title: Transcriptional Profiling of Borrelia burgdorferi containing  a unique bosR allele

status: Public on May 30 2006

city: College Station

first: Jenny

middle: A

last: Hyde

state: TX

address: 407 Reynolds Medical Building

department: MMPA

country: USA

institute: Texas A&M University HSC

organism: Borreliella burgdorferi

technology: spotted oligonucleotide

distribution: custom-commercial

manufacture_protocol:
The B. burgdorferi nylon membranes were generated as described in Ojaimi et al.  1628 of 1697 known ORFs of B. burgdorferi B31-MI were spotted in duplicate onto nylon membranes by Sigma- Genosys.

Ojaimi et. al (2003) Profiling of temperature-induced changes in Borrelia burgdorferi gene expression by using whole genome arrays.  Infect Immun 71, 1689-1705.


title: SHCD_Homo sapiens 43k cDNA array

status: Public on Dec 31 2005

city: Stanford

last: Stanford Microarray Database

state: CA

address: 300 Pasteur Drive

department: Stanford University, School of Medicine

institute: Stanford Microarray Database (SMD)

organism: Homo sapiens

technology: spotted DNA/cDNA

distribution: non-commercial

manufacturer: Stanford Functional Genomics Facility,  Stanford School of Medicine

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


title: Human 10K cDNA Array

status: Public on Sep 01 2003

city: Piscataway

first: Khew-Voon

last: Chin

state: NJ

address: 164 Frelinghuysen Road

department: Chemical Biology

institute: Ernest Mario School of Pharmacy, Rutgers University

description:
Human cDNA filter
Laboratory for Cancer Research, Rutgers University. The arrays contains 10,692 PCR amplifications of human cDNAs from a collection of EST clones purchased from Research Genetics.
10,692 EST clones were selected from a Research Genetics EST collection focusing on plates that contained mostly known genes. There are approximately 7,000 ESTs corresponding to known genes, and the remainder are ESTs either with homology to known genes or are anonymous.
cDNA inserts of the EST clones were amplified by PCR in a 96-well format (MJ Research, Boston, Massachusetts) using M13 forward (5'-CGTTGTAAAACGACGGCCAGT-3') and reverse primers (5'-TTTCACACAGGAAACAGCTATGAC-3'). The 10,692 PCR products were transferred onto 3x10 in Hybond N+ nylon membranes (Amersham Pharmacia Biotech) using the GeneMachines microarrayer. After spotting the arrays were cross-linked by UV. To assure even quality between subsequent rounds of hybridization, cDNA arrays were pre-stripped before their first use. To check for filter quality, human COT-1 DNA hybridizations were carried out.
Keywords = membrane, filter

first: Zachariah

middle: E

last: Selvanayagam

first: Ragini

last: Vitta


title: SVB

status: Public on Jan 06 2006

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


title: NCI/ATC Hs-OperonV3

status: Public on May 17 2006

city: Gaithersburg

first: David

last: Petersen

state: MD

address: 8717 Grovemont Circle

institute: NCI

manufacturer: Advanced Technology Center Microarray Facility (NIH/NCI/CCR/ATC)

manufacture_protocol: Microarrays are printed with GeneMachines robotic arrayer from Genomic Solutions (http://www.genomicsolutions.com) that is fitted with a printhead containing 48 SMP2.5 printing pins from Telechem International (http://www.arrayit.com). The human long oligonuleotide probe set contains 34,960 optimized 70mers (plus controls) obtained from Operon (http://www.operon.com/). The long oligonucleotide probes were purchased in 384-well polypropylene plates (Genetix, 384 microarray) and dissolved print buffer of sodium phosphate (150mM) at ph 8.5 and 4% sodium sulphate at a concentration of 20-30 uM. The microarray spots are printed with 160 micron column x 155 microns row spacing, and one spot is printed per probe per slide. The microarrays were printed on Corning Expoxide slides or Schott Epoxide slides and post-processed according to the manufacturer's protocol.


