This web page was produced as an assignment for Genetics 677, an undergraduate course at UW-Madison.
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References

Introduction
1. St George's, University of London. Introduction to Reproductive Biology. Retrieved January 30, 2009, from http://www.sgul.ac.uk/depts/immunology/~dash/troph/trophoblast.jpg
2. Science Daily, (November 30, 2005) Study hints at role of stem cell genes in testicular, breast cancers.  Retrieved January 24, 2009, http://www.sciencedaily.com/releases/2005/11/051130085332.htm
3. Science Daily, (May 6, 2008). How Gene Transcription is controlled in embryonic stem cells. Retrieved January 30, 2009, from http://www.sciencedaily.com/releases/2008/05/080504153808.htm
4. Siu, M. K. Y., Wong, E. S. Y., Chan, H. Y., Ngan, H. Y. S.,Chan, K. Y. K., and Cheung, A. N. Y.(2008)  Overexpression of NANOG in Gestational Trophoblastic Diseases. The American Journal for Pathology, 173(4),  1165-1172. DOI: 10.2353/ajpath.2008.080288

5. Science Daily, June 2, 2003. Cells of the Ever Young: Getting Closer to the Truth. Retrieved February 28, 2009, from http://www.sciencedaily.com/releases/2003/06/030602024530.htm

6. Media freaks, November 13, 2008. Peter Pan. Retrieved April 26, 2009, from http://www.media-freaks.com/work/leilei/peterpan/peterpan-02.jpg
7.
Abcam(2008) Lensch M. W. & Sullivan S. The cycle of developmental potency. Retrieved April 28, 2009.
8.
Yu, J., Vodyanik, M.A., Smuga-Otto, K., Antosiewicz-Bourget, J., Frane, J. L., Tian, S., Nie, J., Jonsdottir, G. A., Ruotti, V., Stewart, R., Slukvin, I. I., Thomson, J.A. (2007) Induced Pluripotent Stem Cell Lines Derived from Human Somatic Cells. Science. Retrieved April 29, 2009, from http://www.sciencemag.org/cgi/content/abstract/1151526
9. Hyslop, L., Stojkovic, M., Armstrong, L., Walter, T., Stojkovic, P., Przyborski, S., Herbert, M., Murdoch, A., Strachan, T.,  Lakoa, M. (2005) Downregulation of NANOG Induces Differentiation of Human Embryonic Stem Cells to Extraembryonic Lineages. Stem Cells. Retrieved April 24, 2009.

In the news
1. University of California - San Francisco (2005, November 30). Study Hints At Role Of Stem Cell Genes In Testicular, Breast Cancers. ScienceDaily. Retrieved February 10, 2009, from http://www.sciencedaily.com­/releases/2005/11/051130085332.htm
2. Whitehead Institute. Core Transcriptional Regulatory Circuitry in Human Embryonic Stem Cells. Young lab. Retrieved February 10, 2009, from http://jura.wi.mit.edu/young_public/hESregulation/Web_figure.gif


Journal report
Siu, M. K. Y., Wong, E. S. Y., Chan, H. Y., Ngan, H. Y. S.,Chan, K. Y. K., and Cheung, A. N. Y.(2008)  Overexpression of NANOG in Gestational Trophoblastic Diseases. The American Journal for Pathology, 173(4),  1165-1172. DOI: 10.2353/ajpath.2008.080288

Journal vs News
1. Science Daily, (November 30, 2005) Study hints at role of stem cell genes in testicular, breast cancers.  Retrieved January 24, 2009, http://www.sciencedaily.com/releases/2005/11/051130085332.htm
2. Siu, M. K. Y., Wong, E. S. Y., Chan, H. Y., Ngan, H. Y. S.,Chan, K. Y. K., and Cheung, A. N. Y.(2008)  Overexpression of NANOG in Gestational Trophoblastic Diseases. The American Journal for Pathology, 173(4),  1165-1172. DOI: 10.2353/ajpath.2008.080288
3. Merck Manuals, Online Medical Library (Novermber, 2005) Gestational Trophoblastic Disease. Retrieved January 30, 2009, from  http://www.merck.com/mmpe/sec18/ch254/ch254f.html

Gene and its motifs

1. NCBI Entrez Gene, 17 February 2009. NANOG Nanog homebox [Homo Sapiens]. Retrieved 19 February 2009, from:
http://www.ncbi.nlm.nih.gov/sites/entrez?Db=gene&Cmd=ShowDetailView&TermToSearch=79923&ordinalpos=2&itool=EntrezSystem2.PEntrez.Gene.Gene_ResultsPanel.Gene_RVDocSum
2. GeneCards, 22 January 2009. Nanog gene. Retrieved 26 April, 2009, from http://www.genecards.org/cgi-bin/carddisp.pl?gene=NANOG&search=Nanogl

