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Adult fly versus embryo (0-16h)

ABSTRACT: Total RNA was isolated from wild-type adult flies (yellow white) and from embryos (cs, 0-16h) with TRIZOL reagent. 12 microgram of each total RNA were labeled with fluorescent dyes, following cDNA synthesis with amino-allyl dUTP in addition to the four natural dNTPs using a 1:1 mixture of oligo(dT) and random nonamer primers. An all pairs experiment design type is where all labeled extracts are compared to every other labeled extract. Keywords: all_pairs

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE3581 | GEO | 2006/02/28

SECONDARY ACCESSION(S): PRJNA93667

REPOSITORIES: GEO

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Adult fly versus embryo (0-16h)

Project description:Total RNA was isolated from wild-type adult flies (yellow white) and from embryos (cs, 0-16h) with TRIZOL reagent. 12 microgram of each total RNA were labeled with fluorescent dyes, following cDNA synthesis with amino-allyl dUTP in addition to the four natural dNTPs using a 1:1 mixture of oligo(dT) and random nonamer primers. An all pairs experiment design type is where all labeled extracts are compared to every other labeled extract. Keywords: all_pairs Computed

2010-07-01 | E-GEOD-3581 | biostudies-arrayexpress

Transcription profiling of adult fly vs embryo (0-16h), Gerber AP. 2005

2006-11-11 | E-SMDB-3536 | biostudies-arrayexpress

Wild-type versus Pumilio mutant flies

Project description:Total RNA was isolated with TRIZOL reagent from wild-type flies (yellow white, yw) and Pumilio mutant flies (pum13; Barker DD. et al. (1992) Genes Dev 6, 2312-26). 12 microgram of total RNA was used for cDNA synthesis using a 1:1 mixture of oligo(dT) and random nonamer primers and in the presence of amino-allyl dUTP. Set of arrays that are part of repeated experiments Keywords: Biological Replicate

2006-02-28 | GSE3580 | GEO

Khd1p associated mRNAs

Project description:RNA-coimmunopurifications with TAP-tagged Khd1 protein from Saccharomyces cereviseae. Untagged strain (BY4741) served as a control (Gerber et al., 2004). Cells were grown to midlog phase in rich media and harvested by centrifugation. TAP-tagged Khd1 was affinity purified from cell-free extracts with IgG sepharose and eluted with TEV protease. RNA was isolated from extract (=input) and from purified protein samples by phenol-chloroform extraction. RNAs were reverse transcribed using a mixture of oligo-dT and random nonamer oligos in the presence of amino-allyl dUTP/ dNTP mixture. cDNAs were fluorescently labeled and hybridized on yeast DNA microarrays over night at 65 degrees. For a detailed procedure see http://microarray-pubs.stanford.edu/yeast_puf and also Gerber AP et al. PLoS Biology, 2004. An all pairs experiment design type is where all labeled extracts are compared to every other labeled extract. Strain Name: yeast strain with/without TAP-tagged Khd1 Keywords: all_pairs

2008-08-26 | GSE10279 | GEO

Transcription profiling of wild type vs Pumilio mutant Drosophila

2006-11-08 | E-SMDB-3532 | biostudies-arrayexpress

Wild-type versus Pumilio mutant flies

2010-07-01 | E-GEOD-3580 | biostudies-arrayexpress

Khd1p associated mRNAs

2010-06-20 | E-GEOD-10279 | biostudies-arrayexpress

Puf3delta vs. wild type comparison

Project description:Three independent experiments: S. cervisiae wild-type (BY4741) and Puf3 mutant cells were grown in minimal medium supplemented with 3% glycerol. Cells were harvested in mid-log phase by centrifugation and total RNA was prepared by hot-phenol extraction. cDNA was prepared with oligo-dT and using a mixture of amino-allyl dUTP and dNTPs, fluorescently labeled (Cy3= wild-type, Cy5 = mutant) and hybridize on S. cerevisiae DNA microarray. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

2006-01-04 | GSE3969 | GEO

Transcription profiling of S. cervisiae wild type (BY4741) and Puf3 mutant cells grown in minimal medium supplemented with 3% glycerol

2005-11-01 | E-SMDB-2623 | biostudies-arrayexpress

Shg1p associated RNAs

Project description:RNA co-immunopurification with TAP-tagged Shg1p (a component of the Set1 histone methyltransferase complex, SET1C) from Saccharomyces cerevisiae. An untagged (BY4741) served as a control (Gerber et al. 2004). Cells were grown to mid-log phase in rich media and harvested by centrifugation. TAP-tagged Shg1 was affinity-purified from cell-free extracts with IgG sepharose and eluted with TEV protease. RNA was isolated from extract (=input) and from the purified protein sample with the RNAeasy Kit (Qiagen). RNAs were reverse transcribed using a mixture of oligo-dT and random nonamer oligos in the presence of amino-allyl dUTP/dNTP mixture. cDNAs were fluorescently labeled and hybridized on yeast oligo microarrays over night at 42 degrees in formamide-based hybridization buffer. For the method see experimental procedure for RNA IP (Gerber/Dichtl).

2009-08-31 | GSE15247 | GEO

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