title: siRNA screen human kinome array

status: Public on Jan 31 2019

city: Houston

first: Yuan

last: Qi

state: TX

address: 1400 Pressler St

department: Bioinformatics & Computational Biology

country: USA

institute: University of Texas M.D. Anderson Cancer Center

organism: Homo sapiens

technology: other

description: RNA interference by using small interfering RNAs

distribution: custom-commercial

manufacture_protocol: high throughput RNAi screens using in-house siRNA libraries purchased from Dharmacon


title: Illumina HiSeq 2000 (Homo sapiens; Mycobacterium leprae)

last: GEO

organism:
Mycobacterium leprae
Homo sapiens

technology: high-throughput sequencing

distribution: virtual


title: Illumina HiSeq 2000 (Methylomicrobium buryatense)

status: Public on Jan 30 2019

organism: Methylotuvimicrobium buryatense


title: Illumina HiSeq 2500 (Candidatus Protochlamydia amoebophila; Legionella pneumophila)

organism:
Legionella pneumophila
Candidatus Protochlamydia amoebophila


title: Illumina HiSeq 2500 (Acanthamoeba castellanii; Candidatus Protochlamydia amoebophila)

organism:
Acanthamoeba castellanii
Candidatus Protochlamydia amoebophila


title: Agilent-080012 Gluconobacter_oxydans_621H

status: Public on Jan 29 2019

city: Shanghai

first: Jie

last: Bao

address: 130 Meilong Road

country: China

institute: East China University of Science and Technology

organism: Gluconobacter oxydans

technology: in situ oligonucleotide

description:
Gluconobacter_oxydans_621H

Arrays of this design have barcodes that begin with 16080012 or 2580012.

Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.

The ID column represents the Agilent Feature Extraction feature number.

Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).

To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.

manufacture_protocol: see manufacturer's web site at http://www.agilent.com/


title: Illumina HiSeq 2500 (Legionella pneumophila)

organism: Legionella pneumophila


title: Illumina HiSeq 2500 (Gadus morhua)

organism: Gadus morhua


title: USU Sorghum 12K  v1.0

city: Logan

first: John

middle: G.

last: Carman

state: UT

address: 4820 Old Main Hill

department: Plants, Soils and Climate Department

institute: Utah State University

organism: Sorghum bicolor

technology: spotted oligonucleotide

manufacture_protocol: Two color microarrays synthesized from 12,000 35 nt probes by CombiMatrix (Irvine, CA) based on unigene EST from sorghum panicles that represented about 25 % of sorghum open reading frames (Genetics 171(4), 1963-1976. doi: 10.1534/genetics.105.048215).


title: [MOE430B] Affymetrix Mouse Expression 430B Array

status: Public on Jun 23 2003

city: Santa Clara

last: Affymetrix

state: CA

institute: Affymetrix, Inc.

organism: Mus musculus

description:
Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html

June 03, 2009: annotation table updated with netaffx build 28
June 21, 2012: annotation table updated with netaffx build 32
July 06, 2016: annotation table updated with netaffx build 35

distribution: commercial

manufacture_protocol:
see manufacturer's web site

Array B of GeneChip Mouse Expression Set 430
Has 22575 entries and was indexed 09-Apr-2003
Sequences used in the design of the array were selected from GenBank, dbEST, and RefSeq. Sequence clusters were created from Build 107 of UniGene (June 2002) and refined by analysis and comparison with a number of other publicly available databases including the Whitehead Institute Center for Genome Research (MGSC April 2002). In addition, sequences were analyzed for untrimmed low-quality sequence information, correct orientation, false clustering, alternative splicing and alternative polyadenylation.


