Wikipedia:USEP/Courses/JHU MolBio Ogg SP14/Group 81A

Initial article assessments from Dhayes14

Differentiation-inducing Factor

The Differentiation-inducing factor site article is rather brief and is only 4 sentences in length. Several inline references are present and one reference is included; however, the reference is not cited properly within the brief text. No images or graphics have been included to date. This article falls under within the categories of molecular and cell biology, as well as oncology, and is considered to be a stub. There are several existing articles that could possibly be referenced to expand this stub; however, it should be mentioned that this stub is of low importance.

Bibliography:

Masashi Kana, et al., Differentiation-inducing factor-1 (DIF-1) inhibits STAT3 activity involved in gastric cancer cell proliferation via MEK-ERK-dependent pathway, Oncogene, 2003, Volume 22, 548-554, http://www.nature.com/onc/journal/v22/n4/full/1206109a.html
Yuzuru Kubohara, et al., "Mitochondria Are the Target Organelle of Differentiation-Inducing Factor-3, an Anti-Tumor Agent Isolated from Dictyostelium Discoideum", PLoS ONE, 15 August 2013, 8 (8), http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0072118
Oohata AA, et al., "Differentiation inducing factors in Dictyostelium discoideum: a novel low molecular factor functions at an early stage(s) of differentiation", Dev Growth Differ. 2009 Dec; 51(9):743-52, http://www.ncbi.nlm.nih.gov/pubmed/19824899

Ribonucleoprotein

The Ribonucleoprotein site is a stub-sized cell biology article that is considered to be of high importance. Although it is rather brief and lacking in details it does contain three sub-categories which include: an overview of ribonucleoprotein, anti-RNP antibodies, a list of RNPs, and one external link. No references, other than inline references, have been included and no graphics are present. In Wikipedia there are other related stub-sized articles including, but not limited to: Ribonucleoprotein particle, Small nuclear ribonucleoprotein D2, Heterogeneous ribonucleoprotein particle, Small nuclear ribonucleoprotein polypeptide N. There are a number of articles that could be referenced that contain images, including 3-D images, of ribonucleoprotein complexes.

Bibliography:

Takeshi Noda,, et al., "Three-dimensional analysis of ribonucleoprotein complexes in influenza A virus", Nature Communications, 24 January 2012, Article number: 639, http://www.nature.com/ncomms/journal/v3/n1/full/ncomms1647.html
Lee, Suzanne and Lykke Anderson, Jens., "Emerging roles for ribonucleoprotein modification and remodeling in controlling RNA fate", Trends in Cell Biology, 05 June 2013, Volume 23, Issue 10, 504-510, http://www.cell.com/trends/cell-biology/abstract/S0962-8924(13)00084-6

Initial article assessments from Ssumpf

23S ribosomal RNA

23S ribosomal RNA is a molecular and cell biology stub sized wikipedia article, but it has very little information included in text. It contains no subcategories, but it does contain three pictures and an interesting human cell diagram. There are only two references listed in the article, so there is room for drastic improvement and expansion. It contains no citations and provides very little detail regarding structural and class-related information and has the potential to link to other ribosomes similar in structure. It is in serious need of adding captions, references, and citations as well as additional photographs and/or charts. It is low-importance on the talk page and it was suggested to have someone who better understands the topic add the information.

Bibliography:

Douthwaite, S. "Functional interactions within 23S rRNA involving the peptidyltransferase center." Journal of bacteriology 174.4 (1992): 1333-1338. Available at http://jb.asm.org/content/174/4/1333.short
Gutell, Robin R., Nils Larsen, and Carl R. Woese. "Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective." Microbiological Reviews 58.1 (1994): 10-26. Available at http://mmbr.asm.org/content/58/1/10.short
Noller, Harry F., et al. "Secondary structure model for 23S ribosomal RNA." Nucleic Acids Research 9.22 (1981): 6167-6189.Available at http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3753638/

Polysomy

Polysomy is considered a stub-class article of high importance in the molecular and cellular biology portal, but of medium importance on the genetics portal. It only has one reference used in an inline citation and no pictures, charts, or subcategories. This article could be expanded drastically. There are plenty of resources available to develop the article. The article is neutral, but not broad or completely verifiable and is extremely short (only 4 sentences in length).

