Lessons and Assignments - Sacred Heart Academy

Term II, 2007-08

January							February
Sun	Mon	Tue	Wed	Thur	Fri	Sat	Sun	Mon	Tue	Wed	Thur	Fri	Sat
		1	2	3	4	5						1	2
6	7	8	9	10	11	12	3	4	5	6	7	8	9
13	14	15	16	17	18	19	10	11	12	13	14	15	16
20	21	22	23	24	25	26	17	18	19	20	21	22	23
27	28	29	30	31			24	25	26	27	28	29	30

Color-Coded Legend for Special Schedules:

No School	1:30 Dismissal	1:10 Dismissal
Noon dismissal	Class Meetings	First Friday/Liturgy
Grades Close	Exams	Regular Schedule

March							April
Sun	Mon	Tue	Wed	Thur	Fri	Sat	Sun	Mon	Tue	Wed	Thur	Fri	Sat
						1			1	2	3	4	5
2	3	4	5	6	7	8	6	7	8	9	10	11	12
9	10	11	12	13	14	15	13	14	15	16	17	18	19
16	17	18	19	20	21	22	20	21	22	23	24	25	26
23	24	25	26	27	28	29	27	28	29	30
30	31

Color-Coded Legend for Special Schedules:

No School	1:30 Dismissal	1:10 Dismissal
Noon dismissal	Class Meetings	First Friday/Liturgy
Grades Close	Exams	Regular Schedule
Holiday Hill

May							June
Sun	Mon	Tue	Wed	Thur	Fri	Sat	Sun	Mon	Tue	Wed	Thur	Fri	Sat
				1	2	3	1	2	3	4	5	6	7
4	5	6	7	8	9	10	8	9	10	11	12	13	14
11	12	13	14	15	16	17	15	16	17	18	19	20	21
18	19	20	21	22	23	24	22	23	24	25	26	27	28
25	26	27	28	29	30		29	30	31