title: UCSF Drosophila melanogaster 7.8K spotted array

status: Public on May 20 2006

city: San Francisco

first: Julie

last: Hollien

address: 1700 Fourth Street

department: Cell and Molecular Pharmacology

institute: UCSF

organism: Drosophila melanogaster

first: Gohta

last: Goshima

first: Nico

last: Stuurman

first: Ron

last: Vale

first: Jonathan

last: Weissman

manufacture_protocol:
These spotted microarrays contain targets in the RNAi library described by Foley et al. (1), which consists of 7,216 phylogenetically conserved Drosophila genes. We also added to the library targets identified in Flybase (2) as being localized to the ER and targets whose expression in S2 cells changed upon the addition of DTT, as determined in pilot experiments using Affymetrix arrays. The targets are composed of exon sequences of 250-800 nucleotides, which we amplified by PCR, checked by agarose gel electrophoresis, and spotted onto poly-lysine coated slides as described (3). The primer sequences are contained in the platform file.
1.	E. Foley, P. H. O'Farrell, PLoS Biol 2, E203 (Aug, 2004).
2.	R. A. Drysdale, M. A. Crosby, Nucleic Acids Res 33, D390 (Jan 1, 2005).
3.	J. L. DeRisi, V. R. Iyer, P. O. Brown, Science 278, 680 (Oct 24, 1997).


title: VMSR Mus 20K

status: Public on May 18 2006

city: Nashville

first: Shawn

last: Levy

state: TN

address: 691 Preston Research Bldg

department: Vanderbilt Microarray Shared Resource

institute: Vanderbilt University

organism: Mus musculus

manufacture_protocol: Microarrays containing 22,172 cloned genes from the National Institute on Aging 15k cDNA clone set, mouse sequence-verified clones from Research Genetics and several control genes were generated by the Vanderbilt Microarray Shared Resource.  Full gene lists and protocols are available at http://array.mc.vanderbilt.edu.  Briefly, all cDNA clones were amplified (Hegde, P, et. al., Biotechniques, 29, 548-562.) and verified by gel electrophoresis.  The dried PCR products were then resuspended in 40 ul VMSR buffer A [Vanderbilt Microarray Shared Resource, Nashville, TN] resulting in an average concentration of 400 – 700 ug/ml per product.  The PCR products were then transposed to 384 well plates and robotically arrayed using a BioRobotics MicroGrid II microarray printing robot (Apogent Discoveries, Hudson, NH) onto amine-coated  glass slides (TeleChem International, Sunnyvale, CA).  The microarrays were then crosslinked using  80mjoules of ultraviolet energy (Stratgene Stratalinker, LaJolla, CA).  Following crosslinking, the arrays were baked for two hours at 70C in a standard oven and stored under low humidity conditions until use.


title: Human 10K - Wellcome Trust Sanger Institute

status: Public on Jun 06 2003

city: Oxford

first: Andrea

last: Pellagatti

address: John Radcliffe Hospital

department: NDCLS, RDM

country: United Kingdom

institute: University of Oxford

description: 10K cDNA microarray manufactured at the Microarray Facility, The Wellcome Trust Sanger Institute, Cambridge, UK.


title: NGEL 2.12 Rat Oligo Microarray

status: Public on Oct 03 2003

first: Ronald

middle: P.

last: Hart

address: 604 Allison Rd Rm B430

department: Cell Biology & Neuroscience

institute: Rutgers University

organism: Rattus norvegicus

description: Compugen/Sigma-Genosys Rat Oligo set, and custom oligos from MWG spotted onto poly-l-lysine-coated glass slides.


title: Eurogentec AG S. pombe ORF array 10k (1st batch)

status: Public on May 03 2006

city: Huddinge

first: Anthony

last: Wright

address: Blickagången 6

country: Sweden

institute: Karolinska Institute

organism: Schizosaccharomyces pombe

description:
4976 ORFs spotted in duplicate on glass slide
Keywords = yeast ORF DNA microarray

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: Zebrafish 44K oligo promoter array_Slide 1 of 2

status: Public on May 22 2006

city: Cambridge

first: Elizabeth

last: Herbolsheimer

state: MA

address: 9 Cambridge Center

institute: Whitehead Institute

organism: Danio rerio

description:
Microarrays were designed as described below and manufactured by Agilent Technologies (www.agilent.com). Further information on design can be found at http://jura.wi.mit.edu/bioc/gbell/zfish_chip/.

