QLanners Week 4 - Revision history

Qlanners: added signature and quote to acknowledgements

2017-09-25T22:32:34Z

added signature and quote to acknowledgements

Qlanners: /* References */ added line breaks

2017-09-25T21:25:20Z

‎References: added line breaks

Qlanners: /* Acknowledgements */ fixed a small typo

2017-09-25T21:24:33Z

‎Acknowledgements: fixed a small typo

Qlanners: added acknowledgements and references

2017-09-25T21:23:59Z

added acknowledgements and references

Qlanners: Added to electronic journal on the process Emma and I took to finish our webpage as a group. Also added completed zip file and template

2017-09-25T21:17:47Z

Added to electronic journal on the process Emma and I took to finish our webpage as a group. Also added completed zip file and template

Qlanners: fixed spacing for sequences

2017-09-25T01:43:57Z

fixed spacing for sequences

Qlanners: added notes on our gene from information from the first database

2017-09-25T01:41:46Z

added notes on our gene from information from the first database

Qlanners: added beginning of electronic journal

2017-09-24T19:48:20Z

added beginning of electronic journal

New page

For this week's assignment, [[User:Emmatyrnauer|Emma Tyrnauer]] and I surfed the [http://www.yeastgenome.org ''Saccharomyces'' Genome Database (SGD)] after Thursday's class period. We picked the gene ADA2 as our favorite gene to focus on for the week.

To start this week's assignment, Emma and I decided to both individually do the initial research on the ADA2 gene using the four websites on the assignment page. I started my research by visiting the

@@ Line 61: / Line 61: @@
 *Dr. Dondi for teaching us how to navigate HTML and use Bootstrap
 *Dr. Dahlquist for the lesson on how to analyze the quality of a database
 ==References==

@@ Line 63: / Line 63: @@
 ==References==
-Bootstrap. (2017). Documentation. Retrieved September 25, 2017, from https://getbootstrap.com/docs/4.0/getting-started/introduction/
+Bootstrap. (2017). Documentation. Retrieved September 25, 2017, from https://getbootstrap.com/docs/4.0/getting-started/introduction/ <br>
-Ensembl. (2017). "Gene: ADA2". Retrieved September 24, 2017, from https://www.ensembl.org/Saccharomyces_cerevisiae/Transcript/Summary?db=core;g=YDR448W;r=IV:1356065-1357369;t=YDR448W
+Ensembl. (2017). "Gene: ADA2". Retrieved September 24, 2017, from https://www.ensembl.org/Saccharomyces_cerevisiae/Transcript/Summary?db=core;g=YDR448W;r=IV:1356065-1357369;t=YDR448W<br>
-LMU BioDB 2017. (2017). Week 4. Retrieved September 25, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_4
+LMU BioDB 2017. (2017). Week 4. Retrieved September 25, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_4 <br>
-NCBI. (2017). "ADA2 chromatin-binding transcription regulator". Retrieved September 24, 2017, from https://www.ncbi.nlm.nih.gov/gene/852059
+NCBI. (2017). "ADA2 chromatin-binding transcription regulator". Retrieved September 24, 2017, from https://www.ncbi.nlm.nih.gov/gene/852059 <br>
-Saccharomyces Genome Database. (2017). "ADA2/YDR448W Overview". Retrieved September 24, 2017, from https://www.yeastgenome.org/locus/S000002856
+Saccharomyces Genome Database. (2017). "ADA2/YDR448W Overview". Retrieved September 24, 2017, from https://www.yeastgenome.org/locus/S000002856 <br>
-UniProt. (2017). "Q02336 (ADA2_Yeast)". Retrieved September 24, 2017, from http://www.uniprot.org/uniprot/Q02336
+UniProt. (2017). "Q02336 (ADA2_Yeast)". Retrieved September 24, 2017, from http://www.uniprot.org/uniprot/Q02336 <br>
-WikiMedia Commons. (2015). "File:Type ii nuclear receptor action.png". Retrieved September 25, 2017, from https://commons.wikimedia.org/wiki/File:Type_ii_nuclear_receptor_action.png
+WikiMedia Commons. (2015). "File:Type ii nuclear receptor action.png". Retrieved September 25, 2017, from https://commons.wikimedia.org/wiki/File:Type_ii_nuclear_receptor_action.png <br>
 ==Links==
 {{Template:QLannersLinks}}