Nanog DNA motifs
1. Kyoto University Bioinformatics Centre. MotifFinder. Retrieved Feb 12, 2009 from http://motif.genome.jp/
2. The MEME Suite. MEME. Retrieved Feb 12, 2009 from http://meme.sdsc.edu/meme4/cgi-bin/meme.cgi


Phylogenetic trees

1. Deereeper A. et al. Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W465-9. Epub 2008 Apr 19. (PubMed)
2. Treefamilies database, 6 December 2006. Nanog homeobox family (Homo sapiens). Retrieved 5 February, 2009, from: http://www.treefam.org/cgi-bin/TFinfo.pl?ac=TF337402

Gene Ontology
1. Gene Ontology, 17 February 2009. Nanog. Retrieved 19 February 2009, from: http://amigo.geneontology.org/cgi-bin/amigo/gp-assoc.cgi?gp=UniProtKB:Q9H9S0&session_id=5688amigo1235079149
2. GOAL, February 2009. Nanog. Retrieved 19 February 2009, from: http://www.shigen.nig.ac.jp/ontology/geneDetailAndTermListAction.do?geneProductId=86763

Phenotype
1. Boyer, L. A., Mathur, D. and Jaenisch R. (2006) Molecular control of pluripotency. Current Opinion in Genetics & Development. 16, 455-462.
2. Wormbase. Gene summary for tab-1. Retrieved 26 March 2009, from: http://www.wormbase.org/db/gene/gene?name=WBGene00006380;class=Gene

Microarray
NCBI. Gene Expression Omnibus. Retrieved April 30, 2009, from: http://www.ncbi.nlm.nih.gov/geo/

All about Nanog protein
1. NCBI Entrez Gene, 17 February 2009. NANOG Nanog homebox [Homo Sapiens]. Retrieved 19 February 2009, from:  http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&id=153945816
2. UniProtKB, 24 March 2009. Homeobox protein Nanog - Homo Sapiens. Retrieved 26 March 2009, from: http://www.uniprot.org/uniprot/Q9H9S0
3. STRING. Retrieved April 26, 2009, from http://string.embl.de/newstring_cgi/show_network_section.pl


Nanog isoforms
1. UniProtKB, 24 March 2009. Homeobox protein Nanog - Homo Sapiens. Retrieved 26 March 2009, from: http://www.uniprot.org/uniprot/Q9H9S0
2. GeneCards. Nanog. Retrieved 4 April 2009, from http://www.genecards.org/cgi-bin/cardsearch.pl#top

3. Zhang, J., Wang, X., Li, M., Han, J., Chen, B., Wang, B. and Dai, J. (2006) NANOGP8 is a retrogene expressed in cancers. FEBS Journal. Volume 273: 1723-1730

Nanog homologs
1. NCBI Entrez Protein, 12 January 2009. Nanog homeobox. Retrieved 5 February 2009, from: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?tool=portal&db=protein&term=Nanog&query_key=6&dopt=fasta&dispmax=20&page=1&qty=163
2. European Bioinformatics Informatics, 2009. ClustalW2. Retrieved 5 February 2009, from: http://www.ebi.ac.uk/Tools/clustalw2/index.html

Nanog Paralogues
1. Social Fiction. Retrieved April 18, 2009, from http://www.socialfiction.org/img/Enlarged_c_elegans.PNG
2. Brembs. net Retrieved April 19, 2009, from http://brembs.net/learning/drosophila/fly_down.jpg
3. Retrieved April 18, 2009, from http://64.207.144.142/movabletype/PETA2Daily/archives/kick1.PNG
4. Transhuman Express. Retrieved April 18, 2009, fromhttp://images.forbes.com/images/2001/07/26/mice_400x300.jpg

5. DCAD. Retrieved April 19, 2009 from http://dcad.com.pl/image/dna1.jpg
6. DNASTAR. Retrieved April 19, 2009 from http://www.dnastar.com/media/linegraphLrg.jpg
7. School of Information Technology. Unversity of Sydney. Irena Koprinska. Retrieved April 19, 2009 from http://www.cs.usyd.edu.au/%7Eirena/arrayimage.jpg