The Whitehead zebrafish promoter chipsets were designed for large-scale chromatin immunoprecipitation using microarrays (ChIP chips). The chipsets represent the promoters of about 11,000 transcriptional units derived using transcript sequences from Refseq, Ensembl, Vega, ZGC, and the Zon Lab. The 2-chipset represents proximal promoters (-1500 nt to +500 nt from the transciptional start site [tss]) on two microarrays of the same density. Probes are spaced an average of 250 nt apart.

manufacture_protocol: as described in www.agilent.com


title: SAGE:17:NlaIII:Palaemonetes pugio

status: Public on May 16 2006

last: GEO

organism: Palaemon pugio

technology: SAGE NlaIII

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

distribution: virtual


title: SKCC Salmonella 380K tiling array

status: Public on May 23 2006

city: San Diego

first: Yipeng

last: Wang

institute: Vaccine Research Institute of San Diego

organism: Salmonella

technology: in situ oligonucleotide

description: This set includes 382864 46~50mer oligonucleotides, mostly 50-mers. The probes were designed based on Salmonella typhimurium LT2 (NC_003197.1) genome, with a moving window of about 12 bases.

first: Fred

last: Long

first: Michael

last: McClelland

manufacture_protocol: in situ oligonucleotide


title: Xenopus tropicalis genome oligo set

status: Public on May 06 2006

first: Joana

middle: Maria

last: Ramis Morey

address: Tennis Court Road

institute: Gurdon Institute

organism: Xenopus tropicalis

manufacture_protocol: Oligos designed and synthesised by operon, printed in house on Codelink slides in 150mM sodium phosphate pH 8.5 buffer


title: Viro3

status: Public on May 01 2006

first: Joe

last: DeRisi

department: Biochemistry and Biophysics

institute: University of California, San Francisco

organism: Viruses

description: This platform includes ~22,000 oligonucleotides derived from ~1200 viral species and is an extension of the MegaViro platform (GPL1834), which contained ~11,000 oligonucleotides that were designed to represent regions of highest conservation among viral genomes (Wang D, Coscoy L, et al 2002).  About 11,000 additional viral oligonucleotides were designed using all the viral sequences in GenBank as of April 2004.  The new oligos were chosen using the ViroTax system (manuscript in preparation) such that all viral taxa represented in GenBank are distinguishable using the microarray to the extent possible given differential binding energies.  This platform also includes 488 oligonucleotides from 35 bacterial species, 20 oligonucleotides from 2 human endogenous retroviruses, and 308 control oligonucleotides including 108 OPERON oligonucleotides of highly expressed human genes.

manufacturer: DeRisi Lab, University of CA, San Francisco

first: Anatoly

last: Urisman

first: Kael

middle: F

last: Fischer

first: Joseph

middle: L

manufacture_protocol: Spotted 70-mer nucleotides on glass.


title: UCSF Madhani S. cerevisiae ORFarray

first: Shivkumar

last: Venkatasubrahmanyam

department: Biochemistry

organism: Saccharomyces cerevisiae

manufacture_protocol: Microarrays were fabricated as described (DeRisi et al., 1997, Science 278:680-686.  Nearly all annotated S. cerevisiae ORFs were amplified by PCR and spotted onto poly-L-lysine coated glass slides using a robot custom-buit by Dr. Joseph DeRisi (UCSF).  Detailed protocols are available at the DeRisi lab website at UCSF.


title: Ret13K (BMAP mouse Retinal library)

status: Public on May 15 2003

city: Memphis

first: Deanna

middle: Cole

last: Naeve

address: 332 N. Lauderdale

department: Hartwell Center for Bioinformatics and Biotechnology

institute: St. Jude Children's Research Hospital

description: The Ret13K microarray includes 12,243 mouse clones including BMAP mouse retinal clones and 220 clones from the Incyte mouse unigene 1 collection.  The cDNA inserts were amplified from replica plate cultures by PCR, purified and mechanically spotted onto polylysine-coated microscope slides using an OmniGrid robotic spotter (GeneMachines, San Carlo, CA).  Printed slides were post-processed according to the procedures on the Stanford website with some modifications: http://cmgm.stanford.edu/pbrown/protocols/index.html.