Bibliography:

Leal, C. A., et al. "Parental origin of the extra chromosomes in polysomy X." Human genetics 94.4 (1994): 423-426. Available at http://link.springer.com/article/10.1007/BF00201605#page-1
Ma, Yan, et al. "Polysomy 17 in HER-2/neu status elaboration in breast cancer: effect on daily practice." Clinical Cancer Research 11.12 (2005): 4393-4399. Available at http://clincancerres.aacrjournals.org/content/11/12/4393.short
Qu, L., and J. F. Hancock. "Detecting and mapping repulsion-phase linkage in polyploids with polysomic inheritance." Theoretical and Applied Genetics 103.1 (2001): 136-143 Available at Qu, L., and J. F. Hancock. "Detecting and mapping repulsion-phase linkage in polyploids with polysomic inheritance." Theoretical and Applied Genetics 103.1 (2001): 136-143. Available at http://link.springer.com/article/10.1007%2Fs001220100647?LI=true#page-1

Article Selection Rationale

According to the existing version of the Polysomy article, Polysomy is a condition in which an otherwise diploid organism has at least one more chromosome than normal and is usually caused by non-disjunction. Polysomy is considered a stub-class article of high importance in the molecular and cellular biology portal, but of medium importance on the genetics portal. It only has one reference used in an inline citation and no pictures, charts, or subcategories so there is plenty of opportunity for us to provide meaningful graphics. It goes without saying that this article could be expanded drastically and as we begin researching our topic we will be focusing on developing subtopics that further elaborate on polysomy. In its current state this article appears as though it is an expanded dictionary definition, and only uses a glossary as a reference. There are plenty of verifiable resources available that contain no original research that we can utilize to develop the article. So far the article is neutral, but not broad or completely verifiable and we will aim to maintain a neutral tone. In the article Talk Page there has been no discussion among any Wikipedia editors about writing more in this article, but hopefully there will be some interesting intellectual exchanges that result from our work on this interesting article subject!

We will consider adding the following subsections as part of our efforts to bring this article to a class B or Good Article (GA) category:

Polysomy Types
Polysomy in Animals
Polysomy in Plants
Polysomy in Fungi
Terminology: Autopolyploidy, Allopolyploidy, Paleopolyploidy, Tetraploidy, Karyotype, Paralogous, Homologous, Homoeologous, Example of homoeologous chromosomes
See Also
References
Further Reading
Links

Bibliography:

