Jkuroda Week 10

Use a keyword search for each of these databases/tools and answer the following:
- PubMed
  - What original keyword(s) did you use? How many results did you get?
    - "Shewanella oneidensis"
    - 793 results.
  - Which terms in which combinations were most useful to narrow down the search? How many results did you get after narrowing the search?
    - (("shewanella"[MeSH Terms] OR "shewanella"[All Fields]) AND oneidensis[All Fields]) AND ("2010/11/07"[PDat] : "2015/11/05"[PDat] AND English[lang])
    - 387 results
- Google Scholar
  - What original keyword(s) did you use? How many results did you get?
    - "Shewanella oneidensis"
    - 13,200 results
  - Which terms in which combinations were most useful to narrow down the search? How many results did you get after narrowing the search?
    - "Shewanella oneidensis genomics" since 2014
    - 1,430 results
- Web of Science
  - What original keyword(s) did you use? How many results did you get?
    - "Shewanella oneidensis"
    - 6,383 results
  - Which terms in which combinations were most useful to narrow down the search? How many results did you get after narrowing the search?
    - TOPIC: (Shewanella oneidensis) Refined by: LANGUAGES: ( ENGLISH ) AND RESEARCH DOMAINS: ( SCIENCE TECHNOLOGY ) AND LANGUAGES: ( ENGLISH ) AND RESEARCH AREAS: ( BIOCHEMISTRY MOLECULAR BIOLOGY OR MICROBIOLOGY OR GENETICS HEREDITY OR BIOTECHNOLOGY APPLIED MICROBIOLOGY OR SCIENCE TECHNOLOGY OTHER TOPICS OR ENVIRONMENTAL SCIENCES ECOLOGY OR CHEMISTRY OR CELL BIOLOGY )
    - 5,835 results

Microarray Paper

Used ArrayExpress and searched for relevant microarray papers using filters.
Wanted to find papers with bigger assay numbers so I sorted by that column.
Among our group members we decided which papers to focus on.
I chose E-GEOD-21044 - delta-arcS versus wild-type

Bibliographic Entry

APA: Lassak J, Henche AL, Binnenkade L, Thormann KM. (2010). ArcS is the cognate sensor kinase in an atypical Arc system of Shewanella oneidensis MR-1. Applied and Environmental Microbiology, 76(10), 3263-3274.
PubMed
PMC
Full Text
PDF Version
The American Society for Microbiology owns the copyright. The article is not open-access.
The publisher is the American Society for Microbiology. It is a scientific society.
This article is available in the printed and on-line journals.
LMU has not paid for my access.
This article has 76 citations.
According to the Web of Science, this article is cited by 35 other articles.
Looking at the titles of the other articles, it seems like most research has been focused on a two-component system present in shewanella oneidensis as well as anaerobic and aerobic respiration.
Raw microarray data
Processed microarray data
The experiment looked to find more information about the Arc two-component system of shewanella oneidensis by shifting oxygen levels. The treatment in the experiment was the changing levels of oxygen. The control were strains of shewanella oneidensis MR-1 wild type cells.
Expression profiles of three independent replicates of Shewanella oneidensis MR-1 delta-arcS were compared to three independent replicates of Shewanella oneidensis MR-1 wild type cells.