Gene Expression Omnibus (GEO) Overview Version:2014-04-12Japanese page
An overview of the GEO entries broken down by the measurement platforms and the features of the measured samples.
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Data Unit : [ DataSet / Sample / Platform ] Show explanation>> <<Hide explanation
DataSet : Series(GSE) x Platform(GPL). A set of related gene expression data.
Sample : Biological materials.
platform : Methods or instruments used for the gene expression profilings.
The numbers shown in the tabs are the numbers of the data (series, samples or platforms) belonging to the groups.
  Human
(4,712)
  Primates
(41)
  Rodents
(1,963)
  Mammals
(85)
  Vertebrates
(71)
  Invertebrates
(162)
  Plants
(837)
  Bacteria
(313)
  Viruses
(0)
  Phages
(18)
  Unclassified
(320)
  All
(8,522)
 
  SAGE NlaIII
(0)
  SAGE RsaI
(0)
  SAGE Sau3A
(0)
  MPSS
(0)
  GeneChip
(174)
  Tiling Array
(0)
  cDNA Array
(132)
  Oligo Array
(5)
  Bead Array
(0)
  Protein Array
(0)
  Antibody
(0)
  RT-PCR
(0)
  HT-Seq
(0)
  Other
(2)
  All
(313)
 
  brain
(0)
  blood
(0)
  connective
(0)
  reproductive
(0)
  muscular
(0)
  digestive
(0)
  liver
(0)
  lung
(0)
  urinary
(0)
  endo/exo-crine
(0)
  embryo
(0)
  adult aerial structure
(0)
  young aerial structure
(0)
  root
(0)
  meristem/growing tissue
(0)
  flower/sexual organ
(0)
  seed/fruit/grain
(0)
  pooled
(0)
  unclassified
(313)
  all
(313)
 
1   |   2   |   3   |   4   |   5      »      [16]
Sample ID Title Number of Data Institute Submission date Platform Sample type Species Organ class Reasoning of the classification
Keywords used for the classification are shown with bold font.
1 GSM49830 Wild-type Transition -3 hours 4,107 The University of Newcastle upon Tyne 2005-04-28 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA title:Wild-type Transition -3 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
2 GSM49975 Wild-type Transition -0.5 hours 4,107 The University of Newcastle upon Tyne 2005-05-03 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA title:Wild-type Transition -0.5 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
3 GSM49998 Wild-type Transition +2.5 hours 4,107 The University of Newcastle upon Tyne 2005-05-03 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA title:Wild-type Transition +2.5 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
4 GSM50000 Wild-type Transition +1.5 hours 4,107 The University of Newcastle upon Tyne 2005-05-03 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA title:Wild-type Transition +1.5 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
5 GSM50002 Wild-type Transition +3.5 hours 4,107 The University of Newcastle upon Tyne 2005-05-03 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA title:Wild-type Transition +3.5 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
6 GSM50003 Wild-type Transition +8.5 hours 4,107 The University of Newcastle upon Tyne 2005-05-03 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA title:Wild-type Transition +8.5 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
7 GSM50008 Wild-type SeriesB Transition -1 hours 4,107 The University of Newcastle upon Tyne 2005-05-03 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Wild-type SeriesB title:Wild-type SeriesB Transition -1 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
8 GSM50378 Wild-type SeriesB Transition T0 hours 4,107 The University of Newcastle upon Tyne 2005-05-04 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:Wild-type SeriesB Transition T0 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
9 GSM50472 Wild-type SeriesB Transition T0.75 hours 4,107 The University of Newcastle upon Tyne 2005-05-05 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:Wild-type SeriesB Transition T0.75 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
10 GSM51432 Wild-type SeriesB Transition T+1.75 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:Wild-type SeriesB Transition T+1.75 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
11 GSM51433 Wild-type SeriesB Transition T+2.75 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:Wild-type SeriesB Transition T+2.75 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
12 GSM51434 Wild-type SeriesB Transition T+4.75 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:Wild-type SeriesB Transition T+4.75 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
13 GSM51435 SigB-null SeriesA Transition T-0.5 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesA Transition T-0.5 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
14 GSM51436 SigB-null SeriesA Transition T+0.25 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesA Transition T+0.25 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
15 GSM51437 SigB-null SeriesA Transition T+0.75 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesA Transition T+0.75 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
16 GSM51438 SigB-null SeriesA Transition T+1.75 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesA Transition T+1.75 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
17 GSM51439 SigB-null SeriesA Transition T+2.75 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesA Transition T+2.75 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
18 GSM51440 SigB-null SeriesA Transition T+4.25 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesA Transition T+4.25 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
19 GSM51441 SigB-null SeriesB Transition T-0.5 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesB Transition T-0.5 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
20 GSM51442 SigB-null SeriesB Transition T+0.25 hours 4,107 The University of Newcastle upon Tyne 2005-05-16 [cDNA Array] Sigma Genosys Panorama Bacillus subtilis Gene Array (GPL188) RNA Bacillus subtilis
Bacillus subtilis
unclassified source_name:Total RNA SeriesB title:SigB-null SeriesB Transition T+0.25 hours description:Total RNA was extracted from the wild-type strain (Bacillus subtilis, 168) and phoR and sigB-null mutants before, during (T0) and after transition to phosphate-limited growth. Cell harvesting, preparation of RNA, synthesis of radioactively labeled cDNA and hybridization of B. subtilis macroarrays (Sigma-Genosys, The Woodlands, Tex., USA) were performed as described by Eymann and co-workers (Eymann, C., H. Mach, C. R. Harwood, and M. Hecker. 1996. Phosphate-starvation-inducible proteins in Bacillus subtilis: a two-dimensional gel electrophoresis study. Microbiology 142:3163-70.). Each analysis was carried out twice, using two independently isolated RNA preparations and two different array batches. The arrays were exposed to a phosphorescent screen which was subsequently scanned with a Storm 860 PhosphorImager (Molecular Dynamics, Sunnyvale, CA, USA) at a resolution of 50 µm and a 16-bit color depth. For quantification of the hybridization signals and background subtraction, the ArrayVision software (Version 5.1, Imaging Research, Onteria, Canada) was used. Calculation of normalized intensity values of the individual spots was performed using the over-all-spot-normalization function of ArrayVision. To avoid extreme expression ratios for genes close to or below the detection limit, genes with signal intensity values corresponding to less that twice the background were not counted in the analysis. Subsequently, the average of the normalized intensity values of the duplicate spots of each gene was used to calculate the expression level ratios. Data analysis (statistical analysis, visualization and the generation of lists) was performed using the GeneSpring software (Version 4.2.12, Silicon Genetics, Redwood City, CA). Keywords = phosphate starvation Keywords = PhoP regulon Keywords = signal transduction Keywords = DNA-array Keywords = gene expression
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