Difference between revisions of "Publication/Paper (NAR 2012)/Corrections"
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=== Corrections in 4-line format === | === Corrections in 4-line format === | ||
− | + | Please refer to the google doc here | |
+ | |||
+ | [https://docs.google.com/document/d/1GyYdg7aTLE25Wh5wbgXCX3hhUbueWAsyWUZC21oByPY/edit Correction.1] | ||
=== Corrections in LIST FORMAT - FREEZED. Please refer to the above 4-line format=== | === Corrections in LIST FORMAT - FREEZED. Please refer to the above 4-line format=== |
Revision as of 15:31, 6 November 2011
Contents
Corrections to the proof (NAR-GKR1058)
If you've found this page, you should have received the proofs by email. Please do not publicise the proofs, as required by NAR.
Corrections in 4-line format
Please refer to the google doc here
Corrections in LIST FORMAT - FREEZED. Please refer to the above 4-line format
Please do not delete the content below. --Marcowanger 05:27, 6 November 2011 (PST)
- Be careful during proof-reading, there are multiple subtle changes to our revised MS shown in this proof-copy.
- I will visualize the changes in word document. Just to make sure the editor know what change is needed.
- 4-line correction: <page & line>\n<original>\n<changed>\n<remarks>
- Dan, please go over the list after I finished the correction part.
- PAEG 1, LINE 17
- add "also" before "created", so it reads "technologies has also created many"
- PAGE 1, LINE 21-22
- As technologies continue to develop. Should change to "continue to be developed". technologies do not develop themselves.
- PAGE 1, LINE 42-43
- The URL should be "http://wiki.SEQanswers.com/" <- suggested by Marco: Keep the domain name consistent, should we use xxx.SEQanswers.com or xxx.seqanswers.com?
- PAGE 1, LINE 42-43
- We suggest the URL be placed on line 43 instead of being broken over line 42-43. This would look much neater.
- PAGE 1, LINE 49
- replace "novel" by "data", so it reads "for data analysis. Both biologists"
- PAGE 1, LINE 52
- change "choice" to "choices", so it reads "more choices does not necessarily"
- PAGE 1, LINE 55-55
- Change "deprived of opportunities for understanding." to "deprived of opportunities to understand the tools published there."
- PAGE 1, LINE 61
- Change "journal clubs" to "journal club" <- Marco, journal club is a noun. practices are many, journal-club is one of them. so plural does not applies here.
- PAGE 1, LINE 65
- Change "region, and the limited" to "region. And the limited"
- PAGE 2, LINE 1
- delete "in" before "popularity", so it reads "gaining popularity"
- PAGE 2, LINE 6
- change "encompass" TO "encompasses"
- PAGE 2, LINE 20
- Change "community" to "forum", so it reads "The forum allows new"
- PAGE 2, LINE 26
- change "is a broad, user-driven resource, focused.." to "is a broad, user-driven resource that focus on all"
- PAGE 2, LINE 35
- change "ideas and review of findings between peers" to "ideas and findings among peers"
- PAGE 2, LINE 36
- Change "genome biology" to "genomic science"
- PAGE 2, LINE 41-42
- The sentence should be "Traditionally, announcement about software in the form of email or notice on tool's website".
- PAGE 2, LINE 46-47
- Change "Developer feedback via traditional channels is usually private" to "Feedback to developer via traditional channels is usually kept private"
- PAGE 2, LINE 55
- change "of software was being collected" to "of software was being maintained"
- PAGE 2, LINE 56-57
- change "it lacked collaborative editing and categorization of resources" to "collaborative editing and categorization of resources was inefficient."
- PAGE 2, LINE 66
- All categories should be singular here. "service provider" and "tutorial".
- PAGE 2, LINE 77-78
- change "free text formats" to "free text format"
- PAGE 2, LINE 92-93
- change "and the types of compatible HTS techonology" to "and the type(s) of compatible HTS technologies"
- PAGE 3, LINE 1
- change "tool is discoverable" to "can be discovered"
- PAGE 3, LINE 9-10
- change "user to search for the tool in a variety of resources" to "user to perform search of the tool against a variety of resources"
- PAGE 3, LINE 30
- change "providers from around the globe" to "providers around the globe". i.e. delete "from"
- PAGE 3, LINE 51
- change "along with advantages" to "along with their advantages"
- PAGE 3, LINE 58-59
- delete the "that" between "activity, but" and "there has been a" , so it reads "bursts of activity, but there has been a trend"
- PAGE 4, Not specific to lines. To all areas that we would like to improve. The (i), (ii) and (iii) wasted a lot of space (already narrow as 2 column in A4). I suggest remove these symbols and let them appear as separate paragraphs.
