Gene Expression Omnibus (GEO) Overview

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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.

Human
(6,763)

Phages
(0)

All
(13,996)

SAGE RsaI
(0)

MPSS
(5)

Protein Array
(0)

Antibody
(0)

RT-PCR
(0)

HT-Seq
(0)

Other
(5)

All
(13,996)

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
(2)

unclassified
(3)

all
(5)

	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	GSM109198	Small RNA MPSS signatures located in the region of the chromosome 3 centromere.	7,062	University of Delaware	2006-05-17	[MPSS] Rice small RNA MPSS signatures (GPL3776)	MPSS	Oryza sativa	pooled	Immature panicle and seedlings
2	GSM109200	Poly(A)+ MPSS signatures located at in the region of the chromosome 3 centromere	504	University of Delaware	2006-05-17	[MPSS] Rice mRNA MPSS signatures (GPL3777)	MPSS	Oryza sativa	pooled	MPSS data were obtained from the following samples: young leaves, young roots, young leaves - cold stressed, young roots - cold stressed, young leaves - drought stressed, young roots - drought stressed, young leaves - salt stressed, young roots - salt stressed, mature leaves, mature roots, 10 day old seedlings (dark grown), 3 day old seedlings, immature panicle, meristematic tissue, ovary & mature stigma, pollen, callus.
3	GSM112131	MoCR mouse organ of Corti MPSS signature library	22,169	National Institute on Deafness and Other Communication Disorders (NIDCD)	2006-06-01	[MPSS] MPSS inner ear signature list (GPL3835)	MPSS	Mus musculus	unclassified	source_name:organ of Corti tissue title:MoCR mouse organ of Corti MPSS signature library description:Mouse vestibular tissue total RNA (MoVb.B16x) received from NIDCD was analyzed through Bioanalyzer and passed our quality control test. The mRNA was processed according to the MPSS protocol as outlined in the previous publications (Brenner, S., et al. (2000) Proc Natl Acad Sci U S A 97(4): 1665-1670 and Brenner, S. et al., Nat. Biotechnol 18(6): 630-634). Briefly, the mRNA was reverse transcribed and the cDNA was digested with Dpn II. The 20 bases adjacent to the 3? most Dpn II site was cloned into a Megaclone vector. The resulting library was amplified and loaded onto microbeads. About 1.6 million microbeads were loaded into each flow cell and the signature sequences were determined by a series of enzymatic reactions as outlined in the above publications. The abundance for each signature was converted to transcripts per million (tpm) for the purpose of comparisons between samples.
4	GSM112132	MoSV stria vascularis MPSS library	19,743	National Institute on Deafness and Other Communication Disorders (NIDCD)	2006-06-01	[MPSS] MPSS inner ear signature list (GPL3835)	MPSS	Mus musculus	unclassified	source_name:mouse stria vascularis title:MoSV stria vascularis MPSS library description:Mouse vestibular tissue total RNA (MoVb.B16x) received from NIDCD was analyzed through Bioanalyzer and passed our quality control test. The mRNA was processed according to the MPSS protocol as outlined in the previous publications (Brenner, S., et al. (2000) Proc Natl Acad Sci U S A 97(4): 1665-1670 and Brenner, S. et al., Nat. Biotechnol 18(6): 630-634). Briefly, the mRNA was reverse transcribed and the cDNA was digested with Dpn II. The 20 bases adjacent to the 3? most Dpn II site was cloned into a Megaclone vector. The resulting library was amplified and loaded onto microbeads. About 1.6 million microbeads were loaded into each flow cell and the signature sequences were determined by a series of enzymatic reactions as outlined in the above publications. The abundance for each signature was converted to transcripts per million (tpm) for the purpose of comparisons between samples.
5	GSM112130	MoVB mouse vestibular sensory epithelia MPSS signature library	13,335	National Institute on Deafness and Other Communication Disorders (NIDCD)	2006-06-01	[MPSS] MPSS inner ear signature list (GPL3835)	MPSS	Mus musculus	unclassified	source_name:Mouse vestibular sensory epithelia, male and female, total RNA title:MoVB mouse vestibular sensory epithelia MPSS signature library description:Mouse vestibular tissue total RNA (MoVb.B16x) received from NIDCD was analyzed through Bioanalyzer and passed our quality control test. The mRNA was processed according to the MPSS protocol as outlined in the previous publications (Brenner, S., et al. (2000) Proc Natl Acad Sci U S A 97(4): 1665-1670 and Brenner, S. et al., Nat. Biotechnol 18(6): 630-634). Briefly, the mRNA was reverse transcribed and the cDNA was digested with Dpn II. The 20 bases adjacent to the 3? most Dpn II site was cloned into a Megaclone vector. The resulting library was amplified and loaded onto microbeads. About 1.6 million microbeads were loaded into each flow cell and the signature sequences were determined by a series of enzymatic reactions as outlined in the above publications. The abundance for each signature was converted to transcripts per million (tpm) for the purpose of comparisons between samples. MoVb.B16x_sig21.5028W.d-20 6/4/2004 532451 14210 QC Passed MoVb.B16x_sig21.5028T.d-20 6/2/2004 451211 11601 QC Passed MoVb.B16x_sig21.5028W.a-20 5/27/2004 437296 10228 QC Passed MoVb.B16x_sig21.5028T.c-20 5/25/2004 333984 7826 QC Passed Total Beads successfully sequenced - 1754942 Processed Signatures - 13335