- beg-bogas@psb.ugent.be - maillist.psb.ugent.be

[Beg-bogas] chemosensory gene annotation in the spider mite
by Huabin Zhao via Gmail 31 Dec '12

31 Dec '12

Dear Dr Vandepeer, I am a professor of zoology at Wuhan University in China, I have been working on the evolution of sensory genes for years, please see the link below for more details. http://www.bio.whu.edu.cn/News_reads.asp?cid=174&id=2039 I have a question for you. I noticed that you or your colleagues have annotated chemosensory genes in the spider mite, I am wondering how you annotated those putative chemosensory genes. Because I detected nothing when I used insect chemosenosry genes as query, which suggested those genes of the mite are too divergent to share any sequence similarity with those of insects. Please let me know how you worked this out. Thanks, Huabin -- Huabin Zhao, Ph.D, Professor Department of Zoology, Rm 6108, College of Life Sciences, Wuhan University, Wuhan, Hubei 430072, China Office: (86)-27-68753526 E-mail: huabinzhao(a)whu.edu.cn; huabinzhao(a)gmail.com Profile: http://www.bio.whu.edu.cn/News_reads.asp?cid=174&id=2039

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[Beg-bogas] 117768535392947327841 shared photos with you
by 117768535392947327841 06 Dec '12

06 Dec '12

Dear sir, Glad to know you are on the market for toys. We specialize in this field for several years, with the strength of manufacturing plastic figures, gifts, promotion gift, kid toys, model car, stationery, games and cartoon related products, with good quality and pretty competitive price. Should you have any questions, pls do not hesitate to contact me, samples could be sent for your evaluation. By the way, HONGKONG TOYS & GAMES FAIR 2013 is coming and welcome to visit our factory in Shenzhen at that time. Best Regards, Allison Chen --------------------------------------------------------------- J.M.F. Toys Co. Ltd. Address: #28, Baolong Road, Longcun Village, Dakang Community,Henggang Town, Longguang District, Shenzhen, Guangdong, China Fax : (86) 755 85218939 Tel : (86) 755 85218977-816 Skype : allison327815

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[Beg-bogas] Could my new student have editing rights in the Ectocarpus genome ?
by Claire Gachon 21 Nov '12

21 Nov '12

Hi Thomas / Lieven, My new student Alexander Schober, is currently working on updating the annotation of the LRR-ROCO and NB-ARC-TPRs in Ectocarpus, based on the new RNAseq data available from Roscoff. There are a few structures that he would like to modify, and I was wondering whether it would be possible for him to have his own login, so that his modifications are easily tractable. Can you let me know if and how we could arrange this? Many thanks in advance, Claire ++++++++++++++++++++++++++++++++++++ Dr Claire GACHON Principal Investigator in Molecular Phycology Scottish Association for Marine Science Scottish Marine Institute PA37 1QA Oban United Kingdom claire.gachon(a)sams.ac.uk Skype contact : claire.gachon Tel: 0044 16 31 559 318 Fax 0044 16 31 559 001 http://www.sams.ac.uk/claire-gachon <http://www.sams.ac.uk/claire-gachon%0b>+++++++++++++++++++++++++++++++ The Scottish Association for Marine Science (SAMS) is registered in Scotland as a Company Limited by Guarantee (SC009292) and is a registered charity (9206). SAMS has an actively trading wholly owned subsidiary company: SAMS Research Services Ltd a Limited Company (SC224404). All Companies in the group are registered in Scotland and share a registered office at Scottish Marine Institute, Oban Argyll PA37 1QA. The content of this message may contain personal views which are not the views of SAMS unless specifically stated. Please note that all email traffic is monitored for purposes of security and spam filtering. As such individual emails may be examined in more detail.

