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
(615,734)
  Primates
(5,814)
  Rodents
(225,055)
  Mammals
(20,968)
  Vertebrates
(22,581)
  Invertebrates
(46,584)
  Plants
(107,706)
  Bacteria
(45,091)
  Viruses
(1,432)
  Phages
(112)
  Unclassified
(6,986)
  All
(1,101,311)
 
  SAGE NlaIII
(4)
  SAGE RsaI
(0)
  SAGE Sau3A
(0)
  MPSS
(0)
  GeneChip
(637)
  Tiling Array
(86)
  cDNA Array
(1,377)
  Oligo Array
(3,118)
  Bead Array
(576)
  Protein Array
(0)
  Antibody
(0)
  RT-PCR
(0)
  HT-Seq
(1,091)
  Other
(85)
  All
(6,986)
 
  brain
(12)
  blood
(143)
  connective
(44)
  reproductive
(1)
  muscular
(15)
  digestive
(66)
  liver
(37)
  lung
(1)
  urinary
(16)
  endo/exo-crine
(4)
  embryo
(9)
  adult aerial structure
(0)
  young aerial structure
(0)
  root
(0)
  meristem/growing tissue
(0)
  flower/sexual organ
(0)
  seed/fruit/grain
(6)
  pooled
(221)
  unclassified
(802)
  all
(1,377)
 
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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 GSM990671 Muscle_wild-type_80days_rep3 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, wild-type, 80 days of age Reference
2 GSM990670 Muscle_wild-type_80days_rep2 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, wild-type, 80 days of age Reference
3 GSM990669 Muscle_wild-type_80days_rep1 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, wild-type, 80 days of age Reference
4 GSM990668 Muscle_wild-type_40days_rep3 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, wild-type, 40 days of age Reference
5 GSM990667 Muscle_wild-type_40days_rep2 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, wild-type, 40 days of age Reference
6 GSM990666 Muscle_wild-type_40days_rep1 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, wild-type, 40 days of age Reference
7 GSM990665 Muscle_transgenic_80days_rep4 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 80 days of age Reference
8 GSM990664 Muscle_transgenic_80days_rep3 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 80 days of age Reference
9 GSM990663 Muscle_transgenic_80days_rep2 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 80 days of age Reference
10 GSM990662 Muscle_transgenic_80days_rep1 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 80 days of age Reference
11 GSM990661 Muscle_transgenic_40days_rep5 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 40 days of age Reference
12 GSM990660 Muscle_transgenic_40days_rep4 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 40 days of age Reference
13 GSM990659 Muscle_transgenic_40days_rep3 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 40 days of age Reference
14 GSM990658 Muscle_transgenic_40days_rep2 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 40 days of age Reference
15 GSM990657 Muscle_transgenic_40days_rep1 2,352 Universidade de São Paulo 2012-08-22 [cDNA Array] HAC Human 2.3K (GPL9692) RNA Mus musculus,Homo sapiens
Mus musculus,Homo sapiens
muscle Gastrocnemius muscle, transgenic, 40 days of age Reference
16 GSM96780 Rat 4 vehicle-treated in the Nighttime 5,760 Thomas Jefferson University 2006-02-14 [cDNA Array] TJUDBI Rat 3K (GPL3446) RNA synthetic construct,Rattus norvegicus
synthetic construct,Rattus norvegicus
pooled Adult Sprague-Dawley rats (100-150g) housed individually and entrained to 12:12 light-dark cycles for at least two weeks were rapidly sacrificed between 10:00AM and 12:00PM for daytime treatments and between 4:00 and 6:00 PM for night treatments according to a protocol approved by TJU IACUC. Brains were excised quickly, placed in ice-cold, oxygenated artificial cerebral spinal fluid (ACSF) (10 mM HEPES, pH 7.4, 140 mM NaCl, 5 mM KCl, 1 mM MgCl2, 1 mM CaCl2, 24 mM D-Glucose), and cut into 500 µm coronal sections using a vibroslice vibratome (752M, Camden Instruments, Leica, UK). The resulting SCN slices were cultured in oxygenated ACSF for at least 60 minutes at 35°C. After incubation, slices were bisected along the third ventricle, separating the “left” and “right” SCN, and transferred into a new media containing the treatment (20 nM EGF or vehicle). Slices were incubated in treatment for 60 minutes before taking 0.75 mm micropunches (Stoelting, Chicago, IL). Punches for day treatment were taken at 2 PM (8 hours after lights on) while punches for night treatment were taken at 8PM (2 hrs after lights off). RNA was extracted using the Rneasy mini kit (Qiagen), yielding ~200 nanograms of total RNA/punch. Two hundred to four hundred nanograms total RNA were amplified using two rounds of antisense RNA (aRNA) amplification using the RNA MessageAmp kit (Ambion), yielding no less than 130 µg aRNA. aRNA quality was assessed using Bioanalyzer Picochip (Agilent Technologies, Palo Alto, CA). 2.25 µg of aRNA was used to generate amino-allyl and Cy dye conjugated labeled cDNA (Cy5, Amersham) using the indirect aminoallyl-dNTP approach. Experimental details for hybridization, scanning, and quantification are in the Supporting Information (Materials & Methods) in Zak, Hao, et al (2006).
