title: SUCAST1920v3

status: Public on Aug 24 2005

city: Campinas

first: Renato

last: Vicentini

state: SP

address: Cidade Universitaria "Zeferino Vaz"

department: Centro de Biologia Molecular e Engenharia Genetica - CBMEG

country: Brazil

institute: Universidade Estadual de Campinas - UNICAMP

organism: Saccharum officinarum

technology: spotted DNA/cDNA

description: Five 384-well plates with 1920 SUCAST clones rearrayed for spotting

distribution: non-commercial


title: Rat 8Kx2 cDNA array

city: Baltimore

first: Irene

last: Kim

state: MD

address: 720 Rutland Avenue

department: Medicine

country: USA

institute: Johns Hopkins University

organism: Rattus norvegicus

description: Rat 8Kx2 cDNA microarrays were obtained from the Johns Hopkins Cancer Center Microarray Core (Baltimore, MD).  They contain 8000 genes and ESTs, double-printed on-site, from a cDNA set generated by The Institute for Genomic Research (Rockville, MD).

first: Anirban

last: Maitra


title: SAGE:11:NlaIII:Homo sapiens

status: Public on Aug 12 2005

last: GEO

organism: Homo sapiens

technology: SAGE NlaIII

description: This is a virtual platform for SAGE libraries generated for Homo sapiens using NlaIII as an anchor enzyme.

distribution: virtual


title: CR UK DMF Human 6.5K

status: Public on Aug 05 2005

city: Cambridge

first: Ahmed

middle: Ashour

last: Ahmed

address: Robinson Way

department: Oncology, University of Cambridge

country: United Kingdom

institute: Cancer Research UK Cambridge Research Institute

description:
cDNA microarrays
containing 6528 pairs of duplicate cDNA spots (Cancer Research UK DNA
Microarray Facility at the Institute of Cancer Research; CR-UK DMF
Human 6.5k genome-wide array)

middle: A

first: James

middle: D

last: Brenton


title: Human cytochrome P450 splice variant array

status: Public on Jul 05 2005

city: Berkeley

first: Jonathan

middle: L

last: Bingham

state: CA

address: 733 Allston Way

institute: Jivan Biologics, Inc

technology: in situ oligonucleotide

description:
63 human cytochrome P450 genes, 228 splice isoforms from RefSeq and EST libraries, 275 alternately spliced sites, 723 oligonucleotide probes for alternately spliced sites, exon junctions and gene expression. Probes spotted in triplicate. 2 arrays per slide.

Made by Agilent Technologies for Jivan Biologics, Inc.

distribution: commercial

first: Subha

last: Srinivasan

manufacture_protocol: Probes designed by Jivan Biologics, Inc. for splice variant detection and discovery. Oligonucleotides optimized for 37 C (38 bases) attached by 10 base poly-T.


title: Eurogentec S. pombe ORF array (J160B)

status: Public on Aug 11 2005

city: Stockholm

first: Karl

last: Ekwall

address: Alfred Nobels Alle 7

country: Sweden

institute: Karolinska Inst

organism: Schizosaccharomyces pombe

description: 11520 ORFs were spotted in duplicate on glass slide

distribution: custom-commercial

first: K

first: A

middle: P

last: Wright

first: D

last: Talibi

first: S

last: Hass

manufacture_protocol:
Primary PCR: The PCR reactions are performed using tagged genome specific primers in the presence of genomic DNA (provided by your laboratory). We normally achieve a success rate of 93 % of PCR reactions. For the failed PCR reactions we perform three different protocols of PCR conditions, which include different MgCl2 concentrations and different Taq polymerase. We should normally get an additional 2 % working and reach a success rate of 95 % in total. We check 5 % of the total oligos by Mass Spectrometry and will re-synthesize maximum 2 % of the oligos based on a newly designed primer. We will perform the PCR reactions with the new designed oligonucleotides with the standard PCR protocol. Following this process we reach usually 97 % success rate.
Secondary PCR: amplifications will be performed using a single pair of primers annealing to tag sequences introduced on primary PCR primers. These PCR amplifications will also be controlled by agarose gel electrophoresis and repeated if required reaching a minimum of 95 % success rate. The final PCR products will contain an amino group at their 5' end to promote the attachment of the predicted gene coding DNA strand to the treated glass slides.


title: S. cerevisiae cDNA spotted microarray

status: Public on Aug 19 2005

city: Davis

first: Ted

last: Powers

address: One Shields Ave

department: Molecular and Cellular Biology

institute: UC Davis

organism: Saccharomyces cerevisiae

manufacture_protocol: Spotted Arrays as described according to references available at www.microarrays.org


title: Eurogentec S. pombe IGR+ORF array (B190D)

description: 22176 IGRs and ORFs were spotted in duplicate on a glass slide


title: Sanger Pilot Study V1

status: Public on Aug 08 2005

city: San Diego

last: Illumina Inc.

