BME103 - Revision history

Karmella Haynes at 18:02, 19 March 2013

2013-03-19T18:02:54Z

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Karmella Haynes at 17:51, 19 March 2013

2013-03-19T17:51:45Z

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Karmella Haynes: /* How Well Did OpenPCR + Single Drop Imaging Perform? */

2013-01-17T02:19:33Z

How Well Did OpenPCR + Single Drop Imaging Perform?

←Older revision		Revision as of 02:19, 17 January 2013
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	\| '''Sample''' \|\| blank \|\| DNA \|\| blank \|\| blank \|\| blank \|\| DNA \|\| DNA \|\| DNA		\| '''Sample''' \|\| blank \|\| DNA \|\| blank \|\| blank \|\| blank \|\| DNA \|\| DNA \|\| DNA
	\|-		\|-
-	\| '''Gel''' \|\| none \|\| band \|\| none \|\| none \|\| none \|\| band \|\| ~~band~~ \|\| band	+	\| '''Gel''' \|\| none \|\| band \|\| none \|\| none \|\| none \|\| band \|\| ? \|\| band
	\|- valign="top"		\|- valign="top"
	\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2		\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2

Karmella Haynes: /* Week 2: DNA Amplification Reactions, 10/24/12 */

2013-01-17T02:17:38Z

Week 2: DNA Amplification Reactions, 10/24/12

←Older revision		Revision as of 02:17, 17 January 2013
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	<br><br>		<br><br>

		+
		+	Students were introduced to a '''Single Drop Fluorimeter''' fluorescence-based DNA detection device that was designed by Dr. Garcia. When a natural or PCR-amplified double-stranded DNA sample is stained with SYBR green and exposed to a blue LED light, the drop fluoresces green. The signal is captured as an image with the user's '''camera phone'''.
	<center>		<center>
	<gallery style="background-color: #F0F0FF; border: 0;" widths=200px heights=200px>		<gallery style="background-color: #F0F0FF; border: 0;" widths=200px heights=200px>
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	</gallery>		</gallery>
	</center>		</center>
-
-	Students were introduced to a '''Single Drop Fluorimeter''' fluorescence-based DNA detection device that was designed by Dr. Garcia. When a natural or PCR-amplified double-stranded DNA sample is stained with SYBR green and exposed to a blue LED light, the drop fluoresces green. The signal is captured as an image with the user's '''camera phone'''.

Karmella Haynes at 00:58, 12 January 2013

2013-01-12T00:58:13Z

←Older revision		Revision as of 00:58, 12 January 2013
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	<font size=5>Introduction to Biomedical Engineering</font><br><br>		<font size=5>Introduction to Biomedical Engineering</font><br><br>
-	Body Temperature Lab Learning Objectives: Students will learn to design a thermal shirt to monitor body temperature and to ascertain and develop to a market a unique solution with benefits over state-of-the-art technologies. Students will identify those technologies and highlight their improvements in the design. Accuracy of the thermo shirt will be assessed by calculating accuracy and reproducibility of the new thermal shirt and comparing these values to a gold standard, such as an oral or tympanic thermometer.<br><br>	+	'''Body Temperature Lab''' Learning Objectives: Students will learn to design a thermal shirt to monitor body temperature and to ascertain and develop to a market a unique solution with benefits over state-of-the-art technologies. Students will identify those technologies and highlight their improvements in the design. Accuracy of the thermo shirt will be assessed by calculating accuracy and reproducibility of the new thermal shirt and comparing these values to a gold standard, such as an oral or tympanic thermometer.<br><br>

-	DNA Lab Learning Objectives: Students should leave this unit equipped with a theoretical understanding of how to ~~'''~~detect DNA biomarkers~~'''~~ and the relevance of this technology to human healthcare. Emphasis will be on good lab/experimental controls and the collection of statistically valid measurements. Students will also understand how commonly used lab devices function, and explore the recent efforts to simplify experiments and to lower costs. At the end of the section, students will explore creative new biosensor designs based on PCR and fluorescent imaging.	+	'''DNA Lab''' Learning Objectives: Students should leave this unit equipped with a theoretical understanding of how to detect DNA biomarkers and the relevance of this technology to human healthcare. Emphasis will be on good lab/experimental controls and the collection of statistically valid measurements. Students will also understand how commonly used lab devices function, and explore the recent efforts to simplify experiments and to lower costs. At the end of the section, students will explore creative new biosensor designs based on PCR and fluorescent imaging.

	<br>		<br>

Karmella Haynes at 00:57, 12 January 2013

2013-01-12T00:57:33Z

←Older revision		Revision as of 00:57, 12 January 2013
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	<font size=5>Introduction to Biomedical Engineering</font><br><br>		<font size=5>Introduction to Biomedical Engineering</font><br><br>
-	Learning Objectives: Students should leave this unit equipped with a theoretical understanding of how to '''detect DNA biomarkers''' and the relevance of this technology to human healthcare. Emphasis will be on good lab/experimental controls and the collection of statistically valid measurements. Students will also understand how commonly used lab devices function, and explore the recent efforts to simplify experiments and to lower costs. At the end of the section, students will explore creative new biosensor designs based on PCR and fluorescent imaging.	+	Body Temperature Lab Learning Objectives: Students will learn to design a thermal shirt to monitor body temperature and to ascertain and develop to a market a unique solution with benefits over state-of-the-art technologies. Students will identify those technologies and highlight their improvements in the design. Accuracy of the thermo shirt will be assessed by calculating accuracy and reproducibility of the new thermal shirt and comparing these values to a gold standard, such as an oral or tympanic thermometer.<br><br>
		+
		+	DNA Lab Learning Objectives: Students should leave this unit equipped with a theoretical understanding of how to '''detect DNA biomarkers''' and the relevance of this technology to human healthcare. Emphasis will be on good lab/experimental controls and the collection of statistically valid measurements. Students will also understand how commonly used lab devices function, and explore the recent efforts to simplify experiments and to lower costs. At the end of the section, students will explore creative new biosensor designs based on PCR and fluorescent imaging.