17 GSM96779 Rat 3 vehicle-treated in the Nighttime 5,760 Thomas Jefferson University 2006-02-14 [cDNA Array] TJUDBI Rat 3K (GPL3446) RNA synthetic construct,Rattus norvegicus
synthetic construct,Rattus norvegicus
pooled Adult Sprague-Dawley rats (100-150g) housed individually and entrained to 12:12 light-dark cycles for at least two weeks were rapidly sacrificed between 10:00AM and 12:00PM for daytime treatments and between 4:00 and 6:00 PM for night treatments according to a protocol approved by TJU IACUC. Brains were excised quickly, placed in ice-cold, oxygenated artificial cerebral spinal fluid (ACSF) (10 mM HEPES, pH 7.4, 140 mM NaCl, 5 mM KCl, 1 mM MgCl2, 1 mM CaCl2, 24 mM D-Glucose), and cut into 500 µm coronal sections using a vibroslice vibratome (752M, Camden Instruments, Leica, UK). The resulting SCN slices were cultured in oxygenated ACSF for at least 60 minutes at 35°C. After incubation, slices were bisected along the third ventricle, separating the “left” and “right” SCN, and transferred into a new media containing the treatment (20 nM EGF or vehicle). Slices were incubated in treatment for 60 minutes before taking 0.75 mm micropunches (Stoelting, Chicago, IL). Punches for day treatment were taken at 2 PM (8 hours after lights on) while punches for night treatment were taken at 8PM (2 hrs after lights off). RNA was extracted using the Rneasy mini kit (Qiagen), yielding ~200 nanograms of total RNA/punch. Two hundred to four hundred nanograms total RNA were amplified using two rounds of antisense RNA (aRNA) amplification using the RNA MessageAmp kit (Ambion), yielding no less than 130 µg aRNA. aRNA quality was assessed using Bioanalyzer Picochip (Agilent Technologies, Palo Alto, CA). 2.25 µg of aRNA was used to generate amino-allyl and Cy dye conjugated labeled cDNA (Cy5, Amersham) using the indirect aminoallyl-dNTP approach. Experimental details for hybridization, scanning, and quantification are in the Supporting Information (Materials & Methods) in Zak, Hao, et al (2006).
18 GSM96778 Rat 4 EGF-treated in the Nighttime 5,760 Thomas Jefferson University 2006-02-14 [cDNA Array] TJUDBI Rat 3K (GPL3446) RNA synthetic construct,Rattus norvegicus
synthetic construct,Rattus norvegicus
pooled Adult Sprague-Dawley rats (100-150g) housed individually and entrained to 12:12 light-dark cycles for at least two weeks were rapidly sacrificed between 10:00AM and 12:00PM for daytime treatments and between 4:00 and 6:00 PM for night treatments according to a protocol approved by TJU IACUC. Brains were excised quickly, placed in ice-cold, oxygenated artificial cerebral spinal fluid (ACSF) (10 mM HEPES, pH 7.4, 140 mM NaCl, 5 mM KCl, 1 mM MgCl2, 1 mM CaCl2, 24 mM D-Glucose), and cut into 500 µm coronal sections using a vibroslice vibratome (752M, Camden Instruments, Leica, UK). The resulting SCN slices were cultured in oxygenated ACSF for at least 60 minutes at 35°C. After incubation, slices were bisected along the third ventricle, separating the “left” and “right” SCN, and transferred into a new media containing the treatment (20 nM EGF or vehicle). Slices were incubated in treatment for 60 minutes before taking 0.75 mm micropunches (Stoelting, Chicago, IL). Punches for day treatment were taken at 2 PM (8 hours after lights on) while punches for night treatment were taken at 8PM (2 hrs after lights off). RNA was extracted using the Rneasy mini kit (Qiagen), yielding ~200 nanograms of total RNA/punch. Two hundred to four hundred nanograms total RNA were amplified using two rounds of antisense RNA (aRNA) amplification using the RNA MessageAmp kit (Ambion), yielding no less than 130 µg aRNA. aRNA quality was assessed using Bioanalyzer Picochip (Agilent Technologies, Palo Alto, CA). 2.25 µg of aRNA was used to generate amino-allyl and Cy dye conjugated labeled cDNA (Cy5, Amersham) using the indirect aminoallyl-dNTP approach. Experimental details for hybridization, scanning, and quantification are in the Supporting Information (Materials & Methods) in Zak, Hao, et al (2006).