Nanog Protein Motifs

1. Sanger Institute. Pfam. Retrieved 12 February, 2009, from http://pfam.sanger.ac.uk/search/sequence/results?jobId=878BF51E-F955-11DD-8D36-B535F027BFA0
2. Prosite. ScanProsite. Retrieved 12 February, 2009, from http://www.expasy.ch/cgi-bin/prosite/ScanView.cgi?scanfile=89996073962.scan.gz

Nanog mechanism predictions
1. NetPhos 2.0 Server, 25 March 2009. Prediction results. Retrieved 9 April 2009, from: http://www.cbs.dtu.dk/cgi-bin/nph-webface?jobid=netphos,49DE647502FAC760&opt=none
2. NetPhosK, 29 October 2003. Output format. Retrieved 26 March 2009, from http://www.cbs.dtu.dk/services/NetPhosK-1.0/output.php

The Nanog web
1. STRING. Retrieved April 17, 2009, from http://string.embl.de/newstring_cgi/show_network_section.pl
2. Nakagawa M., Koyanagi M., Tanabe K., Takahashi K., Ichisaka T., Aoi T., Okita K., Mochiduki Y., Takizawa N. & Yamanaka S. (30 November 2007) Generation of induced pluripotent stem cells without Myc from mouse and human fibroblasts. Nature Biotechnology. doi:10.1038/nbt1374
3. Yu, J., Vodyanik, M.A., Smuga-Otto, K., Antosiewicz-Bourget, J., Frane, J. L., Tian, S., Nie, J., Jonsdottir, G. A., Ruotti, V., Stewart, R., Slukvin, I. I., Thomson, J.A. (2007) Induced Pluripotent Stem Cell Lines Derived from Human Somatic Cells. Science. Retrieved April 29, 2009, from http://www.sciencemag.org/cgi/content/abstract/1151526
4. Applied Biosystems. Gene Assist Pathway systems. Retrieved April 24, 2009, from http://www.ambion.com/tools/pathway/pathway.php?pathway=Nanog%20in%20Mammalian%20ESC%20Pluripotency

Nanog gone wrong
1. St George's, University of London. Introduction to Reproductive Biology. Retrieved January 30, 2009, from http://www.sgul.ac.uk/depts/immunology/~dash/troph/trophoblast.jpg
2. SonoWorld (2009) Complete Molar Gestation: Role of Ultrasound. Retrieved January 31, 2009, from http://www.sonoworld.com/Article/ShowArticleImage.aspx?id=9098&Type=Paragraph
3. Merck Manuals, Online Medical Library (Novermber, 2005) Gestational Trophoblastic Disease. Retrieved January 30, 2009, from  http://www.merck.com/mmpe/sec18/ch254/ch254f.html
4. Healthline ( September 11, 2006) Gestational Trophoblastic Disease. Retreived January 30, 2009, from http://www.healthline.com/adamcontent/gestational-trophoblastic-disease
5. Mchumor. Retrieved February 1, 2009, from 
http://www.pioneer.net/~mchumor/00images/2192_pregnancy_cartoon.gif
6. Science Daily, (November 30, 2005) Study hints at role of stem cell genes in testicular, breast cancers.  Retrieved January 24, 2009, http://www.sciencedaily.com/releases/2005/11/051130085332.htm
7. Siu, M. K. Y., Wong, E. S. Y., Chan, H. Y., Ngan, H. Y. S.,Chan, K. Y. K., and Cheung, A. N. Y.(2008)  Overexpression of NANOG in Gestational Trophoblastic Diseases. The American Journal for Pathology, 173(4),  1165-1172. DOI: 10.2353/ajpath.2008.080288


To immortality and beyond
1. Social Fiction. Retrieved April 18, 2009, from http://www.socialfiction.org/img/Enlarged_c_elegans.PNG
2. Brembs. net Retrieved April 19, 2009, from http://brembs.net/learning/drosophila/fly_down.jpg
3. Retrieved April 18, 2009, from http://64.207.144.142/movabletype/PETA2Daily/archives/kick1.PNG
4. Transhuman Express. Retrieved April 18, 2009, fromhttp://images.forbes.com/images/2001/07/26/mice_400x300.jpg

5. DCAD. Retrieved April 19, 2009 from http://dcad.com.pl/image/dna1.jpg
6. DNASTAR. Retrieved April 19, 2009 from http://www.dnastar.com/media/linegraphLrg.jpg
7. School of Information Technology. Unversity of Sydney. Irena Koprinska. Retrieved April 19, 2009 from http://www.cs.usyd.edu.au/%7Eirena/arrayimage.jpg

Ka Yi, Ling ([email protected])
Page last updated 05/13/09
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