Lab stuff

From Shiu Lab

Contents 1 MSU resources 2 Use lab wiki 3 Lab meeting 3.1 Organization 3.2 Monthly journal review 3.3 Namewise distribution 3.4 Lab meeting schedule 4 Computing enrivronment 5 Authorship and collaboration

MSU resources

• New member of the lab should check out the resources available in MSU.

Use lab wiki

• Please make extensive use of the wiki site and put relevant information on your personal page (User:name) as well as other area as you see fit. Specifically, lab members should actively maintain the project information in their personal page. In addition, we ask you to put your one page summary and presentation for the lab meeting online.
• For more information on wiki

Lab meeting

Organization

• Time & Place: Every Tuesday 9:30-11am in the office area of S-308.
• Structure: research presentation and literature review on alternating weeks.
  • Research presentation- One presentation on research. The idea is that everybody in the lab should go at least once every month. The day before your presentation, send out a one page summary electronically to everybody in the lab. From experience, this kind of documentation will not only help guiding your own research, it also provides documentation of your thought process and progress that can be useful for future publication or to remind the forgetful PI. The summary should contain the following information:
    • Synopsis: The general introduction what you have been doing, what's the motivation behind it.
    • Progress: What you have been doing for the past month. What kinds of problems have you encountered.
    • Next step: What do you plan to do next. How will you resolve the problems.
  • Literature review- Give a synopsis of interesting papers you come across in assigned journals.

Monthly journal review

• Journal assignments

Me(Melissa), Sh(Shinhan), Zo(Zou-cheng), G(Gaurav), A(Amanda)

Journals	# issues/month	Assigned	Journals	# issues/month	Assigned
Nature	4	A	Science	4	Js
PNAS	4	Zo	Bioinformatics	2	G
BMC Bioinfo.	2	sh	BMC Evo. Bio.	2	Sh
BMC Genomics	2	Zo	BMC Plant Bio.	2	Me
Cell	2	Me	Cur.Bio.	2	M
Cur.Op.Gen&Dev	0.5	G	Cur.Op.Pl.Bio.	0.5	M
Genetics	1	Me	Genome Biology	1	Me
Genome Research	1	Zo	J.Mol.Evo.	1	Zo
MBE	1	G	Nature Genetics	1	G
Plant Phys.	1	Me	Plant Cell	1	Zo
Plant Journal	1	Zo	Plos Biology	1	Sh
Plos Genetics	1	Sh	Plos Comp.Bio.	1	Sh
TREE	1	Sh	TIG	1	Me
TIPS	1	G	Evolution	1	G

Namewise distribution

Name	Journals
Gaurav	COGD, MBE, TiPS, Bioinformatics, Nature Genetics, Evolution
Cheng	PNAS, BMC Genomics, Genome Research, Plant Journal, JME
Melissa	Cell, Genetics, Plant Physiol, BMC Plant Biol., Curr Bio, Curr Op. Plant Biol, Genome Biology, TIG
Shinhan	BMC Bioinfo, PLoS Genetics, TREE, PLoS CompBio, PLoS Biology, BMC Evo. Bio
Amanda	Nature
Jessica	Science

Lab meeting schedule

No.	Date	Day	Format of lab meeting
1	4 March, 08	Tuesday	None - Spring break
2	11 March, 08	Tuesday	Journal review
3	18 March, 08	Tuesday
4	25 March, 08	Tuesday

• Journal RSS in OPML format

Computing enrivronment

Check here for:

• MSU computer usage guideline.
• Lab printer and wireless setup.
• Learn programming.
• Computing resources in MSU and our lab.

Authorship and collaboration

The lab is a collaborative environment and involves in publishing primary findings. The International Committee of Medical Journal Editors has published Uniform Requirements for Manuscripts Submitted to Biomedical Journals: Writing and Editing for Biomedical Publication that the PI found to provide a good guideline regarding the authorship. Authorship credit should be based on:

• Substantial contributions to:
  1. Conception and design
  2. Data acquisition
  3. Data analysis
  4. Data Interpretation
• Drafting the article or revising critically for important intellectual content
• Final approval of the version to be published

But not simply based on:

• Acquisition of funding
• Collection of data
• General supervision of the research group