ch13.ppt (0.9 M) |
| GE Background and Principals, Protocols, & Results | Background (pdf) | Protocols (pdf) | Results (ppt) | |
14 |
Preparing a poster | Ch14.ppt (4.8M) |
WSSP-07 Lab protocols and notes
Lab |
Topic | .doc File | .pdf File (Size) |
0 |
Introduction to the WSSP laboratory | Lab 0 (120K) | Lab 0 (120K) |
1 |
Pipeting and weighing | Lab 1 (360K) | Lab 1 (360K) |
2 |
Sterile technique and setting up ON cultures | Lab 2 (92K) | Lab 2 (92K) |
3 |
Plasmid DNA minipreps | Lab 3 (168K) | Lab 3 (168K) |
4 |
Restriction enzymes and PCR (Detailed protocol) | Lab 4 (92K) | Lab 4 (92K) |
5 |
Preparing an agarose gel (Detailed protocol) | Lab 5 (40K) | Lab 5 (40K) |
6 |
Running an agarose gel | Lab 6 (180K) | Lab 6 (180K) |
7 |
DNA Sequencing | Lab 7 (40K) | Lab 7 (40K) |
8 |
Deletion subcloning of a library plasmid | Lab 8 (184K) | Lab 8 (104K) |
9S |
HiTrap column chromatography (student protocol) | Lab 9 (216K) | Lab 9 (424K) |
9T |
HiTrap column chromatography (teacher protocol) | Lab 9 (320K) | Lab 9 (452K) |
| Recipe for 1X TBE + EtBr | (.doc) | ||
| Fall 2007 Supply list and instructions for experiments at the schools | (.doc) |
Background and Research Literature
Gilbert Van Stappen, Introduction, biology and ecology of Artemia. http://www.fao.org/DOCREP/003/W3732E/w3732e0m.htm
Editorial on the value of sequencing genomes from divers organisms Nature 2007, 449, page 1