title: Illumina HiSeq 4000 (Quercus mongolica)

status: Public on Jan 28 2019

organism: Quercus mongolica


title: Illumina HiSeq 4000 (Quercus wutaishanica)

organism: Quercus wutaishanica


title: Illumina HiSeq 4000 (Antheraea pernyi)

organism: Antheraea pernyi


title: Illumina HiSeq 2500 (Aythya affinis)

organism: Aythya affinis


title: Illumina HiSeq 2500 (Oxyura jamaicensis)

organism: Oxyura jamaicensis


title: [RMLchip8a520720F] Affymetrix RML Custom Pathogenic chip 8

city: Hamilton

first: Dan

last: Sturdevant

state: MT

address: 903 S 4th street

department: NIAID

institute: NIH

organism:
Yersinia pseudotuberculosis
Yersinia pestis KIM10+
Yersinia pestis CO92

description:
RMLchip8a520720F
custom pathogenic Affymetrix chip 8 manufactured for RML

manufacture_protocol: standard Affymetrix protocol


title: Illumina HiSeq 2500 (Anas rubripes)

organism: Anas rubripes


title: Illumina HiSeq 2000 (Pseudomonas aeruginosa PA14)

status: Public on Jan 25 2019

organism: Pseudomonas aeruginosa PA14


title: Illumina HiSeq 2500 (Aix sponsa)

organism: Aix sponsa


title: NextSeq 550 (Arachis hypogaea)

organism: Arachis hypogaea


title: Illumina MiSeq (Escherichia coli O157:H7 str. Sakai)

status: Public on Jan 24 2019

organism: Escherichia coli O157:H7 str. Sakai


title: Illumina HiSeq 2500 (Acanthamoeba castellanii)

organism: Acanthamoeba castellanii


title: Illumina HiSeq 4000 (Bubalus bubalis)

organism: Bubalus bubalis


title: Illumina HiSeq 2000 (Novosphingobium sp. THN1)

organism: Novosphingobium sp. THN1


title: Illumina HiSeq 4000 (Aedes albopictus)

organism: Aedes albopictus


title: Illumina HiSeq 2500 (Aethionema arabicum)

organism: Aethionema arabicum


title: Illumina MiniSeq (Caenorhabditis elegans)

organism: Caenorhabditis elegans


title: Illumina NextSeq 500 (Acipenser ruthenus)

organism: Acipenser ruthenus


title: Illumina HiSeq 2500 (Histrionicus histrionicus)

organism: Histrionicus histrionicus


title: Arraystar LncPath Mouse Cell Necroptosis Array (Agilent-074994)

status: Public on Jan 23 2019

city: Rockville

first: Panos

last: Pan

state: MD

address: 9430 Key West Avenue

institute: Arraystar Inc.

organism: Mus musculus


title: HiSeq X Ten (Vibrio alginolyticus)

organism: Vibrio alginolyticus


title: LC Sciences Mus musculus miRNA array miRMouse_20 [miRNA_ID]

city: Chicago

first: Xiaofeng

last: Zhou

state: Illinois

address: 801 S Paulina Street

institute: University of Illinois at Chicago

description: Part No. MRA-1002


title: [HuGene-2_0-st] Affymetrix Human Gene 2.0 ST Array [Hugene20st_Hs_ENST_19.0.0]

city: Bethesda

first: GEO

last: admin

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

organism: Homo sapiens

description: custom CDF (Hugene20st_Hs_ENST_19.0.0.)

manufacture_protocol: See manufacturer's web site


title: Illumina HiSeq 2500 (Ricordea yuma)

status: Public on Jan 22 2019

organism: Ricordea yuma


title: NimbleGen Schizosaccharomyces pombe (4-Plex Array) v2 (A6187-00-02)[090408_Spom_exp]

city: Matsue

first: Ikuhisa

last: Nishida

state: Shimane

address: 1060 Nishikawatsu

department: Life Sciences

country: Japan

institute: Shimane University

organism: Schizosaccharomyces pombe

manufacture_protocol: See manufacturer's website at http://www.nimblegen.com/


title: BGISEQ-500 (Chromochloris zofingiensis)

organism: Chromochloris zofingiensis


title: RT2 Profiler PCR Array Human Adipogenesis

status: Public on Jan 19 2019

city: Rome

first: Valentina

last: Roglia

address: Via della Ricerca Scientifica, 1

department: Biology

country: Italy

institute: University of Rome "Tor Vergata"

