Tag: work

Quote of the day

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Setting: Matthieu is back from The Netherlands and brought back some Stroopwafels

Florian: ooooooooooooh!
Me: What are those?
Florian: Stroopwafels.
Me: Oh, damnit.
Florian: What? you can’t eat them?
Me: No, I can, that’s the problem. Those things are evil.
Florian: Now you complain when you can eat stuff?
Me: Yes, you can’t win.
Florian: Next time I’m in Germany, I bring back a teeeny-tiny bit of chocolate you can eat and giant bunch of stuff you can’t, so that way you have something you can eat but you can’t complain about the size of it.
Me: You know you’re evil incarnate, right?
Florian: Yes, and I love it.

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The end of an era

Posted on By admin

Hail to the chief! It was Lennart’s last day at the office yesterday. Even though he’s only leaving next week for Belgium, he’s on holiday from today to use up the last of his leave time. It’s going to be weird without him at the office. I’m happy for him though – a full tenured professorship and senior lecturer and he’s only 33. That’s impressive, and it’s also an offer he couldn’t refuse. As a gag-ish gift, we bought him a tweed jacket and had leather patches sewn on the elbows, as now befitting to his stature ;) Getting people to sign the card was a nightmare though. Between holidays, sickness, conferences and general not-being-at-the-officeness, it was a cast iron PITA to get hold of people.

On a professional note, the office is going to be rudderless for the next 6 months – at least – until we can hire his replacement and that person comes in and gets a feel for things. I can only hope that it’s somebody with a decent head on their shoulders and that will fight for us, not against us. Said person will have mighty big shoes to fill. I have to say that we’re all a bit anxious about the state of things to come.

On a personal note, I’m saddened that a friend is leaving. I don’t have many of those in the UK and I’m going to miss him and his various zen koans and happy demeanour.

I shall take inspiration from his greatness :)

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Publication record

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As part of doing something else, I noticed that my publication record is increasing. This is not bad at all, considering that I’m not really an academic :)

1: Stockinger H, Attwood T, Chohan SN, Côté R, Cudré-Mauroux P, Falquet L,
Fernandes P, Finn RD, Hupponen T, Korpelainen E, Labarga A, Laugraud A, Lima T,
Pafilis E, Pagni M, Pettifer S, Phan I, Rahman N. Experience using web services
for biological sequence analysis. Brief Bioinform. 2008 Nov;9(6):493-505. Epub
2008 Jul 11. PubMed PMID: 18621748.

2: Jones P, Côté R. The PRIDE proteomics identifications database: data
submission, query, and dataset comparison. Methods Mol Biol. 2008;484:287-303.
PubMed PMID: 18592187.

3: Côté RG, Jones P, Martens L, Apweiler R, Hermjakob H. The Ontology Lookup
Service: more data and better tools for controlled vocabulary queries. Nucleic
Acids Res. 2008 Jul 1;36(Web Server issue):W372-6. Epub 2008 May 8. PubMed PMID:
18467421; PubMed Central PMCID: PMC2447739.

4: Siepen JA, Belhajjame K, Selley JN, Embury SM, Paton NW, Goble CA, Oliver SG,
Stevens R, Zamboulis L, Martin N, Poulovassillis A, Jones P, Côté R, Hermjakob H,
Pentony MM, Jones DT, Orengo CA, Hubbard SJ. ISPIDER Central: an integrated
database web-server for proteomics. Nucleic Acids Res. 2008 Jul 1;36(Web Server
issue):W485-90. Epub 2008 Apr 25. PubMed PMID: 18440977; PubMed Central PMCID:
PMC2447780.

5: Martens L, Jones P, Côté R. Using the Proteomics Identifications Database
(PRIDE). Curr Protoc Bioinformatics. 2008 Mar;Chapter 13:Unit 13.8. PubMed PMID:
18428683.