	<br>		<br>

Karmella Haynes: /* How Well Did OpenPCR + Single Drop Imaging Perform? */

2013-01-12T00:37:03Z

How Well Did OpenPCR + Single Drop Imaging Perform?

←Older revision		Revision as of 00:37, 12 January 2013
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	\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2		\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2
	\|}		\|}
		+
		+	</center>


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-	~~</center>~~

Karmella Haynes: /* How Well Did OpenPCR + Single Drop Imaging Perform? */

2013-01-12T00:36:52Z

How Well Did OpenPCR + Single Drop Imaging Perform?

←Older revision		Revision as of 00:36, 12 January 2013
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	<div style="background-color: #F0F0FF; padding: 10px;">		<div style="background-color: #F0F0FF; padding: 10px;">

-	The instructors compared traditional gel electrophoresis with the results from the new single drop Fluorimeter approach. Each '''Sample''' either has template DNA or is blank. Only DNA Samples should produce amplification (visible band as a '''Gel''' result, or high '''Fluorimeter''' value). The OpenPCR system successfully amplified products of the expected size, and the Single Drop Fluorimeter measurements agreed with gel electrophoresis data. Overall, the system is a success~~. Furthermore, the Fluorimeter is much quicker and scales up for large class settings much more easily than gel electrophoresis~~.	+	The instructors compared traditional gel electrophoresis with the results from the new single drop Fluorimeter approach. Each '''Sample''' either has template DNA or is blank. Only DNA Samples should produce amplification (visible band as a '''Gel''' result, or high '''Fluorimeter''' value). The OpenPCR system successfully amplified products of the expected size, and the Single Drop Fluorimeter measurements agreed with gel electrophoresis data. Overall, the system is a success.

	<center>		<center>
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	\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2		\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2
	\|}		\|}
		+
		+
		+	CONCLUSIONS
		+	* Amplification of a single band. No non-specific background
		+	* No false positives in the absence of template DNA
		+	* The Fluorimeter is a quick and simple-to-use alternative to gel electrophoresis.
		+	* OpenPCR + the Single Drop Fluorimeter system makes PCR labs scalable (230 students in this class).
		+

Karmella Haynes: /* How Well Did OpenPCR + Single Drop Imaging Perform? */

2013-01-12T00:02:35Z

How Well Did OpenPCR + Single Drop Imaging Perform?

←Older revision		Revision as of 00:02, 12 January 2013
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	\|-		\|-
	\| '''Gel''' \|\| band \|\| none \|\| band \|\| band \|\| band \|\| none \|\| none \|\| none		\| '''Gel''' \|\| band \|\| none \|\| band \|\| band \|\| band \|\| none \|\| none \|\| none
-	\|-	+	\|- valign="top"
-	\| '''Fluorimeter<br>(μg/mL)''' \|\| 1.77 \|\| 0.24 \|\| 1.39 \|\| 1.54 \|\| 2.39 \|\| 0.40 \|\| 0.47 \|\| 0.62	+	\| '''Fluorimeter<br>(μg/mL)'''<br><br> \|\| 1.77 \|\| 0.24 \|\| 1.39 \|\| 1.54 \|\| 2.39 \|\| 0.40 \|\| 0.47 \|\| 0.62
	\|-		\|-
	\| rowspan=3 valign="top" \| Group 2		\| rowspan=3 valign="top" \| Group 2
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	\|-		\|-
	\| '''Gel''' \|\| none \|\| band \|\| none \|\| none \|\| none \|\| band \|\| band \|\| band		\| '''Gel''' \|\| none \|\| band \|\| none \|\| none \|\| none \|\| band \|\| band \|\| band
-	\|-	+	\|- valign="top"
	\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2		\| '''Fluorimeter<br>(μg/mL)''' \|\| n/d \|\| n/d \|\| 0.00 \|\| 1.10 \|\| 1.2 \|\| 4.00 \|\| 0.70 \|\| 2.2
	\|}		\|}

Karmella Haynes: /* How Well Did OpenPCR + Single Drop Imaging Perform? */

2013-01-12T00:01:20Z

How Well Did OpenPCR + Single Drop Imaging Perform?

←Older revision		Revision as of 00:01, 12 January 2013
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	<center>		<center>

-	{\| ~~{{table}}~~ border=0 cellspacing=~~2px~~	+	{\| border="0" cellspacing="1"
	\|-		\|-
	\| rowspan="17" \| [[Image:KAH102412_gel1.png\|250px\|Gel electrophoresis]]<br>Samples from Wednesday groups 1 and 2 <br>resolved on a 1% agarose etBr-stained gel.		\| rowspan="17" \| [[Image:KAH102412_gel1.png\|250px\|Gel electrophoresis]]<br>Samples from Wednesday groups 1 and 2 <br>resolved on a 1% agarose etBr-stained gel.