Date	Class Topic	Assignment
8/28/07 (B-D-F)	Lesson Unit/Topic Go over syllabus, research plan Safety Information	Read journal article: Complete mtDNA Sequence... and MtDNA Gene Arrangement... Read Safety Information; sign contract
8/30/07 (B-D-F)	Lesson Unit/Topic Discussion of articles	.Use NCBI: PubMed to research COI/COX and human disease relationship
9/4/07 (B-D-F)	Lesson Unit/Topic Open Forum: NCBI PubMed results Central Dogma	Animation Link(s) and review
Date	Class Topic	Assignment
9/6/07 (B-D-F)	Lesson Unit/Topic Molecular Biology Cont'd	Read and review translation
9/10/07 (B-D-F)	Lesson Unit/Topic Translation and post translational modification	Read: Lessons on RNA through Protein Folding
9/12/07 (B-D-F)	Lesson Unit/Topic RNAi	Read RNAi; view animations
9/14/07 (B-D-F)	Lesson Unit/Topic Bioinformatics Lesson: Use of NCBI	.Study for test
9/18/07 (B-D-F)	Lesson Unit/Topic Test on Molecular Biology	Journal articles
9/20/07 (B-D-F)	Lesson Unit/Topic Extraction	Journal articles
9/24/07 (B-D-F)	Lesson Unit/Topic PCR and primers	Manual Primer design
9/26/07 (B-D-F)	Lesson Unit/Topic Primer design; sofltware	.Primer Design and Analysis
9/28/07 (B-D-F)	Lesson Unit/Topic Design primers for project	.
Date	Class Topic	Assignment
10/2/07 (B-D-F)	Lesson Unit/Topic Primer design	.
10/4/07 (B-D-F)	Lesson Unit/Topic Complete primer design and analysis	.Flow chart for extraction
10/9/07 (B-D-F)	Lesson Unit/Topic DNA Extraction Lab	.V Map
10/11/07 (B-D-F)	Lesson Unit/Topic DNA Quantitation	.
10/15/07 (B-D-F)	Lesson Unit/Topic Primer math and resuspension Design PCR rxns	.flow charts: include primer stock solutions and working stock soln for pcr as well as IV for reactions for Wednesday
10/17/07 (B-D-F)	Lesson Unit/Topic No Class	No Class
10/19/07 (B-D-F)	Lesson Unit/Topic complete primer resuspension create working stocks 1st set of PCR rxns	.Flow Chart
10/23/07 (B-D-F)	Lesson Unit/Topic Run reactions out on gel; photodocument and analyze results prep next set of reactions or troubleshoot	V Map for pcr reaction set 1.
10/25/07 (B-D-F)	Lesson Unit/Topic PCR rxns: series 2	.
10/29/07 (B-D-F)	Lesson Unit/Topic Run gel for series 2, photodocument and analyze Prep next set of reactions	.
10/31/07 (B-D-F)	Lesson Unit/Topic Run gel for series 3 and make PBS buffer for extractions	.
Date	Class Topic	Assignment
11/2/07 (B-D-F)	Lesson Unit/Topic set 3 pcr	V map
11/6/07 (B-D-F)	Lesson Unit/Topic Limulus prep CCM review	.flow chart and v map
11/8/07 (B-D-F)	Lesson Unit/Topic run gel for set 3	.Flow Chart for extraction lab
11/13/07 (B-D-F)	Lesson Unit/Topic extraction lab	V Map for extraction lab
11/15/07 (B-D-F)	Lesson Unit/Topic Run gel	.Analyze Jim's article/extraction process
11/19/07 (B-D-F)	Lesson Unit/Topic Brainstorming and isolation direction	.Anticoagulation alternative? Coagulation process
11/21/07 (B-D-F)	Lesson Unit/Topic Protocol variations	.No assignment over vacation
11/27/07 (B-D-F)	Lesson Unit/Topic FTA Cards: extraction of DNA from serum and clots	.Math problems
11/29/07 (B-D-F)	Lesson Unit/Topic FTA purifications run gels	.Flow chart for FTA protocols
Date	Class Topic	Assignment
12/3/07 (B-D-F)	Lesson Unit/Topic 16 PCR reactions	.V map for FTA
12/5/07 (B-D-F)	Lesson Unit/Topic run gels	.flow chart for sperm: 1c Qiagen
12/7/07 (B-D-F)	Lesson Unit/Topic sperm DNA extraction	.
12/11/07 (B-D-F)	Lesson Unit/Topic Claw tissue mtDNA extraction	.
12/13/07 (B-D-F)	Lesson Unit/Topic Purify DNA extractions Load more samples	.
12/17/07 (B-D-F)	Lesson Unit/Topic DNA Extraction	.
12/19/07 (B-D-F)	Lesson Unit/Topic organization	.
12/21/07 (B-D-F)	Lesson Unit/Topic DNA purification	.
Date	Class Topic	Assignment
1/4/08 (B-D-F)	Lesson Unit/Topic next set of 16 PCR reactions	. Study for exams
1/8/08 (B-D-F)	Lesson Unit/Topic Run gels and exam review	Prepare for Final Exam
1/14/08 (B-D-F)		Exams B1, B2
1/15/08 (B-D-F)		Exams B3, B4

Date

Class Topic

Assignment

1/18/08

(D)

Lesson Unit/Topic

pcr and run gels

.NCBI: Science primer: Microarray Technology

1/23/08

(F;1:10)

Lesson Unit/Topic

re-run gels; Microarray Lesson

. Design 50-mer

1/25/08

(B)

Lesson Unit/Topic

Part II: Microarray Experiment

. re-design primer 3F and design 2 new oligos with the 13 match distance and 24 on either end. Watch the tm.