@@ Line 59: / Line 59: @@
 ==Acknowledgements==
 *I met with my homework partner [[User:Emmatyrnauer|Emma Tyrnauer]] outside of class to work together on the webpage using notes we had taken prior.
-*Dr. Dondi for teaching use how to navigate HTML and use Bootstrap
+*Dr. Dondi for teaching us how to navigate HTML and use Bootstrap
 *Dr. Dahlquist for the lesson on how to analyze the quality of a database

@@ Line 55: / Line 55: @@
 After meeting with Emma, I looked through the webpage for any formatting errors and/or typos. After fixing all the errors that I had found, I uploaded the file. The final zip file for this assignment is below: <br>
 [[File:Lanners-Tyrnauer_2.zip]]
 ==Links==
 {{Template:QLannersLinks}}

@@ Line 1: / Line 1: @@
 For this week's assignment,  [[User:Emmatyrnauer|Emma Tyrnauer]] and I surfed the [http://www.yeastgenome.org ''Saccharomyces'' Genome Database (SGD)] after Thursday's class period. We picked the gene ADA2 as our favorite gene to focus on for the week.
-To start this week's assignment, Emma and I decided to both individually do the initial research on the ADA2 gene using the four websites on the assignment page. I started my research by visiting the [http://www.yeastgenome.org SGD website] on 9/24 . From here I obtained the following information:
+To start this week's assignment, Emma and I decided to both individually do the initial research on the ADA2 gene using the four websites on the assignment page. I started my research by visiting the [http://www.yeastgenome.org SGD website] on 9/24. From here I obtained the following information:
 *Standard Name: ADA2
 *Systematic Name: YDR448W
@@ Line 45: / Line 45: @@
 **transcription coactivator activity to increase the frequency, rate, or duration of transcription
-What was different about the information provided about your gene in each of the parent databases?
+Along with this table, we thought a carousel would be very effective to show the pros/cons/unique features of each database. This feature allows the webpage viewer to toggle between different slides to read on each database individually. Using Bootstraps code for carousels we were easily able to format this.