title: Nimblegen apple 60-mer oligo array (March 2005)

status: Public on May 05 2006

city: University Park

first: Izabela

last: Makalowska

state: PA

address: 502 Wartik Lab

institute: Pennsylvania State University

organism: Malus domestica

description:
This set includes 60-mer oligonucleotides for 55,155 apple contigs assembled form available apple ESTs  (March 2005) and 75 locally sequences cDNA sequences. EST sequences were assembled  using TIGR TGICL assembly software.  Assembly was done twice,  one for 'gala' variety only (75751 ESTs) and second for all apple (183732 ESTs.) In addition 400 apple mRNA sequences were used as assembly seeds.  Contigs resulting from both assemblies were used for oligo design.
Gene DNA strand for oligo design was determined using BLASTX against Arabidopsis and NCBI nr databases. Oligos were designed from both strands for  each sequence  with  no significant BLAST hit.

first: Timothy

middle: W

last: McNellis

first: Philip

middle: J

last: Jensen

first: Naomi

last: Altman

first: Robert

last: Crassweller

first: James

last: Travis

first: Craig

last: Praul

first: Siela

last: Maximova

manufacture_protocol: NimbleGen proprietary software used to identify 6 perfectly matched 60-mer oligonucleotides for each apple gene.


title: Spectral_Genomics_Human_BAC_array

status: Public on May 25 2006

city: Toronto

first: Chung-Hae

last: Lee

state: ON

address: 9th Floor Rm. 717, 610 University Ave

department: Applied Molecular Oncology

country: Canada

institute: Ontario Cancer Institute, Princess Margaret Hospital

first: Jeremy

last: Squire


title: UCSF Madhani S. cerevisiae ORFarray v2


title: MSU BLO 8400

status: Public on May 27 2006

city: Morgantown

first: Brandon

middle: M

last: Lingenfelter

state: WV

address: G058 Agricultural Sciences Bldg

department: Animal & Veterinary Sciences

institute: West Virginia University

organism: Bos taurus

first: Coussens

last: Paul

manufacture_protocol: Oligos designed and synthesized by Operon (http://www.operon.com/).  Complete annotation on the gene spots available via the GeneLink database (http://cafg.msu.edu). The Operon Bovine AROS Version 1.1 contains 8329 70-mer oligonucleotide probes representing 8329 genes from bovine genome. Each probe contains an amino linker at its 5' end. Gene sequences used for probe design are obtained from TIGR Cattle Gene Index Release 11 (http://www.tigr.org/tigr-scripts/tgi/T_index.cgi?species=cattle) and GenBank.


title: Uni Wuerzburg Listeria monocytogenes 13.8K whole genome array

city: Wuerzburg

first: Biju Joseph

last: Ampattu

address: Josef-Schneider Str 2

department: Department of Microbiology

country: Germany

institute: University of Wuerzburg

organism: Listeria monocytogenes

description:
Epoxy coated slides used to spot 70mer oligonucleotides
Whole genome DNA microarrays that contain synthetic 70mer oligodeoxyribonucleotides covering all ORFs of the Lm genome. The oligonucleotides (sequences available at http://www.operon.com/arrays/oligosets_listeria.php) were spotted on epoxy coated glass slides from Quantifoil according to manufacturer’s instructions by M. Frosch (Institut für Hygiene and Mikrobiologie, Würzburg, Germany). Each oligo was spotted four times on a slide to generate four replicates for each oligo on a slide.

first: Alexandra

middle: K

last: Marr

first: Biju

last: Joseph

first: Sonja

last: Mertins

first: Regina

last: Ecke

first: Stefanie

last: Müller-Altrock

first: Werner

last: Goebel

manufacture_protocol:
ARRAY PRINTING
1. Dissolve oligonucleotide probe or PCR product in the appropriate spotting solution to obtain the
recommended final probe concentration:
DNA Probes Final Spotting Concentration
Oligonucleotides 10 - 20 ìM
PCR products 0.1 – 1 mg/ml
2. Transfer an appropriate volume of probes to a microtiter plate.
3. Set up the arrayer according to the manufacturer’s recommendations. If you were previously
using slides that were thicker than 1.0 mm, for optimal spotting you may need to re-calibrate
the distance between the slide surface and the spotting pins.
4. Print the substrates at 40-50% relative humidity at 20 to 25°C.
DNA IMMOBILIZATION
1. Incubate printed microarray slides in humidity chamber at room temperature for 30 min (see
appendix for details of how to prepare this chamber) to ensure quantitative immobilization.
2. Proceed to washing


title: Disease response array (Fusiform rust disease, USDA funded)