technology: RT-PCR


title: Illumina HiSeq 2500 (Methylorubrum extorquens AM1)

organism: Methylorubrum extorquens AM1


title: HiSeq X Ten (Tetrahymena thermophila)

organism: Tetrahymena thermophila


title: BGISEQ-500 (Triticum aestivum)

status: Public on Jan 21 2019

organism: Triticum aestivum


title: 454 GS FLX (aquifer metagenome)

status: Public on Jan 18 2019

organism: aquifer metagenome


title: Illumina NextSeq 500 (Oryza sativa Japonica Group)

organism: Oryza sativa Japonica Group


title: Illumina HiSeq 4000 (Citrus sinensis)

organism: Citrus sinensis


title: Illumina HiSeq 3000 (Felis catus)

status: Public on Jan 17 2019

organism: Felis catus


title: Illumina HiSeq 2000 (Mumps rubulavirus)

organism: Mumps orthorubulavirus


title: Illumina HiSeq 4000 (Cyprinus carpio)

organism: Cyprinus carpio


title: [Clariom_S_Human] Affymetrix Clariom S Human array [ClariomSHuman_Hs_ENTREZG_22.0.0]

manufacture_protocol: See manufacturer's website


title: Agilent-043020 Pengfei_CDRT4_Sep_7_2012 034305

city: HOUSTON

first: Michelle

middle: C.

last: Barton

state: TEXAS

address: 6767 Bertner St. Unit Number: 1000 Room Number: S9.8116B

department: Department of Epigenetics and Molecular Carcinogenesis,

institute: The University of Texas MD Anderson Cancer Center


title: Agilent-032121 Pengfei_17


title: Ion Torrent Proton (Solanum lycopersicum)

organism: Solanum lycopersicum


title: Illumina HiSeq 2000 (Murine respirovirus)

organism: Respirovirus muris


title: Illumina MiSeq (Haemophilus influenzae Rd KW20)

organism: Haemophilus influenzae Rd KW20


title: Illumina HiSeq 2500 (Plasmodium vivax)

organism: Plasmodium vivax


title: RT Profiler PCR Array Mouse Adipogenesis

organism: Mus musculus


title: Illumina HiSeq 2500 (Schizophyllum commune)

status: Public on Jan 16 2019

organism: Schizophyllum commune


title: Agilent-017821 Feng new 17p4x44-01

organism: Homo sapiens


title: AB 5500 Genetic Analyzer (Trichoderma virens)

organism: Trichoderma virens


title: Illumina HiSeq 2500 (Callithrix jacchus; Saimiriine gammaherpesvirus 2)

organism:
Callithrix jacchus
Saimiriine gammaherpesvirus 2


title: Illumina HiSeq 2000 (Chaetoceros sp.)

organism: Chaetoceros sp.


title: Illumina HiSeq 2500 (Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821)

status: Public on Jan 15 2019


title: Illumina HiSeq 4000 (Hylocereus undatus)

status: Public on Jan 14 2019

organism: Selenicereus undatus


title: Illumina Human1Mv1 DNA Analysis BeadChip (Human1Mv1_C) SNP ID

technology: oligonucleotide beads


title: Illumina NextSeq 500 (Homo sapiens; Toxoplasma gondii)

organism:
Toxoplasma gondii
Homo sapiens


title: HiSeq X Ten (Cyprinus carpio 'koi')

organism: Cyprinus carpio 'koi'


title: Illumina HiSeq 4000 (Nostoc punctiforme PCC 73102)

status: Public on Jan 12 2019

organism: Nostoc punctiforme PCC 73102


title: Illumina HiSeq 1500 (Vibrio cholerae C6706)

organism: Vibrio cholerae C6706


title: HiSeq X Ten (Micropterus salmoides)

status: Public on Jan 11 2019

organism: Micropterus salmoides


title: NRCA3_084387

city: Boston

first: Trevor

last: Siggers

state: MA

address: 24 Cummington Mall

department: Department of Biology

institute: Boston University

technology: spotted peptide or protein

manufacture_protocol: see Agilent


title: Illumina HiSeq 2500 (Anopheles aquasalis)