6: Mueller M, Vizcaíno JA, Jones P, Côté R, Thorneycroft D, Apweiler R, Hermjakob
H, Martens L. Analysis of the experimental detection of central nervous
system-related genes in human brain and cerebrospinal fluid datasets. Proteomics.
2008 Mar;8(6):1138-48. PubMed PMID: 18283668.

7: Jones P, Côté RG, Cho SY, Klie S, Martens L, Quinn AF, Thorneycroft D,
Hermjakob H. PRIDE: new developments and new datasets. Nucleic Acids Res. 2008
Jan;36(Database issue):D878-83. Epub 2007 Nov 22. PubMed PMID: 18033805; PubMed
Central PMCID: PMC2238846.

8: Côté RG, Jones P, Martens L, Kerrien S, Reisinger F, Lin Q, Leinonen R,
Apweiler R, Hermjakob H. The Protein Identifier Cross-Referencing (PICR) service:
reconciling protein identifiers across multiple source databases. BMC
Bioinformatics. 2007 Oct 18;8:401. PubMed PMID: 17945017; PubMed Central PMCID:
PMC2151082.

9: Côté RG, Jones P, Apweiler R, Hermjakob H. The Ontology Lookup Service, a
lightweight cross-platform tool for controlled vocabulary queries. BMC
Bioinformatics. 2006 Feb 28;7:97. PubMed PMID: 16507094; PubMed Central PMCID:
PMC1420335.

10: Jones P, Côté RG, Martens L, Quinn AF, Taylor CF, Derache W, Hermjakob H,
Apweiler R. PRIDE: a public repository of protein and peptide identifications for
the proteomics community. Nucleic Acids Res. 2006 Jan 1;34(Database
issue):D659-63. PubMed PMID: 16381953; PubMed Central PMCID: PMC1347500.

11: Klie S, Martens L, Vizcaíno JA, Côté R, Jones P, Apweiler R, Hinneburg A,
Hermjakob H. Analyzing large-scale proteomics projects with latent semantic
indexing. J Proteome Res. 2008 Jan;7(1):182-91. Epub 2007 Nov 30. PubMed PMID:
18047271.

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And lo, the 7th seal is opening…

Posted on By admin 2 Comments on And lo, the 7th seal is opening…

We have been notified of the first member of staff that has contracted swine flu. The person works in the EBI and was at home when they first recognised symptoms. They will obviously stay at home and away from campus for the duration of their illness. Their close colleagues and contacts in the EBI have been informed of the case.

It’s the end of the world as we know it, and I feel fine.

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So much has happened in the last two weeks, I don’t even know where to begin

Posted on By admin 2 Comments on So much has happened in the last two weeks, I don’t even know where to begin

So, a quick bullet point recap:

  • we bought a house
  • we painted it top to bottom
  • we re-wired large chunks of it
  • we installed a shower that still doesn’t work
  • we moved
  • In a stunning display of cleverness, I managed to lock the shed keys in the shed, requiring a visit from our friendly neighbourhood locksmith
  • we re-painted the whole upstairs floor of our old house
  • I went to Scotland for a business trip
  • we are all completely exhausted and I think I gave myself a bad case of carpal in the process

Notable events during this time:

  • the mouse, that damned mouse, stowed away and is now living somewhere behind our cupboards. Our cats are useless.
  • said cats are driving us nuts by destroying the house and running rampant all night
  • the boy is on solids and is discovering the joys of carrots and sweet potato
  • I managed to go to Scotland and not eat a single deep-fried, battered food item
  • the Scottish tried to kill me many times with food, but I have to give mad props to a Spanish tapas bar that catered with much success to my multiple allergies.
  • we bought a new bed and a new mattress. This is a source of joy, and debt.
  • we should have internet access at home shortly

More on all these when I can spare the time. In the meantime, know that I am still alive and tired as sin.

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Quote of the day

Posted on By admin

I have come to the realization over the last few months that in the reign of enlightened despotism so graciously bestowed upon us by our glorious superiors, information does not trickle down to us peons as we clearly lack the higher cognitive ability to process this super-high-strategic level information. We just do the monkey work. It is a happy place.

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