status: Public on May 09 2006

city: Raleigh

first: Henrietta

last: Myburg

state: NC

address: 42218 Gardner Hall

department: Botany

institute: NC State University

organism:
Pinus taeda
Pinus elliottii var. elliottii

description:
cDNA microarray, labeling of targets using TIGR amino-allyl labeling protocol, Fully balanced incomplete block design used as experimental design, Analysis of microarray data was done using SAS Microarray Solutions software.
Keywords = Fusiform rust disease
Keywords = Cronartium quercuum fsp. fusiforme
Keywords = NSF loblolly pine cDNA library

first: Jason

last: Osborne

first: Henry

middle: V

last: Amerson

first: Saul

last: Garcia

first: Dana

middle: C

last: Nelson

first: Tom

last: Kubisiak

first: John

last: Davis

first: Alison

last: Morse

first: Dudley

last: Huber

first: Sarah

last: Covert

first: Leonel

last: Van Zyl


title: SMRT_arrays_human_BAC

first: Chung-Hae

last: Lee

first: Jeremy

last: Squire


title: ISU Maize 12k cDNA Generation II Version B-IG

status: Public on Dec 09 2005

city: Ames

first: Patrick

middle: S.

last: Schnable

state: IA

address: 2035B Roy J Carver Co-Lab

institute: Iowa State University

organism: Zea mays

manufacturer: Schnable Laboratory at Iowa State University(ISU)

middle: S

manufacture_protocol: The ISU microarray facility have generated a maize gene chip that contains 12,160 spotted cDNA inserts. These cDNA clones were obtained from NSF Plant Genome EST projects led by Ginny Walbot and Pat Schnable.


title: KI/Eurogentec S. cerevisiae 12.8K array (E150C)

status: Public on Apr 22 2006

first: Anthony

last: Wright

description: The cDNA array contains probe sets that detect entire open reading frame (ORF) of Saccharomyces cerevisiae. Each transcript is double spotted adjacent to each other.

first: Yongtao

last: Xue-Franzén

first: Anna

last: Johnsson

manufacture_protocol: See manufacturer's website


title: UCSF 9Hs Human 23K v.2 Oligo Array

status: Public on May 17 2006

first: Agnes

last: Paquet

address: 1550 Fourth Street, RM 545

description: Arrays were printed on aldehyde coated slides.  Please see the Erie Scientific website for more information.

first: Andrea

last: Barczak

first: Rebecca

last: Barbeau

first: David

last: Erle

manufacture_protocol: Operon Human V2 70mer oligonucleotide set.


title: Affymetrix ENCODE Tiling Array - SENSE - NCBI build 35

city: Santa Clara

first: Thomas

middle: R

last: Gingeras

address: 3380 Central Expressway

institute: Affymetrix, Inc.

description:
21bp resolution oligonucleotide tiling array.
Annotation in this record based on NCBI build 35.

manufacture_protocol: See manufacturer's web site


title: Eurogentec AG S. pombe ORF array 11k (I100C)

description: 11520 ORFs were spotted in duplicate on glass slide

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: Eurogentec AG S. pombe ORF array 11k (L040B)

description:
Schizosaccharomyces pombe

4976 ORFs spotted in duplicate on glass slide
Keywords = yeast ORF DNA microarray


title: UTHSCSA Operon Mouse 17K

city: Novato

first: R.

middle: Brent

last: Calder

address: 8001 Redwood Blvd

institute: Buck Institute for Age Research

description: Mouse 70-mer oligonucleotide arrays.

first: Yousin

last: Suh

first: Jan

last: Vijg

first: Mi-Ook

last: Cho

first: Jung-Yoon

last: Park

first: Robert

middle: B

manufacture_protocol: Qiagen-Operon Mouse Library v2. Suspended in 2x SSC, spotted on Corning Ultra GAPS glass slides using a Gene Machines OnmiGrid Printer.


title: Pig_Array_Ready Oligo set v1.0

city: Minneapolis

first: Bhupinder

last: Juneja

state: MN

address: 1988 Fitch Avenue S

institute: University Of Minnesota

organism: Sus scrofa

description: The Pig Genome Oligo Set Version 1.0 contains 10,665 70mer probes representing 10,665 Sus scrofa gene sequences with a hit to a known human, mouse, or pig gene transcript and some sequences containing a 3' expressed sequence tag (EST).The Pig Genome Oligo Extension Set Version 1.0 contains 2,632 70mer probes representing 2632 Sus scrofa gene sequences with at least one 3' EST. For our probe design we use state-of-the-art methodology and proprietary software.The probes are Tm normalized to 78ºC (±5ºC) and have a 5' amino linker. A sample set is also available.