organism: Anopheles aquasalis


title: Illumina HiSeq 2500 (Agaricus bisporus)

organism: Agaricus bisporus


title: Illumina HiSeq 2500 (Rickenella mellea)

organism: Rickenella mellea


title: Illumina HiSeq 2500 (Lentinus tigrinus)

organism: Lentinus tigrinus


title: Illumina HiSeq 3000 (Acinetobacter baumannii)

status: Public on Jan 13 2019

organism: Acinetobacter baumannii


title: Illumina HiSeq 2000 (Hyphomonas neptunium)

organism: Hyphomonas neptunium


title: Illumina HiSeq 2500 (Mycobacteroides chelonae)

organism: Mycobacteroides chelonae


title: Illumina MiSeq (Mycobacterium phage ZoeJ)

status: Public on Jan 09 2019

organism: Mycobacterium phage ZoeJ


title: Illumina MiSeq (Vibrio cholerae C6706)


title: Illumina HiSeq 2500 (Vitis riparia)

status: Public on Jan 08 2019

organism: Vitis riparia


title: Illumina HiSeq 2500 (Vitis amurensis)

organism: Vitis amurensis


title: Illumina HiSeq 2500 (Photorhabdus laumondii subsp. laumondii TTO1)


title: Illumina MiSeq (Bigelowiella natans)

organism: Bigelowiella natans


title: Illumina HiSeq 4000 (Populus tomentosa)

organism: Populus tomentosa


title: Illumina HiSeq 4000 (Vitis amurensis)


title: Illumina HiSeq 2500 (Coprinopsis cinerea)

organism: Coprinopsis cinerea


title: Illumina HiSeq 2500 (Bipolaris maydis)

organism: Bipolaris maydis


title: Illumina HiSeq 4000 (Procambarus clarkii)

organism: Procambarus clarkii


title: HiSeq X Ten (Homo sapiens; Human alphaherpesvirus 1)

organism:
Homo sapiens
Human alphaherpesvirus 1


title: Illumina HiSeq 4000 (Macaca mulatta; Macacine gammaherpesvirus 4)

status: Public on Jan 06 2019

organism:
Macaca mulatta
Macacine gammaherpesvirus 4


title: Illumina HiSeq 4000 (Murid herpesvirus 68; Mus musculus)

organism:
Mus musculus
Murid herpesvirus 68


title: Illumina NextSeq 500 (Pan paniscus)

organism: Pan paniscus


title: Illumina HiSeq 4000 (Dendrobium officinale)

status: Public on Jan 07 2019

organism: Dendrobium officinale


title: Illumina MiSeq (Guillardia theta)

organism: Guillardia theta


title: Illumina HiSeq 1000 (Sus scrofa)

status: Public on Jan 03 2019

organism: Sus scrofa


title: Illumina HiSeq 2500 (Enterobacter sp. SA187)

organism: Enterobacter sp. SA187


title: nCounter GX CodeSet (Human Stem Cell)

first: Anand

last: Merchant

address: 41 Center Dr

organism: Homo sapiens


title: Illumina HiSeq 2500 (Fusarium neocosmosporiellum)

status: Public on Jan 02 2019

organism: Fusarium neocosmosporiellum


title: NCI/ATC Mm-MEEBO

status: Public on Jan 01 2019

first: Sangbae

last: Kim

address: 1 Baylor plaza

department: HGSC

institute: Baylor Colleage of Medicine

organism: Mus musculus

technology: spotted DNA/cDNA

distribution: non-commercial

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 mouse long oligonuleotide probe set contains 38,517 optimized 70mers (plus NCI Spotplate #4 controls) obtained from Invitrogen (http://www.invitrogen.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 and post-processed according to the manufacturer's protocol.


