Genomic Integrity 2018 - Revision history

Vithoo at 13:23, 4 September 2018

2018-09-04T13:23:56Z

Vithoo: /* Procedure */

2018-09-04T13:22:09Z

Procedure

Vithoo at 08:36, 4 September 2018

2018-09-04T08:36:34Z

Vithoo: /* Objectives */

2018-09-04T07:59:41Z

Objectives

Vithoo at 14:40, 3 September 2018

2018-09-03T14:40:10Z

Vithoo at 14:39, 3 September 2018

2018-09-03T14:39:00Z

Vithoo at 13:20, 28 August 2018

2018-08-28T13:20:25Z

Vithoo at 13:06, 28 August 2018

2018-08-28T13:06:23Z

Vithoo at 12:45, 28 August 2018

2018-08-28T12:45:17Z

Vithoo at 14:08, 27 August 2018

2018-08-27T14:08:12Z

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 ==Procedure==
-Precisely, we will use two methods [[Micronuclei Assay 2018]] and [[Comet Cell Assay 2018]], find a way to make the procedures as simple as possible using a chip and make an algorithm to handle the results. <br>
+Precisely, we will use two methods [[Micronuclei Assay 2018]] and [[Comet Cell Assay 2018]], find a way to make the procedures as simple as possible using a chip and make an algorithm to handle the results. ''For the detailed protocol, see [[Step by step protocol for comet assay]]'' <br>
 For both, we tried to replace all the toxic or hard to find components by "[[kitchen-sink-ingredients]]", in order to make this technique widely usable by anyone, even without the appropriate equipment. <br>
 ==References==
 <references />

← Older revision		Revision as of 13:22, 4 September 2018
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	For both, we tried to replace all the toxic or hard to find components by "[[kitchen-sink-ingredients]]", in order to make this technique widely usable by anyone, even without the appropriate equipment. <br>		For both, we tried to replace all the toxic or hard to find components by "[[kitchen-sink-ingredients]]", in order to make this technique widely usable by anyone, even without the appropriate equipment. <br>
−
−	The first target was SYBR Safe.<ref>[https://www.thermofisher.com/us/en/home/life-science/dna-rna-purification-analysis/nucleic-acid-gel-electrophoresis/dna-stains/sybr-safe.html ThermoFischer's documentations for SYBR Safe]. Retrieved 27 August 2018.</ref> Even though SYBR Safe is far less toxic than Ethidium Bromide, SYBR Gold or other fluorescent dyes, it has not zero toxicity. By its mode of action (intercalation), it can be carcinogenic and the obligation to use a specific light (here a powerful blue light) is an obstacle for easy procedures and it can cause harm to the eyes of the user. <br>
−
−	Therefore, we wanted to use Methylene Blue.<ref>[https://en.wikipedia.org/wiki/Methylene_blue Wikipedia page for Methylene Blue]. Retrieved 27 August 2018.</ref> As it is positively charged, it will bind to the outside structure of the DNA, without intercalating within it and without triggering much mutation. Plus, Methylene Blue is easy to find (it is on the WHO's list of essential medicines). Whereas for the Micronuclei Assay the methylene blue worked well, for the Comet Assay methylene blue did not give satisfactory results. <br>
−
−	~~Photos of comet <br>~~
−
−

	==Protocol==		==Protocol==

@@ Line 6: / Line 6: @@
 ==Objectives==
 Therefore, the objectives of this internship would be:
-* To make a ready to use device, the best being automatic, for people (even non-scientist) to use easily;
+* To make a ready to use device: [[Chip for genomic integrity 2018]], the best being automatic, for people (even non-scientist) to use easily;
 * To use "[[kitchen-sink-ingredients]]" to promote easy to do and safe citizen science;
 * Finally, to develop an [[Automatic Cell Counter Algorithm]] able to count cells and control different parameters (their sizes, the length of their comet tails and recognition of micronuclei). <br>
@@ Line 30: / Line 30: @@
 ''For the detailed protocol, see [[Step by step protocol for comet assay]]''
 ==References==
 <references />

