2000 MIPZ Instituts meeting

Topics for today

about ADIS:
- started in November 1995 (ADIS home page)
- ADIS-Gremium (dates of the "Gremiumstreffen")
- people working at ADIS
- instrumentation of ADIS
- informatics together with Guido Goebel, Stephan Webanck, and ID-Pro GmbH

DNA oligonucleotide ordering
- ordering via the OligoOrderDB (program version c3.3)
- - flowchart of the order process
- - see the "frequently asked questions"-page (OligoOrderDB-FAQ)
- - how to type my "Kostenstelle"? See the "Kostenstellenliste"
- - number of orders processed per week (graphic)
- - price lists of the suppliers included (LifeTech, metabion, MWG - these lists give also information on the modifications available)
- other features of OligoOrderDB:
- - Query interface:
- - - search the MPIZ oligo database in a group-specific way
- - - add comments to existing entries ("edit" function - add comments to older DB entries)
- - - export option of a user-specific list of oligos for "Material" in diploma and PhD theses (tab-delimited text file)
- - - use the statistics information to see how much money was spent
- - - check for "not approved" orders (you may contact the Einkauf to ask for approval)
- - Oligo data input tool (for oligos from kits, colleagues, etc.) - - - store information on your existing oligos
- - "Downstream processes" or how the "Einkauf" uses the generated data - - - weekly log file of all orders placed (oligo.log)
- - - approval page to check for pending orders
- - - supplier-specific listing of all orders to keep track of billing
- - planned for the future:
- - - maintenance (if you report bugs we will try to fix them ... !!)

DNA sequencing
- all managed by a locally developed LIMS (laboratory information managment system): SeqOrder
- - SeqOrder1.0 is in operation since 08/1999, current version is 1.3
- - general info and recommendations
- - collection of primers which do not need to be supplied (let me know if you want an additional primer)
- - Frequently asked questions (SeqOrder FAQ)
- - for M & M: if you use sequencing data in publications
- - number of reactions (per month, only those charged)
- other features of SeqOrder:
- - users need to be registered - they will be added upon request (User identification via UserDB - the same data are used for OligoOrderDB)
- - setting up a normal sequencing request
- - 96- or 384-sample sequencing requests (currently only available if you contact ADIS)
- - list of probes in queue
- - request tracking (check here first before you ask, please!)
- - automatic generation of data file names (01-123456-username-temp-prim.Seq)
- - automatic data delivery to users (you), directed by file names (based on a script by Stephan Webanck)
- - automatic data backup, directed by file names (/home/adis/adis/backup/0/1/2/3/012399/*-012399* and *-012399*.Seq)
- - user access to data files (sequence text and "trace" files) with getadisdata
- ADIS-operator functions of SeqOrder:
- - WWW-based generation of sequencing requests (database of all requests)
- - computer-aided generation of "sample sheets"
- - computer-aided generation of "data delivery sheets" (database of all results)
- - handeling of small sequencing projects (fragments significantly larger than 1.4 kbp)
- - collection of the data for the monthly "Umbuchungsbelege" (still, a lot of work with Excel is required ...)
- other stuff related to sequencing (collection of problems and solutions):
- - user-related problems
- - - experienced users which have a very high success rate in sequencing: Ulrike Hartmann, Adile Acarkan, Sabine Zachgo, Katrin Schneider,
- - template-related problem
- - primer-related problem (looks identical to the template-related problem shown)
- - gel-related problem(s)
- - see the "frequently asked questions"-page (SeqOrder-FAQ)
- planned for the future:
- - paper-free data delivery (delivery sheet via IntraNet, Java-based trace file viewer from your Web Browser)
- - maintenance (if you report bugs we will try to fix them ...)

DNA fragment analysis (GeneScan)
- picking
- spotting
- analysis of macroarrays using "ArrayVision" (3 specialized PCs with the respective software)
- DNA fragment analysis
- upcoming: TaqMan-PCR with an Appilied Biosystems 7700