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[Beg-bogas] GenomeView mysteries...
by Claire Gachon 08 Nov '12

08 Nov '12

Hi Lieven, With my new student Alexander Schober, we've become very interested in new tracks that have appeared in Genome View. However, we're not quite sure what we are looking at. Let's take Esi0207_0011 as a (purely random) example. 1) Can you explain to us what the pinkish track (e.g. sctg11.sort.bam) exactly is? Are we correct in thinking these are RNAseq data (single reads, non paired-end?) 2) Same question for "junctions": are these intron-exon borders mapped based on the above RNAseq reads? 3) on the sctg11.sort.bam track, is it significant that some reads (the blue ones) are mapped in reverse orientation, when the gene is obviously on the + strand? 4) if we want to look in detail at one RNAseq read or at a junction (e.g. to check some alternative splicing, funky LRR recombination, or the mismatch at 1125201), can we easily retrieve the correponding sequence from somewhere? Sorry to ask so many questions, but at least this time, I haven't accidentally hacked into BOGAS! Best, Claire ++++++++++++++++++++++++++++++++++++ Dr Claire GACHON Principal Investigator in Molecular Phycology Scottish Association for Marine Science Scottish Marine Institute PA37 1QA Oban United Kingdom claire.gachon(a)sams.ac.uk Skype contact : claire.gachon Tel: 0044 16 31 559 318 Fax 0044 16 31 559 001 http://www.sams.ac.uk/claire-gachon <http://www.sams.ac.uk/claire-gachon%0b>+++++++++++++++++++++++++++++++ The Scottish Association for Marine Science (SAMS) is registered in Scotland as a Company Limited by Guarantee (SC009292) and is a registered charity (9206). SAMS has an actively trading wholly owned subsidiary company: SAMS Research Services Ltd a Limited Company (SC224404). All Companies in the group are registered in Scotland and share a registered office at Scottish Marine Institute, Oban Argyll PA37 1QA. The content of this message may contain personal views which are not the views of SAMS unless specifically stated. Please note that all email traffic is monitored for purposes of security and spam filtering. As such individual emails may be examined in more detail.

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[Beg-bogas] trac tickets
by Lieven Sterck 05 Nov '12

05 Nov '12

dear bogasers/orcaers, the BOGAS trac has been moved and renamed to orcae. you can find the new trac here: http://psbsvn01/trac/ORCAE/ and to remind you all: also the bogas svn has been shut down!! so please remove your local copies and/or switch it to the orcae svn!! you can checkout a new orcae instance from http://psbsvn01/svn/ORCAE/ thx & enjoy, L. -- ============================================================== Lieven Sterck, PhD Tel:+32 (0)9 3313821 Fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, UGent Bioinformatics and Evolutionary Genomics Division Technologiepark 927, B-9052 Gent, Belgium Email: lieven.sterck(a)psb.vib-ugent.be Website: http://bioinformatics.psb.ugent.be ============================================================== "Facts are meaningless. You could use facts to prove anything that's even remotely true" - H. Simpson

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[Beg-bogas] update error Connection
by liste＠psb.vib-ugent.be 05 Nov '12

05 Nov '12

2012/11/05 15:55:07 An error occured connecting to the database server Error message below: No config found for genome 'Catro' and release ''! at CheckAndStartBOGASupdate.pl line 76

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[Beg-bogas] update error Connection
by liste＠psb.vib-ugent.be 05 Nov '12

05 Nov '12

2012/11/05 15:51:37 An error occured connecting to the database server Error message below: No config found for genome 'Catro' and release ''! at CheckAndStartBOGASupdate.pl line 76

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[Beg-bogas] update error Connection
by liste＠psb.vib-ugent.be 01 Nov '12

01 Nov '12

2012/11/01 15:44:53 An error occured connecting to the database server Error message below: No config found for genome 'Ostlu' and release ''! at CheckAndStartBOGASupdate.pl line 74

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[Beg-bogas] update error Connection
by liste＠psb.vib-ugent.be 01 Nov '12

01 Nov '12

2012/11/01 15:41:40 An error occured connecting to the database server Error message below: No config found for genome 'Ostlu' and release ''! at CheckAndStartBOGASupdate.pl line 74

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[Beg-bogas] update error Connection
by liste＠psb.vib-ugent.be 01 Nov '12

01 Nov '12

2012/11/01 15:38:25 An error occured connecting to the database server Error message below: No config found for genome 'Ostlu' and release ''! at CheckAndStartBOGASupdate.pl line 74

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