title: Illumina HiSeq 2500 (Mycobacteroides abscessus)

organism: Mycobacteroides abscessus


title: nCounter Gene Expression CodeSets (CastroHs_2)


title: Illumina HiSeq 2000 (Acidithiobacillus ferrooxidans ATCC 23270)


title: NanoString nCounter human PanCancer Immune Profiling Panel (Custom Codeset)

city: Pittsburgh

first: Lazar

last: Vujanovic

state: PA

address: L1.33 Hillman Cancer Center, 5117 Centre Ave

department: Medicine

institute: University of Pittsburgh

manufacturer: NanoString Technologies, Inc.; Seattle, WA

manufacture_protocol:
See manufacturer's website http://www.nanostring.com
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4678588/


title: Agilent-078472 Mytilus galloprovincialis [Probe Name version]

city: Leioa

first: Nerea

last: Duroudier

address: Bº Sarriena s/n

country: Spain

institute: University of the Basque Country

organism: Mytilus galloprovincialis


title: Agilent S. pombe 020376 2x105K CGH array custom design

city: New York

first: Kaustav

last: Mukherjee

state: NY

address: 1 Gustave Levy Place

department: Cell, Developmental and Regenerative Biology

institute: Icahn School of Medicine at Mount Sinai

organism: Schizosaccharomyces pombe

manufacture_protocol: see manufacturer's website


title: Qiagen miRCURY LNA Custom Human PCR Panel

city: Burlington

first: Travis

last: Sullivan

address: 41 Mall Rd.

institute: Lahey Hospital & Medical Center

description: PCR assay


title: Agilent-025117 Aplysia Sensory Neuron Gene Expression Analysis

city: Jupiter

first: Sathyanarayanan

middle: V

last: Puthanveettil

state: Florida

address: 130 Scripps Way

department: Neuroscience

institute: Scripps Research

organism: Aplysia californica

description:
Aplysia microarray
Arrays of this design have barcodes that begin with 16025117 or 2525117.
Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.
The ID column represents the Agilent Feature Extraction feature number.
Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).
To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.

first: Kerriann

last: Badal

first: Adrian

last: Reich


title: Illumina HiSeq 4000 (Dictyostelium discoideum)

last: GEO

organism: Dictyostelium discoideum


title: BIOTEC UniShrimp cDNA Chip [UnishrimpV8]

city: Khlong Luang

first: Wananit

last: Wimuttisuk

state: PATHUM THANI

address: 113 Thailand Science Park

country: Thailand

institute: National Center for Genetic Engineering and Biotechnology

organism: Penaeus monodon

description: A cDNA microarray was constructed from the EST libraries of P. monodon, consisting of 6826 features.

manufacture_protocol: Array Design:    Amplification  Approximately 5000 sequences will be amplified either from plasmids of EST clones or from the first strand cDNA template.  For amplification from EST clones, PCR reactions were optimized considering the following parameters: (1) amounts of template, (2) types of Taq DNA polymerase, (3) units of Taq DNA polymerase, and (4) MgCl2 concentrations.   In all experiments, the reactions were performed using purified plasmids as templates in a 96-well format PCR plate (Axygen) with final concentrations of the following components: 0.3 mM dNTPs, 1X buffer, 0.4 M each primer (LM13F: CAC GAC GTT GTA AAA CGA CGG CCA G and LM13R: CAT GGT CAT AGC TGT TTC CTG T, BioBasic).  Amplification was carried out for 35 cycles at the following settings: 940C for 30 sec, 600C for 30 sec, 720C for 3 min.    For amplification from first strand cDNA, PCR reactions were optimized considering the following parameters: (1) amounts of template, (2) MgCl2 concentrations, (3) units of Taq DNA polymerase, and (4) reaction volumes.   In all experiments, the reactions were performed using cDNA as templates in a 96-well format PCR plate (Axygen) with final concentrations of the following components: 0.4 mM dNTPs, 1X buffer, 0.6 uM each gene-specific primer (designed as described below; IDT, Singapore). Amplification was carried out for 38 cycles at the following settings: 940C for 30 sec, 570C for 60 sec, 720C for 3 min.  The resulting amplicons were electrophoretically analyzed on 1.5% agarose gel prepared in 0.5X TBE buffer.  Purification  The PCR products were purified using Multiscreen PCR 96 well purification plate (Millipore, #MSNU03050). Briefly, PCR products were thoroughly loaded to the purification plate and placed under a vacuum manifold.  The bound DNA on the plate will be washed with sterile water once in vacuo until completely dried.  To collect the purified products, sterile water was added to the Millipore plate and let stand for 5-10 min before resuspended into a polysterene V-shape 96-well plate (Corning, CoStar # 3897)   Microarray fabrication    Fifteen plates of 384-well print plates were used as source plates for microarray fabrication. Source plates were resuspended in 7 uL of 3xSSC buffer (Invitrogen, cat no.15557-044) and incubated at 4C overnight before printing. The cDNA microarrays were fabricated using Nanoprint LM210 microarray spotter (ArrayIt, USA) fitted with a 24-pin head on GAPS II amino-silane coated slides (CORNING, cat no.40005). A 11,136 spots/array pattern was designed by 24 X 20 spots per block, containing a total of 24 arrays. Each amplicon was spotted in replicate. The printed slides were UV-crosslinked at 200 mJ of energy (GS Gene Linker UV chamber, BIO-RAD) and stored at room temperature in a dry incubator.