1/29/08

(D)

Lesson Unit/Topic

complete microarray analsis

individual assignments

1/31/08

(F)

Lesson Unit/Topic

crab extractions

SNP identification

Date

Class Topic

Assignment

2/4/08

(B)

Lesson Unit/Topic

Purification and final extraction

. Responses to Wes' questions

2/6/08

(D; Paraliturgy)

Lesson Unit/Topic

Pre-class: PCR

Run gel and PCR

.SNP article

2/8/08

(F)

Lesson Unit/Topic

Run gel and PCR

.Comparison and Analysis of 4 crab 2 reactions that failed and the 13 that worked.

2/12/08

(B; Class Mtg)

Lesson Unit/Topic

Pre-class 18 punches from crab 1

Purification

.Organization; find meetings

2/14/08

(D)

Lesson Unit/Topic

final PCR of crab 1

WINTER BREAK (February 18-22)

2/25/08

(F)

Lesson Unit/Topic

Run gels and pcr reactions with different annealing temps

2/27/08

(B; Noon)

Lesson Unit/Topic

FTA punches and wash

.Flow chart and V map for pcr purification

2/29/08

(D)

Lesson Unit/Topic

no class

Date

Class Topic

Assignment

3/4/08

(F)

Lesson Unit/Topic

claw pcr reactions

. flow chart and V map

3/6/08

(B)

Lesson Unit/Topic

run gels/analyze

last set of claw pcr reactions

3/10/08

(D)

Lesson Unit/Topic

run gels/analyze

set up pcr purifications

3/12/08

(F)

Lesson Unit/Topic

run last set of gels;analyze; begin purification

3/14/08

(B)

Lesson Unit/Topic

purification

abstract ideas.

3/18/08

(D)

Lesson Unit/Topic

purification/abstract decision

.Write abstract

3/20/08

(F; Noon)

Lesson Unit/Topic

abstract/purification

.No HW over holiday

3/25/08

(B; Grades Close)

Lesson Unit/Topic

Abstract draft

.abstract draft II

3/27/08

(D)

Lesson Unit/Topic

finalize abstract; plans

3/31/08

(F)

Lesson Unit/Topic

Complete purification

Date

Class Topic

Assignment

4/2/08

(B)

Lesson Unit/Topic

quantitation

.sequencing approach

4/4/08

(D; First Friday)

Lesson Unit/Topic

quantitation

.Flow chart for quantitation

4/8/08

(F)

Lesson Unit/Topic

quantitation and seq. rxns

.Flow chart for sequencing

4/10/08

(B)

Lesson Unit/Topic

purification of extension products

.V may for sequencing

SPRING BREAK (April 14-18)

4/21/08

(D)

Lesson Unit/Topic

quantitation and seq. prep for next set of reactions

4/23/08

(F; Health Day)

Lesson Unit/Topic

run sequencing rxns

4/25/08

(B)

Lesson Unit/Topic

purification of extension products

4/29/08

(D)

Lesson Unit/Topic

run last set of seq. reactions

Date

Class Topic

Assignment

5/1/08

(F; Liturgy)

Lesson Unit/Topic

purification of extension products

5/5/08

(B)

Lesson Unit/Topic

Resuspension of pellets

Sequencing of all reactions

5/7/08

(D)

Lesson Unit/Topic

Sequencing analysis

5/9/08

(F)

Lesson Unit/Topic

Sequencing Analysis/Poster

.Vmaps and flow charts due

5/13/08

(B)

Lesson Unit/Topic

sequencing Analysis/Poster

5/15/08

(D)

Lesson Unit/Topic

sequencing Analysis/Poster

.Slides due; lab report: v map and flow chart

5/20/08

(F)

Lesson Unit/Topic

sequencing Analysis/Poster

.All slides sent to smj for final grade

5/22/08

(B)

Lesson Unit/Topic

sequencing Analysis/Poster

5/27/08

(D)

Lesson Unit/Topic

5/29/08

(F)

Lesson Unit/Topic

Date

Class Topic

Assignment

6/2/08
(B; Noon)

Lesson Unit/Topic

Prepare for Final Exam

6/3/08
(B4, B3)

Exams B4, B3

6/4/08
(B2, B1)

Exams B2, B1