Dataset Dfs_Exelixis_set1

General Information
Name	Dfs_Exelixis_set1	Species	D. melanogaster
Dataset type	aberration stock collection	FlyBase ID	FBlc0000497
Source & Content
Consists of	Fly stocks that comprise a set of molecularly defined deficiencies. (Parks et al., 2004)
Created by
Available from	Bloomington Drosophila Stock Center
Strain
Stage & tissue

Cell Line
Recent Updates
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FB2013_03
FB2013_02
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Description & Members
Description	The current Exelixis collection at the Bloomington Stock Center differs from the original described in FBrf0175003: a significant number were shown not to carry a deletion and have been removed from the collection; a number of stocks have been lost; a number of additional deletions are included that were generated after publication. (Cook, 2012.9.12) A set of isogenic deficiency stocks created by FLP-induced recombination between FRT-carrying transgenic insertions; molecularly defined deletion endpoints correspond to initial location of the progenitor insertions. Initial set of 519 isogenic deletions provides 56% genome coverage. (Parks et al., 2004)
Parent collections
Component collection(s)
Number in collection
Comment on number in collection
Members
Experimental protocol
Vector	P{XP} (Parks et al., 2004) PBac{RB} (Parks et al., 2004) PBac{WH} (Parks et al., 2004)
Sample preparation	Deletion-generation strategy made use of extensive collections of isogenic FRT-carrying transgenic insertion lines (FBrf0175002); used insertions of P{XP}, PBac{RB} and PBac{WH}. (Parks et al., 2004)
Collection preparation	Recombination between FRT elements in two insertions in the appropriate relative orientation results in deletion of the genomic region between the insertions and production of a hybrid element that contains one FRT element at the recombination point (FBrf0091061). Animals were generated that carried a heat-shock-inducible FLP recombinase gene and 2 FRT-carrying transgenic insertions in trans; these were subjected to a heat-shock regimen during larval stages. After eclosion, females were collected and crossed to appropriate males for detection of miniwhite[-] or miniwhite[+] deficiency chromosomes; isolate lines were established using isogenized balancer stocks. Candidate deletions were confirmed by PCR of multiple isolate lines for each deletion. In general, it was sufficient to test 5 putative lines for each miniwhite[-] deletion and 50 putative lines for each miniwhite[+] deletion. (Parks et al., 2004)
Mode of assay
Assay platform
Data analysis	The deletion collection was not verified genetically at Exelixis; most have been assessed since then at the Bloomington Stock Center. 77 stocks were determined not to carry a deletion; most of these were likely to have been false positives recovered from the deletion screens. An additional 23 stocks are no longer available because they have been lost or have broken down or because they were identical to alternate stocks. (Cook, 2012.9.12)
Additional data
	More information is available under: Aberration.dataset.Exelixis.2012.8.8.xlsx
Associated files	Aberration.dataset.Exelixis.2012.8.8.xlsx (Millburn et al., 2012.8.1)
Additional sites
Synonyms & Secondary IDs
Reported As
Symbol Synonym	Dfs_Exelixis_set1 Exelixis Dfs
Secondary FlyBase IDs

References ( 4 )
Research paper	Parks et al., 2004, Nat. Genet. 36(3): 288--292 Systematic generation of high-resolution deletion coverage of the Drosophila melanogaster genome. [FBrf0175003]
Supplementary material	Parks et al., 2004, Nature Genetics 36(3): Supplementary Table 2. [FBrf0174230]
Personal communication to FlyBase	Cook, 2012.9.12, Notes on the Exelixis deletion collection. Notes on the Exelixis deletion collection. [FBrf0219608]
FlyBase analysis	Millburn et al., 2012.8.1, Lines in aberration datasets (files on ftp site). Lines in aberration datasets (files on ftp site). [FBrf0219195]