title: miRCURY LNA™ Universal RT microRNA PCR,  Ready-to-Use Human Panels I+II V4

city: Berlin

first: Henrik

last: Seidel

address: Muellerstr. 178

country: Germany

institute: Bayer AG

manufacture_protocol: See Exiqon website http://www.exiqon.com/mirna-pcr


title: Illumina HiSeq 2000 (Aspergillus nidulans)

status: Public on Nov 26 2014

organism: Aspergillus nidulans


title: NimbleGen Mouse lncRNA array [110815_MM9_AR_exp]

status: Public on Apr 11 2013

city: San Francisco

first: Abhinav

last: Nellore

address: 513 Parnassus Avenue

institute: UCSF

description:
lncRNA Array designed based on known and novel lncRNAs assembled from RNA-seq reads from adult neurogenic brain regions

DESIGN_ID = 557241
Design Name: 110815_MM9_AR_exp

For the platform ID column, the identifiers from the 'SEQ_ID' were appended with those in the 'GENE_EXPR_OPTIONPROBE_ID' column to yield unique identifiers, which can be used to map back to the .pair files.

manufacture_protocol: High-density DNA array prepared with Maskless Array Synthesizer (MAS) technology. See manufacturer's website at http://www.nimblegen.com/


title: Agilent  Bovine Gene Expression  8x60k Array AMADID: 029411

status: Public on Dec 30 2017

city: Karnal

first: Syed

middle: Azmal

last: Ali

state: Haryana

address: G.T. Road, ABTC, Proteomics and Cell Biology Lab

department: Animal Biotechnology

country: India

institute: National Dairy Research Institute

organism: Bos taurus


title: [MOE430A] Affymetrix Mouse Expression 430A Array

status: Public on Jun 23 2003

city: Santa Clara

last: Affymetrix

institute: Affymetrix, Inc.

description:
Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html

The GeneChip Mouse Genome 430A 2.0 Array is accessioned in GEO as GPL8321.

June 03, 2009: annotation table updated with netaffx build 28
June 07, 2012: annotation table updated with netaffx build 32
June 24, 2016: annotation table updated with netaffx build 35

relation: Alternative to: GPL8299 (Alternative CDF)

relation: Alternative to: GPL18243 (Alternative CDF [MOE430A_Mm_ENTREZG_14.0.0])

manufacture_protocol:
see manufacturer's web site

The GeneChip Mouse Genome 430A Array is a single array representing approximately 14,000 well-characterized mouse genes that can be used to explore biology and disease processes.

Provides coverage of well-substantiated genes in the transcribed mouse genome on a single array.

Analyzes the expression level of approximately 14,000 well-characterized mouse genes.