Adds, J., Larkcom, E., & Miller, R. (2001). Genetics, evolution, and biodiversity. (p. 93). Chettenham, United Kingdom: Nelson Thomas Ltd. Retrieved from http://books.google.com/books?id=U3RN9tKstLMC&pg=PA95&lpg=PA95&dq=examples of polysomy&source=bl&ots=hnPWcB6C4G&sig=ck0Pbt9y_wcC61NThBwenJ69k5U&hl=en&sa=X&ei=HeYMU8bgDbSqsQT-4IHwCA&ved=0CC0Q6AEwAjgK
Celik, A; Eraslan, S; Gökgöz, N; Ilgin, H; Başaran, S; Bökesoy, I; Kayserili, H; Yüksel-Apak, M; Kirdar, B (1997 Jun). "Identification of the parental origin of polysomy in two 49,XXXXY cases.". Clinical genetics 51 (6): 426–9. PMID 9237509.
Elias, S, Shulman, L, Glob. libr. women's med.,(ISSN: 1756-2228) 2008; DOI 10.3843/GLOWM.10358. http://www.glowm.com/section_view/heading/Males%20with%20Polysomy%20Y%20and%20Females%20with%20Polysomy%20X/item/357
Leal, C. A., et al. "Parental origin of the extra chromosomes in polysomy X." Human genetics 94.4 (1994): 423-426. Available at http://link.springer.com/article/10.1007/BF00201605#page-1
"Polysomy". Retrieved 23 February 2014.<http://medical-dictionary.thefreedictionary.com/polysomy
Ma, Yan, et al. "Polysomy 17 in HER-2/neu status elaboration in breast cancer: effect on daily practice." Clinical Cancer Research 11.12 (2005): 4393-4399. Available at http://clincancerres.aacrjournals.org/content/11/12/4393.short
Miller, John Adds, Erica Larkcom, Ruth (2004). Genetics, evolution and biodiversity (Rev. ed. ed.). Cheltenham: Nelson Thornes. ISBN 9780748774920.http://books.google.com/books?
Qu, L., and J. F. Hancock. "Detecting and mapping repulsion-phase linkage in polyploids with polysomic inheritance." Theoretical and Applied Genetics 103.1 (2001): 136-143 Available at Qu, L., and J. F. Hancock. "Detecting and mapping repulsion-phase linkage in polyploids with polysomic inheritance." Theoretical and Applied Genetics 103.1 (2001): 136-143. Available at http://link.springer.com/article/10.1007%2Fs001220100647?LI=true#page-1
"Is polysomy 17 an important phenomenon to predict treatment with trastuzumab in breast cancer?". Retrieved 23 February 2014. http://www.appliedcr.org.br/detalhe_artigo.asp?id=226
Yeh, I., Martin, M., Robetorye, R., Bolla, A., McCaskill, C., Shah, P., Gorre, M., & Mohammed, M. (2009). Clinical validation of an array cgh test for her2 status in breast cancer reveals that polysomy 17 is a rare event. Modern Pathology, 22, 1169-1175. doi: 10.1038/modpathol.2009.78

Possible Images:

Expanding on the Article

Key Points

I love the key points we have on the outline so far (posted below), but think we can expand a bit, adding subcategories for each topic and some more detail. I am going to work on incorporating the main examples that come up on a search (i.e.; polysomy and breast cancer). I think if we go through one by one we can develop the outline to include more specifics. I will start with Types, Animals, and Plants today. Maybe we can break it up so you would expand on Fungi, Terminology, and See Also or if there is a point in the outline you want to cover, feel free! I am very flexible and am willing to work on any of these.

Polysomy Types
Polysomy in Animals
Polysomy in Plants
Polysomy in Fungi
Terminology: Autopolyploidy, Allopolyploidy, Paleopolyploidy, Tetraploidy, Karyotype, Paralogous, Homologous, Homoeologous, Example of homoeologous chromosomes
See Also
References
Further Reading
Links

--Ssumpf (talk) 18:21, 9 March 2014 (UTC)[reply]

I have gone ahead and expanded on the "Further Reading" section and will start to work on expanding the Fungi and Terminology sections. As for the "External Links" section... I am having some difficulty finding any. If you do locate some meaningful ones, please let me know! DHayes14 (talk) 15:47, 11 March 2014 (UTC)[reply]

Expanded Outline

I've extended the outline as follows: So…here is an expanded outline/key points that have articles we can reference and subtopics we can add information on….When I first read “Polysomy Types” I thought it was referring to things such as Polysomy X, Polysomy Y, Polysomy 17, Polysomy of chromosome 7, etc… It wasn’t until I looked at the “polyploidy” wiki page I noticed it was much simpler than that! Also, do you know the difference between quadrosomy, quatrosomy, and tetrasomy? I had a hard time finding the definitions, but all three came up in article searches. So, here is my proposed outline: (I think the plants/fungi/terminology/see also sections could be expanded more.