19 GSM96777 Rat 3 EGF-treated in the Nighttime 5,760 Thomas Jefferson University 2006-02-14 [cDNA Array] TJUDBI Rat 3K (GPL3446) RNA synthetic construct,Rattus norvegicus
synthetic construct,Rattus norvegicus
pooled Adult Sprague-Dawley rats (100-150g) housed individually and entrained to 12:12 light-dark cycles for at least two weeks were rapidly sacrificed between 10:00AM and 12:00PM for daytime treatments and between 4:00 and 6:00 PM for night treatments according to a protocol approved by TJU IACUC. Brains were excised quickly, placed in ice-cold, oxygenated artificial cerebral spinal fluid (ACSF) (10 mM HEPES, pH 7.4, 140 mM NaCl, 5 mM KCl, 1 mM MgCl2, 1 mM CaCl2, 24 mM D-Glucose), and cut into 500 µm coronal sections using a vibroslice vibratome (752M, Camden Instruments, Leica, UK). The resulting SCN slices were cultured in oxygenated ACSF for at least 60 minutes at 35°C. After incubation, slices were bisected along the third ventricle, separating the “left” and “right” SCN, and transferred into a new media containing the treatment (20 nM EGF or vehicle). Slices were incubated in treatment for 60 minutes before taking 0.75 mm micropunches (Stoelting, Chicago, IL). Punches for day treatment were taken at 2 PM (8 hours after lights on) while punches for night treatment were taken at 8PM (2 hrs after lights off). RNA was extracted using the Rneasy mini kit (Qiagen), yielding ~200 nanograms of total RNA/punch. Two hundred to four hundred nanograms total RNA were amplified using two rounds of antisense RNA (aRNA) amplification using the RNA MessageAmp kit (Ambion), yielding no less than 130 µg aRNA. aRNA quality was assessed using Bioanalyzer Picochip (Agilent Technologies, Palo Alto, CA). 2.25 µg of aRNA was used to generate amino-allyl and Cy dye conjugated labeled cDNA (Cy5, Amersham) using the indirect aminoallyl-dNTP approach. Experimental details for hybridization, scanning, and quantification are in the Supporting Information (Materials & Methods) in Zak, Hao, et al (2006).
20 GSM96776 Rat 2 vehicle-treated in the Daytime 5,760 Thomas Jefferson University 2006-02-14 [cDNA Array] TJUDBI Rat 3K (GPL3446) RNA synthetic construct,Rattus norvegicus
synthetic construct,Rattus norvegicus
pooled Adult Sprague-Dawley rats (100-150g) housed individually and entrained to 12:12 light-dark cycles for at least two weeks were rapidly sacrificed between 10:00AM and 12:00PM for daytime treatments and between 4:00 and 6:00 PM for night treatments according to a protocol approved by TJU IACUC. Brains were excised quickly, placed in ice-cold, oxygenated artificial cerebral spinal fluid (ACSF) (10 mM HEPES, pH 7.4, 140 mM NaCl, 5 mM KCl, 1 mM MgCl2, 1 mM CaCl2, 24 mM D-Glucose), and cut into 500 µm coronal sections using a vibroslice vibratome (752M, Camden Instruments, Leica, UK). The resulting SCN slices were cultured in oxygenated ACSF for at least 60 minutes at 35°C. After incubation, slices were bisected along the third ventricle, separating the “left” and “right” SCN, and transferred into a new media containing the treatment (20 nM EGF or vehicle). Slices were incubated in treatment for 60 minutes before taking 0.75 mm micropunches (Stoelting, Chicago, IL). Punches for day treatment were taken at 2 PM (8 hours after lights on) while punches for night treatment were taken at 8PM (2 hrs after lights off). RNA was extracted using the Rneasy mini kit (Qiagen), yielding ~200 nanograms of total RNA/punch. Two hundred to four hundred nanograms total RNA were amplified using two rounds of antisense RNA (aRNA) amplification using the RNA MessageAmp kit (Ambion), yielding no less than 130 µg aRNA. aRNA quality was assessed using Bioanalyzer Picochip (Agilent Technologies, Palo Alto, CA). 2.25 µg of aRNA was used to generate amino-allyl and Cy dye conjugated labeled cDNA (Cy5, Amersham) using the indirect aminoallyl-dNTP approach. Experimental details for hybridization, scanning, and quantification are in the Supporting Information (Materials & Methods) in Zak, Hao, et al (2006).
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