Sequences used in the design of the array were selected from GenBank®, dbEST, and RefSeq. The sequence clusters were created from the UniGene database (Build 107, June 2002) and then refined by analysis and comparison with the publicly available draft assembly of the mouse genome from the Whitehead Institute for Genome Research (MGSC, April 2002).


title: NanoString cancer immune panel v1.1 + 6 custom genes

description: nCounter Analysis System

manufacture_protocol: nCounter XT Assay User Manual


title: Illumina Human1Mv1 DNA Analysis BeadChip (Human1Mv1_C)

status: Public on Jun 23 2008

city: San Diego

last: Illumina Inc.

address: 9885 Towne Centre Drive

institute: Illumina Inc.

description: over one million markers to interrogate human genetic variation using single nucleotide polymorphisms (SNPs) and copy number variation (CNV) probes


title: Illumina HiSeq 2000 (Brassica rapa subsp. pekinensis)

status: Public on Oct 17 2013

organism: Brassica rapa subsp. pekinensis


title: Agilent-078640 Human Custom aCGH_14 Settembre 2015 G4126A [ProbeName version, hg19]

status: Public on Dec 30 2018

city: Catania

first: Sebastiano

last: Cavallaro

address: Via Paolo Gaifami, 18

institute: IRIB-CNR

description:
Arrays of this design have barcodes that begin with 16078640 or 2578640
Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.
The ID column represents the Agilent ProbeName.
Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).
To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.

first: Giovanna

last: Morello

first: Antonio

middle: G

last: Spampinato


title: Illumina HiSeq 3000 (Triticum aestivum)

status: Public on Dec 07 2017

organism: Triticum aestivum


title: Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Probe Name version)

status: Public on Feb 11 2008

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

description:
This multi-pack (4X44K) formatted microarray represents a compiled view of the human genome as it is understood today. The sequence information used to design this product was derived from a broad survey of well known sources such as RefSeq, Goldenpath, Ensembl, Unigene and others. The resulting view of the human genome covers 41K unique genes and transcripts which have been verified and optimized by alignment to the human genome assembly and by Agilent's Empirical Validation process.

*** The ID column includes the Agilent Probe Names. A different version of this platform with the Agilent Feature Extraction feature numbers in the ID column is assigned accession number GPL4133

relation:
Alternative to: GPL4133
Alternative to: GPL9822
Alternative to: GPL16022
Alternative to: GPL16297


title: Illumina HumanWG-6_V2_0_R2

status: Public on Sep 27 2008

city: Bethesda

first: GEO

last: admin

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

description: Whole genome,  48,000 probes, 6 simultaneous samples, version 2 R2, slight differences compared to V2 R1

first: David

middle: S

last: Loose

manufacture_protocol: Randomly assembled, bead-based microarray


title: [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [probe set (exon) version]

status: Public on Jul 28 2010

description:
Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html

#%create_date=Thu Jan 21 16:38:27 2010 PST
#%chip_type=HuGene-1_0-st-v1
#%lib_set_name=HuGene-1_0-st
#%lib_set_version=v1
#%genome-species=Homo sapiens
#%genome-version=hg19
#%genome-version-ucsc=hg19
#%genome-version-ncbi=GRCh37
#%genome-version-create_date=2009-02-00
#%netaffx-annotation-date=2009-11-23
#%netaffx-annotation-netaffx-build=30.1


title: HiSeq X Ten (Arabidopsis thaliana)

status: Public on Mar 07 2017

organism: Arabidopsis thaliana


title: Agilent-037237 P.falciparum_Pf3D7v7.1_Transcriptome_apimito

status: Public on Jan 16 2012

first: Bjorn

middle: FC

last: Kafsack

address: 1300 York Avenue

department: Microbiology & Immunology

institute: Weill Cornell Medicine

organism: Plasmodium falciparum

description:
DesignID: 037237

Arrays of this design have barcodes that begin with 16037237 or 2537237.

Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.

The ID column represents the Agilent Feature Extraction feature number.

Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).