@@ Line 8: / Line 8: @@
 *Web address of gene to be used for hyperlink on webpage: https://www.yeastgenome.org/locus/S000002856
 *DNA Sequence:
-ATGTCAAACA AGTTTCACTG TGACGTTTGT TCAGCTGATT GCACGAACAG AGTGAGGGTT
+ATGTCAAACA AGTTTCACTG TGACGTTTGT TCAGCTGATT GCACGAACAG AGTGAGGGTT <br>
-TCATGTGCTA TTTGTCCCGA ATACGACTTA TGCGTGCCCT GCTTTTCACA AGGCTCGTAT
+TCATGTGCTA TTTGTCCCGA ATACGACTTA TGCGTGCCCT GCTTTTCACA AGGCTCGTAT <br>
-ACAGGAAAGC ATCGCCCTTA CCATGATTAT AGGATAATAG AGACCAATTC ATACCCCATT
+ACAGGAAAGC ATCGCCCTTA CCATGATTAT AGGATAATAG AGACCAATTC ATACCCCATT <br>
-CTCTGTCCTG ATTGGGGTGC CGATGAAGAA TTGCAGTTGA TTAAAGGCGC ACAGACTTTA
+CTCTGTCCTG ATTGGGGTGC CGATGAAGAA TTGCAGTTGA TTAAAGGCGC ACAGACTTTA <br>
-GGGCTCGGTA ATTGGCAGGA TATTGCTGAC CATATAGGCA GCAGAGGCAA AGAAGAAGTT
+GGGCTCGGTA ATTGGCAGGA TATTGCTGAC CATATAGGCA GCAGAGGCAA AGAAGAAGTT <br>
-AAGGAACATT ACCTAAAATA TTATCTGGAA AGCAAATACT ATCCAATACC TGATATTACC
+AAGGAACATT ACCTAAAATA TTATCTGGAA AGCAAATACT ATCCAATACC TGATATTACC <br>
-CAAAATATAC ATGTCCCACA AGATGAATTT TTGGAACAGC GAAGGCATAG AATCGAGTCC
+CAAAATATAC ATGTCCCACA AGATGAATTT TTGGAACAGC GAAGGCATAG AATCGAGTCC <br>
-TTCCGGGAGA GGCCGCTAGA GCCTCCAAGA AAGCCCATGG CATCGGTTCC TAGCTGCCAT
+TTCCGGGAGA GGCCGCTAGA GCCTCCAAGA AAGCCCATGG CATCGGTTCC TAGCTGCCAT <br>
-GAAGTACAGG GGTTTATGCC GGGCAGATTA GAATTTGAAA CAGAATTCGA AAATGAAGCT
+GAAGTACAGG GGTTTATGCC GGGCAGATTA GAATTTGAAA CAGAATTCGA AAATGAAGCT <br>
-GAAGGTCCCG TAAAGGATAT GGTTTTTGAA CCTGATGACC AGCCCTTAGA CATTGAATTG
+GAAGGTCCCG TAAAGGATAT GGTTTTTGAA CCTGATGACC AGCCCTTAGA CATTGAATTG <br>
-AAGTTTGCCA TCTTGGACAT TTACAATTCT AGATTGACAA CCAGAGCAGA AAAGAAAAGG
+AAGTTTGCCA TCTTGGACAT TTACAATTCT AGATTGACAA CCAGAGCAGA AAAGAAAAGG  <br>
-CTATTATTTG AAAACCATTT AATGGATTAC AGAAAGTTGC AAGCTATTGA CAAAAAGAGG
+CTATTATTTG AAAACCATTT AATGGATTAC AGAAAGTTGC AAGCTATTGA CAAAAAGAGG <br>
-AGCAAAGAAG CCAAAGAATT GTATAACCGC ATAAAACCTT TTGCTCGTGT TATGACTGCA
+AGCAAAGAAG CCAAAGAATT GTATAACCGC ATAAAACCTT TTGCTCGTGT TATGACTGCA <br>
-CAGGATTTTG AGGAATTTAG CAAGGATATA TTAGAAGAAT TGCATTGCAG GGCAAGAATA
+CAGGATTTTG AGGAATTTAG CAAGGATATA TTAGAAGAAT TGCATTGCAG GGCAAGAATA <br>
-CAGCAATTAC AAGAATGGAG AAGCAATGGG TTAACCACGT TAGAAGCAGG TCTTAAGTAT