address: 9885 Towne Centre Drive

institute: Illumina Inc.

technology: oligonucleotide beads

description: The array contains 630 protein coding genes of all RefSeq genes in the ENCODE regions, all RefSeq genes on human chromosome 21 and all RefSeq and manually curated genes from a 10Mb region at 20q12-13.2.  The array is composed of 3 micron features with an average feature redundancy of 30-fold.  All features are quality controlled by a sequential hybridization process called array decoding.  Each gene represented on the array contains 2 or more unique probes that are fully screened, full-length 50-mers.

first: Barbara

middle: E

last: Stranger

first: Matthew

middle: S

last: Forrest

first: Andrew

middle: G

last: Clark

first: Samual

last: Deutsch

first: Robert

last: Lyle

first: Sarah

last: Hunt

first: Brenda

last: Kahl

first: Stylianos

last: Antonarakis

first: Simon

last: Tavare

first: Panagiotis

last: Deloukas

first: Emmanouil

middle: T

last: Dermitzakis


title: Mouse Exons

status: Public on Aug 02 2005

city: Toronto

first: Mark

last: Robinson

country: Canada

institute: University of Toronto

organism: Mus musculus

first: Brendan

middle: J

last: Frey

first: Naveed

last: Mohammad

first: Wen

last: Zhang

first: Quaid

last: Morris

manufacture_protocol:
Custom 22K 60-mer ink-jet arrays designed by Naveed Mohammad (Tim
Hughes lab, University of Toronto) and manufactured by Agilent technologies


title: Streptococcus thermophilus bacteriophage microarray #2

city: Québec

first: Sylvain

last: Moineau

state: Québec

department: Biochemistry and microbiology

institute: Université Laval

organism:
Moineauvirus DT1
Brussowvirus bv2972

first: Martin

last: Duplessis

last: Russell

first: Dennis

last: Romero

manufacture_protocol: Manufacture according to the Gene Expression Center, University of Wisconsin, Madison, WI, USA


title: Galbraith Laboratory Operon Long Oligonucleotide Microarray Version 1.0 (AtOligo 1.23.2.Y)

city: Tucson

first: David

middle: William

last: Galbraith

state: AZ

address: 303 Forbes Building

department: Plant Sciences and Bio5 Institute

institute: University of Arizona

organism: Arabidopsis thaliana

technology: spotted oligonucleotide

description: This oligonucleotide array is produced from the Operon Version 1.0 Array-Ready Oligo set (AROS). The Arabidopsis V1.0 AROS is designed from UniGene Build At. #4 (www.operon.com). This set comprises 26,000 oligonucleotides. Additional elements are printed as controls.  This platform represents slides AtOligo 1.23.2.1-AtOligo 1.23.2.100 (http://www.ag.arizona.edu/microarray).

manufacturer: The Galbraith Lab, University of Arizona

middle: W

manufacture_protocol: GeneMachines, Omnigrid


title: Eurogentec S. pombe IGR array (J230C)

first: Karl

last: Ekwall

description: 11520 IGRs were spotted in duplicate on a glass slide

first: A

last: Wright

first: D

last: Talibi

first: S

last: Hass


title: Agilent Mouse cDNA Microarray (G4104A) [layout A]

status: Public on Jan 02 2004

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

description:
8,737 unique clones
Sourced from Incyte's mouse UniGene 1 clone set
Barcode location:Bottom
Scan Side:Front

This platform should be used for the following prints:

000461_D_20020516_FSPortraitBcodeDown

Please reference this platform if you used an array with the same layout, even if the print lot is different than specified above. The GEO staff will update the description of this platform to include additional print lots as encountered.

Print-specific information should be accounted for in the sample hybridization tables (eg. NULL value insertions for spots to be ignored).

manufacture_protocol: see manufacturer's web site


title: SUCAST1920v2

first: Renato

last: Vicentini


title: Vibrio cholerae PCR product array platform

status: Public on Aug 17 2005

city: Boston

first: Regina

last: LaRocque

state: MA

address: 55 Fruit Street

department: Division of Infectious Diseases

institute: Massachusetts General Hospital

organism: Vibrio cholerae

description: Spotted Vibrio cholerae PCR product array produced in laboratory of John Mekalanos at Harvard Medical School

first: John

last: Mekalanos

first: Michelle

last: Dziejman

middle: C


title: Eurogentec S. pombe IGR array (J130C)

description: 10752 IGRs were spotted in duplicate on glass slide

first: Anthony


title: Eurogentec S. pombe IGR+ORF array (I240c)