- PAGE 4, LINE 7
- Change "of the wiki, in particular" to " of the wiki. In particular"
- PAGE 4, LINE 9
- The first word after colon should start be capitalized. i.e. after Community review system: "before" should be changed to "Before".
- PAGE 4, LINE 35
- delete "would", so it reads "By using the wiki, we aim to distribute and"
- PAGE 4, LINE 40-41
- change "on" to "of", so it reads "provide information of their tools,"
- PAGE 4, LINE 42
- change "feedback the results" to "return results"
- PAGE 4, LINE 44
- The first word after colon should start be capitalized. i.e. after Integration with the semantic web: "there" should be changed to "There".
- PAGE 4
- LINE 46: Change "ontologies, for example" to "ontologies. For example"<- Marco: running sentence
- PAGE 5; After LINE 30
- Add "Papers Referencing SEQanswers: http://SEQanswers.com/wiki/Papers_Referencing_SEQanswers". Again, the we request the link to be entirely placed on one line if possible.
- PAGE 5, LINE 31-32
- Move http:// at line 31 to line 32 so that the link is placed entirely on line 32. ALSO, change "seqanswers.com" to "SEQanswers.com", i.e. capitalize SEQ in the domain name
- PAGE 5, LINE 43-44
- Move http:// at line 43 to 44 so that the link of Critical Assessment of Genome Interpretation is entirely on line 44
- PAGE 5, LINE 46
- Move http:// at line 45 to 46 so that the link for Genome Assembly Gold-Standard Evaluations is entirely on line 46
Replies to QUESTIONS 1-10
Q1
(1a) Annotation
A '*' appears after Dan M. Bolser, but should also appear after Jing-Woei Li and Eric C. Olivares too.
(1b) Name
Name - please refer back to gkr1058.pdf sent out by Dan
- Jing-Woei Li : Name is alright for me.
- Keith Robison: Name is alright (replied by email)
- Marcel Martin: Name is alright (replied by email)
- Andreas Sjo¨din: Name is alright (replied by email). Note: make sure the two dots are above "o", yes, they appear to be correctly displayed in the proof pdf
- Bjo¨ rn Usadel:
- Matthew Young: Name is alright (replied by email)
- Eric C. Olivares: Name is alright (no correction made in email)
- Dan M. Bolser: (Author names look fine to me)
Q2
Institution - please check if you institution's name is correct. Add your department (if any)
- Jing-Woei Li :
- Keith Robison: Warp Drive Biosynthetics, 215 First St., 4th Floor, Cambridge MA 02142 [Institution is alright (replied by email)]
- Marcel Martin: Institution is alright (replied by email)
- Andreas Sjo¨din: Institution is alright (replied by email). Make sure a circule appear above "a" in "Umea". Yes, it appears to be OK in the proof pdf
- Bjo¨ rn Usadel:
- Matthew Young: Institution is alright (replied by email)
- Eric C. Olivares: Institution is alright (no correction by email)
- Dan M. Bolser:
Q3
- Dan M. Bolser doesn't have a fax number. Please advise
- Jing-Woei Li, Tel. +852 3943 1256 ;Fax. Do not have a fax number. Please advise
- Eric Olivares, Tel. 011 1 760 419 5118 Fax. Do not have a fax number. Please advise
Q4-7
References accuracy:
- 1st pass (Marco): See below
- Q4 (all ref): To be done
- Q5 (publisher name and location in ref 2): The Royal Society; 6 - 9 Carlton House Terrace, London SW1Y 5AG
- Q6 (complete name of Proceedings in ref 7): alt.CHI at 25th Annual ACM Conference on Human Factors in Computing Systems (CHI 2007)
- Q7 (DOI number and E-publicaiton date in Ref 8): DOI: 10.1101/gr.126599.111 E-publication date: Sep 16 2011
- 2nd pass (Dan & Marco):
Q8
We haven't received any funding for this SEQwiki project. We have requested for full waiver.
Q9
Done. Figures and figure legends look great!
Q10
All figures have to be in color.