To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.

manufacture_protocol: see manufacturer's web site at http://www.agilent.com/


title: 3D-Gene Human miRNA V21_1.0.0

status: Public on Dec 19 2015

city: Kamakura

first: Satoshi

last: Kondo

state: Kanagawa

address: Tebiro 6-10-1

department: New Projects Development Division

institute: Toray Industries,Inc.

manufacture_protocol: See manufacture's web site


title: Illumina MouseWG-6 v2.0 expression beadchip

status: Public on May 21 2008

description:
The MouseWG-6 v2.0 Expression BeadChip offer the most up-to-date content for whole-genome expression profiling in the mouse. Featuring content derived from the National Center for Biotechnology Information Reference Sequence (NCBI RefSeq) database (Build 36, Release 22).

Please use the GEO Data Submission Report Plug-in v1.0 for Gene Expression which may be downloaded from https://icom.illumina.com/icom/software.ilmn?id=234 to format the normalized and raw data.  These should be submitted as part of a GEOarchive.  Instructions for assembling a GEOarchive may be found at http://www.ncbi.nlm.nih.gov/projects/geo/info/spreadsheet.html

August 31, 2012: annotation table updated with MouseWG-6_V2_0_R3_11278593_A.txt

relation: Alternative to: GPL9526 (Alternative CDF)

relation: Alternative to: GPL18752 (gene symbol version)

relation: Alternative to: GPL19625 (MouseWG-6_V2_0_R1_11278593_A version)

relation: Alternative to: GPL19738 (MouseWG-6_V2_0_R1_11278593_A; Gene Symbol version)

relation: Alternative to: GPL21278 (Probe ID version)


title: Illumina MiSeq (Homo sapiens)

status: Public on May 02 2012


title: NextSeq 550 (Mus musculus)

status: Public on Mar 22 2016


title: Illumina MiniSeq (Homo sapiens)

status: Public on Dec 13 2016


title: Illumina HiSeq 2500 (Escherichia coli)

status: Public on Jan 02 2014

organism: Escherichia coli


title: Illumina HiSeq 2500 (Caenorhabditis elegans)

status: Public on Feb 03 2014

organism: Caenorhabditis elegans


title: Illumina NextSeq 500 (Rattus norvegicus)

status: Public on Apr 21 2015

organism: Rattus norvegicus


title: Infinium MethylationEPIC

status: Public on Nov 16 2015

organism: Homo sapiens


title: [Clariom_S_Human_HT] Affymetrix Clariom S Assay HT, Human (Includes Pico Assay)

status: Public on May 08 2018

description:
This platform supports submissions for:
Clariom S Assay HT:
https://www.thermofisher.com/order/catalog/product/902969
Clariom S Pico Assay HT:
https://www.thermofisher.com/order/catalog/product/902964

Annotations:
#%lib_set_version=r1
#%genome-species=Homo sapiens
#%genome-version=hg38
#%genome-version-ucsc=hg38
#%genome-version-ncbi=GRCh38
#%genome-version-create_date=2013-12-00
#%genome-lifted-method=psl-map.pl
#%genome-lifted_from-species=Homo sapiens
#%genome-lifted_from-version-ucsc=hg38
#%genome-lifted_from-version-ncbi=GRCh38
#%netaffx-annotation-date=2016-06-03
#%netaffx-annotation-netaffx-build=36

relation: Alternative to: GPL25336 (alternative CDF [clariomshumanhthsentrezgprobe_22.0.0])

manufacture_protocol: See manufacturers website


title: Illumina HiSeq 2000 (Danio rerio)

status: Public on Nov 11 2011

organism: Danio rerio


title: Illumina HiSeq 2500 (Arabidopsis thaliana)

status: Public on Aug 27 2013


title: BGISEQ-500 (Homo sapiens)

status: Public on Mar 24 2017


title: Illumina NovaSeq 6000 (Bos taurus)

status: Public on Jan 08 2019


title: Illumina HiSeq 2000 (Drosophila melanogaster)

status: Public on Mar 21 2011

organism: Drosophila melanogaster


title: Illumina MiSeq (Mus musculus)

status: Public on Dec 20 2012

organism: Mus musculus