first: K


title: Hypertensive Study

status: Public on Aug 30 2005

city: Rockville

first: Norman

middle: H

last: Lee

address: 9712 Medical Center Drive

department: Department of Mammalian Genomics

institute: The Institute for Genomic Research

first: Bina

last: Joe

first: Letwin

last: Noah

first: Luu

last: Troung

first: Frank

last: Brian

manufacture_protocol: Pleae see www.tigr.org for protocol


title: Eurogentec S. pombe ORF array (J060C)

last: Tailbi

manufacture_protocol: Primary PCR: The PCR reactions are performed using tagged genome specific primers in the presence of genomic DNA (provided by your laboratory). We normally achieve a success rate of 93 % of PCR reactions. For the failed PCR reactions we perform three different protocols of PCR conditions, which include different MgCl2 concentrations and different Taq polymerase. We should normally get an additional 2 % working and reach a success rate of 95 % in total. We check 5 % of the total oligos by Mass Spectrometry and will re-synthesize maximum 2 % of the oligos based on a newly designed primer. We will perform the PCR reactions with the new designed oligonucleotides with the standard PCR protocol. Following this process we reach usually 97 % success rate.


title: VCholerae_A

city: Stanford

last: Stanford Microarray Database

address: 300 Pasteur Drive

department: Stanford University, School of Medicine

institute: Stanford Microarray Database (SMD)

manufacturer: Tina,,Boussard; School of Medicine, Department of Genetics, Stanford, CA, United States, 94305; 650-736-0077; boussard@genome.stanford.edu

manufacture_protocol: Material is transferred from microtiter plate wells to the slide surface by an automated print head


title: Eurogentec S. pombe ORF array (D080C)


title: FJL Mouse Compugen 22K Oligo

status: Public on Aug 26 2005

city: Oxford

first: Stephen

last: Sansom

state: Oxfordshire

address: Roosevelt Drive

department: NDORMS

institute: Kennedy Institute of Rheumatology

description: Slides are Codelink

first: F

last: Livesey

first: J

last: Smith

manufacture_protocol: Oligos designed by Compugen, Synthesised by Sigma, printed in house on Codelink slides in 150mM sodium phosphate pH 8.5 buffer


title: Eurogentec S. pombe ORF array (K130C)

first: Karl

last: Ekwall

first: A

last: Wright

last: Talibi


title: Rat Oligonucleotide expression array

city: Los Angeles

first: Nils

middle: Werner Georg

last: Lambrecht

address: 11301 Wilshire Blvd, Bldg.113, Rm.325A

department: Physiology

institute: UCLA

description: Agilent Rat Parietal cell Oligonucleotide Expression Microarray G4130A


title: Streptococcus thermophilus bacteriophage microarray

status: Public on Aug 10 2005

first: Sylvain

last: Moineau

description: Custom microarray developed to study the gene expression of two S. thermophilus phages (DT1 and 2972) during infection. Gene expression was measured at nine time intervals (0, 2, 7, 12, 17, 22, 27, 32, 37 minutes) during phage infection.

first: Martin

last: Duplessis

first: W. Michael

last: Russell

first: Dennis

last: Romero


title: Eurogentec S. pombe IGR+ORF array (K080D)

description: 22176 IGRs and ORFs  were spotted in duplicate on a glass slide

first: D

first: S

last: Hass


title: NIA 15K mouse cDNA array

status: Public on Aug 09 2005

first: Erica

last: Allen

description: The NIA_Mouse_15K_Array platform is composed of cDNAs from the NIA Mouse 15K cDNA clone collection. NIA Mouse 15K is derived from several early embryonic cDNA libraries, including blastocyst, preimplantation, embryonic stem cells, trophoblast stem cells, embryonic germ cells, and others.

first: Greg

last: Germino


title: Revised_Bacillus_anthracis_array

status: Public on Jan 28 2004

first: David

last: Rasko

department: Microbial Genomics

organism: Bacillus anthracis

description: Expanded array, with additional material in comparison to the platform in GPL266.  New information derived from completed annotation and sequencing

first: Timothy

last: Read

first: Scott

middle: N

last: Peterson

first: Jacques

last: Ravel

last: Wu

first: Jennifer

last: Rilstone

first: Claire

middle: M

last: Fraser


title: Agilent Mouse cDNA Microarray (G4104A) [layout B]

last: Agilent Technologies

description:
8,737 unique clones
Sourced from Incyte's mouse UniGene 1 clone set
Barcode location:Bottom
Scan Side:Front

This platform should be used for the following prints:

000490_D_20020516_FSPortraitBcodeDown
000522_D_20020801_FSPortraitBcodeDown
000522_D_20030121_FSPortraitBcodeDown

Please reference this platform if you used an array with the same layout, even if the print lot is different than specified above. The GEO staff will update the description of this platform to include additional print lots as encountered.

Print-specific information should be accounted for in the sample hybridization tables (eg. NULL value insertions for spots to be ignored).