1. Polysomy Definition
2. Polysomy Types
2.1 trisomy (links to wiki page)
2.2 tetrasomy (links to wiki page)
2.2a quadrosomy
2.2b quatrosomy
2.3 pentasomy
2.4 heptasomy
2.5 hexasomy
2.6 octosomy
2.7 nanosomy
2.8 decasomy
3. Polysomy in Animals
3.1 Polysomy 13 in Canines
3.2 Germ line polysomy in the grasshopper
3.3 Heterochromatic polysomy in the cricket
3.4 X-chromosome polysomy in Drosphilia
3.5 Polysomy in humans
  3.5a Polysomy X (both male and female)
  3.5b Polysomy Y
  3.5c Polysomy of chromosome 7
  3.5d Polysomy of chromosome 8
  3.5e Polysomy of chromosome 17
  3.5f Trisomy 21
  3.5g Quadrosomy 4 & Quatrosomy 13
  3.5h Tetrasomy 9
  3.5i Tetrasomy 18
4. Polysomy in Plants
4.1 Ornithogalum umbellatum L. (Liliaceae)
4.2 Ophioglossum reticulatum
4.3 Conifers
5. Polysomy in Fungi
5.1 Saccharomyces cerevisiae
6. Terminology
6.1 Aneuploidy
6.2 Polyploidy
6.3 Karyotype
6.4 Paralogous
6.5 Homologous
7. See Also
8. References
9. Further Reading
10. Links

Let me know what you think or if we need to fix/add anything. We can then post the finished outline on your sandbox page. Are there any topics you think we should add? A lot of the diseases are covered under the humans section, but I did not reference them specifically in the outline. --Ssumpf (talk) 02:46, 11 March 2014 (UTC)[reply]

Unit 8 Progress Report

Added to polygamy definition, included citations, and uploaded image of nondisjunction
Added information to Polysomy types & submitted to "Turnitin"
Added Terminology, See also, and Further reading sections
Added Subcategories for Polysomy in Plants
Drafted prose for Polysomy in Plants and submitted to "Turnitin"
Uploaded Polysomy in Plants prose to Article page and added references
Updated external links for Polysomy in Plants
Researched appropriate images to use for Polysomy in Plants; however, I didn't locate any suitable ones. I may need to create my own image so this will be an ongoing task.

Unit 10 Progress Report

Added inline reference for "translocation" , deleted "genotype" definition, and added a plethora of wikilinks, including "Aneuploidy", in response to comments left on article talk page.
In the "See Also" section, removed both sympatry and speciation in response to comment left on article talk page.
Researched materials for possibility of the addition of a "History" section but wasn't able to identify important references.
Added "Fungi", "Animals", "Insects", and "Diagnostic Tools" prose to article page and submitted to Turnitin for review.
Notified reviewers (assigned to the Polysomy article) of which of their changes were incorporated in the article page.
Provided feedback on new material in the "DNA Base Flipping" article. Comments are located within the article talk page.
Added 3 figures from wikicommons and contacted publisher regarding nondisjunction image rights
Added over 20 references
Created chart for types section

Unit 12 Progress Report

Created new sections and added prose for “Polysomy of sex chromosomes”, “Polysomy of chromosome 7”, “Polysomy of chromosome 8”, “Polysomy of chromosome 17”, "Trisomy 21", "Tetrasomy 9p", and "Tetrasomy 19p" and submitted it to Turnitin
Made edits according to peer recommendations and added references in the lead, “Polysomy types”, "Diagnostic Tools", and "Fungi" sections
Uploaded multiple additional images and started creating an original image for nondisjunction
Minor formatting of image locations/sizes within article
Added ~20 additional references and deleted glossomics reference as suggested in multiple comments

Final Progress Report

Added 7 references to "Polysomy in Plants" section,~20 additional references this week, over 60 total
Added navbox and re-arranged images. Unable to use inkscape successfully, but added over 10 images and 2 charts, one original chart created.
Edited wikilinks and prose based on commentary and incorporated overview and discovery components into the lead
Added prose to "Polysomy in Plants" section
Created prose and added subsections 6.2 Spectral karyotyping, 6.3 Giemsa banding (G-banded karyotyping), 6.4 Microarray analysis, 6.5 Prenatal diagnostic tests, 6.6 Restriction fragment length polymorphism (RFLP) analysis, and 6.7 Flow Cytometry to diagnostics section and submitted to TurnItIn