first: S

last: Fahrenkrug

manufacture_protocol: TAS Application Suite (MicroGrid II) version 2.2.2.8


title: Chicken cDNA DDMET 1700 array version 1.0

city: Rennes cedex

first: Christian

last: Diot

address: 65, rue de saint-Brieuc, CS 84215

department: Animal Genetics

country: France

institute: INRA

organism: Gallus gallus

description: This set includes 195 differential display cDNA products from lean and fat chickens, 128 metabolism specific cDNAs, 2 fluorescent oligonucleotide (TagF and TagR, Eurogentec) control probes and 3 ready-to-spot PCR products from Arabidopsis thaliana (corresponding to RUBISCO activase (RCA), root cap 1 (RCP1) and papain-type cysteine endopeptidase (XCP2), Stratagene) at 3 different concentrations (10, 40 and 80 ng/µl). We spotted all the probes in triplicate, except control probes in duplicate, resulting in 1728 spots.

manufacturer: IFR140 - Ouest Genopole Transcriptome plateform, UMR6061, UMR GA, Rennes

first: Emmanuelle

last: Bourneuf

first: Frédéric

last: Hérault

first: Wilfrid

last: Carré

first: Sirine

last: Assaf

first: Sandrine

last: Lagarrigue

first: Madeleine

last: Douaire

first: Annabelle

last: Monnier

first: Jean

last: Mosser

manufacture_protocol: Probes were suspended in 3X SSC/betaine and printed using MicroGrid II (Biorobotics) arrayer and arrayer software version 2.2.2.8


title: USDA Bovine 60mer 344k Array (gene layout)

status: Public on Jan 05 2006

city: Beltsville

last: Li

address: Barc East

department: Animal & Natural Resources Institute

institute: USDA

description: There are ~ 340,000 features on the array. The 86,191 disinct 60mer oligonucleotides on the array, each represented by 4 features (spots), represent 45,383 unique bovine sequences including 40808 Tentative Consensus sequneces from the TIGR Bos taurus Gene Index (BTGI, release 11.0) and 4,575 singletons from pooled mammary gland and gut library.

first: Anthony

last: Capuco

first: Curt

middle: P

last: Van Tassell

first: Tad

last: Sonstegard

first: Erin

middle: E

last: Connor

first: Louis

last: Gasbarre

manufacture_protocol: in situ synthesis


title: SHBX

status: Public on Jun 08 2005

city: Stanford

last: Stanford Microarray Database

address: 300 Pasteur Drive

institute: Stanford Microarray Database (SMD)

organism: Homo sapiens

description:
Support: glass
Coating: unknown_surface_type
Manufacturer: Stanford Functional Genomics Facility,  Stanford School of Medicine


title: Human LymphDx 2.7k GeneChip

status: Public on Apr 27 2006

city: Bethesda

first: Sandeep

last: Dave

address: 9000 Rockville Pike

institute: National Cancer Institute


title: SHBR


title: SHBB

status: Public on Aug 23 2005

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


title: SHCG


title: Zebrafish 44K oligo promoter array_Slide 2 of 2

status: Public on May 22 2006

first: Elizabeth

last: Herbolsheimer

address: 9 Cambridge Center

institute: Whitehead Institute

description:
Microarrays were designed as described below and manufactured by Agilent Technologies (www.agilent.com). Further information on design can be found at http://jura.wi.mit.edu/bioc/gbell/zfish_chip/.

The Whitehead zebrafish promoter chipsets were designed for large-scale chromatin immunoprecipitation using microarrays (ChIP chips). The chipsets represent the promoters of about 11,000 transcriptional units derived using transcript sequences from Refseq, Ensembl, Vega, ZGC, and the Zon Lab. The 2-chipset represents proximal promoters (-1500 nt to +500 nt from the transciptional start site [tss]) on two microarrays of the same density. Probes are spaced an average of 250 nt apart.

manufacture_protocol: as described in www.agilent.com