@@ Line 7: / Line 7: @@
 Therefore, the objectives of this internship would be:
 * To make a ready to use device, the best being automatic, for people (even non-scientist) to use easily;
 * To use "[[kitchen-sink-ingredients]]" to promote easy to do and safe citizen science;
 * Finally, to develop an [[Automatic Cell Counter Algorithm]] able to count cells and control different parameters (their sizes, the length of their comet tails and recognition of micronuclei). <br>
 ==Procedure==

@@ Line 9: / Line 9: @@
 * To use a Foldscope<ref>[https://www.foldscope.com/ Official website of the Foldcope].Retrieved 2 August 2018.</ref> <ref>[http://wiki.hackuarium.ch/w/Foldscope Wiki of the hackuarium].Retrieved 28 August 2018.</ref> or a microscope to make photos with a RaspBerry Pi, using an [[automatic stage]];
 * To use "[[kitchen-sink-ingredients]]" to promote easy to do and safe citizen science;
-* Finally, to develop an [[algorithm]] able to count cells and control different parameters (their sizes, the length of their comet tails and recognition of micronuclei). <br>
+* Finally, to develop an [[Automatic Cell Counter Algorithm]] able to count cells and control different parameters (their sizes, the length of their comet tails and recognition of micronuclei). <br>
 ==Procedure==

@@ Line 1: / Line 1: @@
-Summer 2018 Genomic Integrity.
+Summer 2018 Genomic Integrity Project.
 ==Issue==
@@ Line 5: / Line 5: @@
 ==Objectives==
-Therefore, the objectives of this internship would be to make:
+Therefore, the objectives of this internship would be:
-* A ready to use device, the best being automatic, for people (even non-scientist) to use easily;
+* To make a ready to use device, the best being automatic, for people (even non-scientist) to use easily;
-* Using "[[kitchen-sink-ingredients]]" to promote easy to do and safe citizen science;
+* To use a microscope to make photos with a RaspBerry Pi or a Foldscope;
-* Finally, developing an algorithm able to count cells and control different parameters (their sizes, the length of their comet tails, ...). <br>
+* To use "[[kitchen-sink-ingredients]]" to promote easy to do and safe citizen science;
 ==Procedure==

@@ Line 10: / Line 10: @@
 * Finally, developing an algorithm able to count cells and control different parameters (their sizes, the length of their comet tails, ...). <br>
 Precisely, we will use two methods [[Micronuclei Assay 2018]] and [[Comet Cell Assay 2018]], find a way to make the procedures as simple as possible using a chip and make an algorithm to handle the results. <br>
 For both, we tried to replace all the toxic or hard to find components by "[[kitchen-sink-ingredients]]", in order to make this technique widely usable by anyone, even without the appropriate equipment. <br>
-The first target was SYBR Safe. <ref>[https://www.thermofisher.com/us/en/home/life-science/dna-rna-purification-analysis/nucleic-acid-gel-electrophoresis/dna-stains/sybr-safe.html ThermoFischer's documentations for SYBR Safe]. Retrieved 27 August 2018.</ref>
+The first target was SYBR Safe.<ref>[https://www.thermofisher.com/us/en/home/life-science/dna-rna-purification-analysis/nucleic-acid-gel-electrophoresis/dna-stains/sybr-safe.html ThermoFischer's documentations for SYBR Safe]. Retrieved 27 August 2018.</ref> Even though SYBR Safe is far less toxic than Ethidium Bromide, SYBR Gold or other fluorescent dyes, it has not zero toxicity. By its mode of action (intercalation), it can be carcinogenic and the obligation to use a specific light (here a powerful blue light) is an obstacle for easy procedures and it can cause harm to the eyes of the user. <br>
 ==Protocol==