+CAGCAATTAC AAGAATGGAG AAGCAATGGG TTAACCACGT TAGAAGCAGG TCTTAAGTAT <br>
-GAACGAGATA AGCAAGCTAG AATTAGCAGT TTCGAGAAAT TTGGCGCTTC TACGGCGGCG
+GAACGAGATA AGCAAGCTAG AATTAGCAGT TTCGAGAAAT TTGGCGCTTC TACGGCGGCG <br>
-TCACTCAGTG AGGGCAATAG CCGTTATAGG TCGAATTCTG CACATAGGTC GAACGCAGAA
+TCACTCAGTG AGGGCAATAG CCGTTATAGG TCGAATTCTG CACATAGGTC GAACGCAGAA <br>
-TACAGCCAAA ACTACAGCGA AAATGGCGGT AGAAAGAAAA ATATGACCAT TAGCGATATA
+TACAGCCAAA ACTACAGCGA AAATGGCGGT AGAAAGAAAA ATATGACCAT TAGCGATATA <br>
-CAGCATGCAC CTGACTATGC ACTGTTGTCC AACGACGAGC AGCAACTTTG TATTCAACTG
+CAGCATGCAC CTGACTATGC ACTGTTGTCC AACGACGAGC AGCAACTTTG TATTCAACTG <br>
-AAAATTTTAC CTAAACCGTA TCTCGTTCTA AAAGAGGTAA TGTTCAGAGA ACTGTTGAAG
+AAAATTTTAC CTAAACCGTA TCTCGTTCTA AAAGAGGTAA TGTTCAGAGA ACTGTTGAAG <br>
-ACTGGGGGTA ATCTAAGCAA AAGCGCATGT AGGGAACTAC TTAATATAGA CCCCATAAAA
+ACTGGGGGTA ATCTAAGCAA AAGCGCATGT AGGGAACTAC TTAATATAGA CCCCATAAAA <br>
-GCGAATAGAA TATACGATTT TTTCCAGAGC CAGAATTGGA TGTAA
+GCGAATAGAA TATACGATTT TTTCCAGAGC CAGAATTGGA TGTAA <br>
 *Protein Sequence:
-MSNKFHCDVC SADCTNRVRV SCAICPEYDL CVPCFSQGSY TGKHRPYHDY RIIETNSYPI
+MSNKFHCDVC SADCTNRVRV SCAICPEYDL CVPCFSQGSY TGKHRPYHDY RIIETNSYPI <br>
-LCPDWGADEE LQLIKGAQTL GLGNWQDIAD HIGSRGKEEV KEHYLKYYLE SKYYPIPDIT
+LCPDWGADEE LQLIKGAQTL GLGNWQDIAD HIGSRGKEEV KEHYLKYYLE SKYYPIPDIT <br>
-QNIHVPQDEF LEQRRHRIES FRERPLEPPR KPMASVPSCH EVQGFMPGRL EFETEFENEA
+QNIHVPQDEF LEQRRHRIES FRERPLEPPR KPMASVPSCH EVQGFMPGRL EFETEFENEA <br>
-EGPVKDMVFE PDDQPLDIEL KFAILDIYNS RLTTRAEKKR LLFENHLMDY RKLQAIDKKR
+EGPVKDMVFE PDDQPLDIEL KFAILDIYNS RLTTRAEKKR LLFENHLMDY RKLQAIDKKR <br>
-SKEAKELYNR IKPFARVMTA QDFEEFSKDI LEELHCRARI QQLQEWRSNG LTTLEAGLKY
+SKEAKELYNR IKPFARVMTA QDFEEFSKDI LEELHCRARI QQLQEWRSNG LTTLEAGLKY <br>
-ERDKQARISS FEKFGASTAA SLSEGNSRYR SNSAHRSNAE YSQNYSENGG RKKNMTISDI
+ERDKQARISS FEKFGASTAA SLSEGNSRYR SNSAHRSNAE YSQNYSENGG RKKNMTISDI <br>
-QHAPDYALLS NDEQQLCIQL KILPKPYLVL KEVMFRELLK TGGNLSKSAC RELLNIDPIK
+QHAPDYALLS NDEQQLCIQL KILPKPYLVL KEVMFRELLK TGGNLSKSAC RELLNIDPIK <br>
-ANRIYDFFQS QNWM*
+ANRIYDFFQS QNWM* <br>
 *Function of your gene:
 **Binding to chromatin

← Older revision		Revision as of 01:41, 25 September 2017
Line 1:		Line 1:
	For this week's assignment, [[User:Emmatyrnauer\|Emma Tyrnauer]] and I surfed the [http://www.yeastgenome.org ''Saccharomyces'' Genome Database (SGD)] after Thursday's class period. We picked the gene ADA2 as our favorite gene to focus on for the week.		For this week's assignment, [[User:Emmatyrnauer\|Emma Tyrnauer]] and I surfed the [http://www.yeastgenome.org ''Saccharomyces'' Genome Database (SGD)] after Thursday's class period. We picked the gene ADA2 as our favorite gene to focus on for the week.

−	To start this week's assignment, Emma and I decided to both individually do the initial research on the ADA2 gene using the four websites on the assignment page. I started my research by visiting the	+	To start this week's assignment, Emma and I decided to both individually do the initial research on the ADA2 gene using the four websites on the assignment page. I started my research by visiting the [http://www.yeastgenome.org SGD website] on 9/24 . From here I obtained the following information:
		+	*Standard Name: ADA2
		+	*Systematic Name: YDR448W
		+	*Name Description: transcriptional ADAptor
		+	*Gene ID (from SGD): S000002856
		+	*Web address of gene to be used for hyperlink on webpage: https://www.yeastgenome.org/locus/S000002856
		+	*DNA Sequence:
		+	1 ATGTCAAACA AGTTTCACTG TGACGTTTGT TCAGCTGATT GCACGAACAG AGTGAGGGTT
		+	61 TCATGTGCTA TTTGTCCCGA ATACGACTTA TGCGTGCCCT GCTTTTCACA AGGCTCGTAT
		+	121 ACAGGAAAGC ATCGCCCTTA CCATGATTAT AGGATAATAG AGACCAATTC ATACCCCATT
		+	181 CTCTGTCCTG ATTGGGGTGC CGATGAAGAA TTGCAGTTGA TTAAAGGCGC ACAGACTTTA
		+	241 GGGCTCGGTA ATTGGCAGGA TATTGCTGAC CATATAGGCA GCAGAGGCAA AGAAGAAGTT
		+	301 AAGGAACATT ACCTAAAATA TTATCTGGAA AGCAAATACT ATCCAATACC TGATATTACC
		+	361 CAAAATATAC ATGTCCCACA AGATGAATTT TTGGAACAGC GAAGGCATAG AATCGAGTCC
		+	421 TTCCGGGAGA GGCCGCTAGA GCCTCCAAGA AAGCCCATGG CATCGGTTCC TAGCTGCCAT
		+	481 GAAGTACAGG GGTTTATGCC GGGCAGATTA GAATTTGAAA CAGAATTCGA AAATGAAGCT
		+	541 GAAGGTCCCG TAAAGGATAT GGTTTTTGAA CCTGATGACC AGCCCTTAGA CATTGAATTG
		+	601 AAGTTTGCCA TCTTGGACAT TTACAATTCT AGATTGACAA CCAGAGCAGA AAAGAAAAGG
		+	661 CTATTATTTG AAAACCATTT AATGGATTAC AGAAAGTTGC AAGCTATTGA CAAAAAGAGG
		+	721 AGCAAAGAAG CCAAAGAATT GTATAACCGC ATAAAACCTT TTGCTCGTGT TATGACTGCA
		+	781 CAGGATTTTG AGGAATTTAG CAAGGATATA TTAGAAGAAT TGCATTGCAG GGCAAGAATA
		+	841 CAGCAATTAC AAGAATGGAG AAGCAATGGG TTAACCACGT TAGAAGCAGG TCTTAAGTAT
		+	901 GAACGAGATA AGCAAGCTAG AATTAGCAGT TTCGAGAAAT TTGGCGCTTC TACGGCGGCG
		+	961 TCACTCAGTG AGGGCAATAG CCGTTATAGG TCGAATTCTG CACATAGGTC GAACGCAGAA
		+	1021 TACAGCCAAA ACTACAGCGA AAATGGCGGT AGAAAGAAAA ATATGACCAT TAGCGATATA
		+	1081 CAGCATGCAC CTGACTATGC ACTGTTGTCC AACGACGAGC AGCAACTTTG TATTCAACTG
		+	1141 AAAATTTTAC CTAAACCGTA TCTCGTTCTA AAAGAGGTAA TGTTCAGAGA ACTGTTGAAG
		+	1201 ACTGGGGGTA ATCTAAGCAA AAGCGCATGT AGGGAACTAC TTAATATAGA CCCCATAAAA
		+	1261 GCGAATAGAA TATACGATTT TTTCCAGAGC CAGAATTGGA TGTAA
		+	*Protein Sequence:
		+	1 MSNKFHCDVC SADCTNRVRV SCAICPEYDL CVPCFSQGSY TGKHRPYHDY RIIETNSYPI
		+	61 LCPDWGADEE LQLIKGAQTL GLGNWQDIAD HIGSRGKEEV KEHYLKYYLE SKYYPIPDIT
		+	121 QNIHVPQDEF LEQRRHRIES FRERPLEPPR KPMASVPSCH EVQGFMPGRL EFETEFENEA
		+	181 EGPVKDMVFE PDDQPLDIEL KFAILDIYNS RLTTRAEKKR LLFENHLMDY RKLQAIDKKR
		+	241 SKEAKELYNR IKPFARVMTA QDFEEFSKDI LEELHCRARI QQLQEWRSNG LTTLEAGLKY
		+	301 ERDKQARISS FEKFGASTAA SLSEGNSRYR SNSAHRSNAE YSQNYSENGG RKKNMTISDI
		+	361 QHAPDYALLS NDEQQLCIQL KILPKPYLVL KEVMFRELLK TGGNLSKSAC RELLNIDPIK
		+	421 ANRIYDFFQS QNWM*
		+	*Function of your gene:
		+	**Binding to chromatin
		+	**Catalysis the reaction of acetyl-CoA with histone to make CoA and acetyl-histone
		+	**Phosphatidylserine binding
		+	**transcription coactivator activity to increase the frequency, rate, or duration of transcription
		+
		+
		+
		+	What was different about the information provided about your gene in each of the parent databases?