title: Helianthus tuberosus oligo array v1.0

status: Public on Jan 13 2020

city: Verona

first: Alberto

last: Ferrarini

state: Veneto

address: Strada le Grazie, 15

department: Scientific and Technological Department

country: Italy

institute: University of Verona

organism: Helianthus tuberosus

technology: in situ oligonucleotide

distribution: non-commercial

manufacturer: University of Verona - Biotechnology Department - Functional Genomics Centre

manufacture_protocol: Probes are directly synthesized on a 12k CombiMatrix array by an in situ oligo synthesis system developed by CombiMatrix Corporation (Mukilteo, USA) using the CombiMatrix CustomArray synthesizer. The standard synthesis protocol provided by CombiMatrix was used.


title: Agilent-074191 Zebrafish Gene Expression Microarray 8X60K (Probe Name version)

status: Public on Mar 05 2020

city: Delhi

first: Vivek

middle: T

last: Natarajan

state: Delhi

address: Mathura Road

country: India

institute: CSIR-IGIB

organism: Danio rerio

description: Agilent_zebrafish_GXP_8X60K array

distribution: custom-commercial

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


title: Agilent-048669 CM_nuc_org

status: Public on Nov 26 2019

city: Mishima

first: Takayuki

last: Fujiwara

state: Shizuoka

address: Yata 1111

country: Japan

institute: National institute of genetics

organism: Cyanidioschyzon merolae

description:
Arrays of this design have barcodes that begin with 16048669 or 2548669.

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.


title: Agilent-066939 Candida albicans microarray (CA5314L)

status: Public on Nov 03 2019

city: Debrecen

first: Krisztina

last: Szabó

address: Egyetem tér

department: Medical Chemistry

country: Hungary

institute: University of Debrecen

organism: Candida albicans


title: Illumina MiSeq (Rosa hybrid cultivar)

status: Public on Jun 30 2019

last: GEO

country: USA

organism: Rosa hybrid cultivar

technology: high-throughput sequencing

distribution: virtual


title: Invitrogen Human ProtoArray

status: Public on Jul 24 2019

city: Boston

first: Suzanne

last: Walker

state: MA

address: 4 Blackfan Circle

department: Microbiology and Immunobiology

institute: Harvard Medical School

organism: Homo sapiens

technology: spotted peptide or protein

manufacture_protocol: Human proteins produced in insect cells are spotted in duplicate on a nitrocellulose glass slides in a 4x12 grid of subblocks, each of which includes several controls and test proteins in a 22x22 spot grid


title: nCounter mouse miRNA code set (version 1.3, based on miRBase v15)

city: San Francisco

first: Anders

middle: I

last: Persson

state: CA

address: 675 Nelson Rising Lane

department: Neurology

institute: University of California San Francisco

organism: Mus musculus

technology: other

description: nCounter nanostring miRNA profiling assay (version 1.3)


title: Illumina NextSeq 500 (Canis lupus familiaris; Homo sapiens; Mus musculus)

status: Public on Jun 29 2019

organism:
Homo sapiens
Canis lupus familiaris
Mus musculus


title: nCounter Custom CodeSet

status: Public on Oct 10 2019

city: Auckland

first: Tina

last: Nie

address: 3 Symonds St

department: School of Biological Sciences

country: New Zealand

institute: The University of Auckland

manufacture_protocol: A hybridisation master mix was made by adding 70 µL of hybridisation buffer to the Reporter CodeSet provided. 8 µL of this was added to a strip tube. To each tube, 5 µL of RNA sample was added. Note the manufacturer’s protocol calls for 100 ng of total RNA. We added 5 µL of our sample without dilution (giving a greater chance of counting low expression genes). Variable amounts of RNA were normalised to the chosen reference genes. 2 µL of the Capture Probeset was pipetted into each tube. The tubes were spun down briefly before being placed in thermocycler set at 65° C. Samples were left to incubate for 17 hours. The reaction was stopped by cooling samples to 4° C. Samples were added to a slide and run on the GEN2 Prep Station. The high sensitivity setting was used in our experiment. Slides were imaged on the Digital Analyser using 280 field-of-view counts.


title: LC Sciences Sus scrofa miRNA array MRA-1013_miRPig_21

city: Hermosillo

first: Marina

last: Arenas-Padilla

state: Sonora

address: Carretera Gustavo Enrique Astiazarán Rosas 46

country: Mexico

institute: Centro de Investigación en Alimentación y Desarrollo A. C.

organism: Sus scrofa

distribution: commercial

manufacture_protocol: Arrays are made based µParaflo microfluidic technology (Atactic Technologies). On the µParaflo microfluidic chip, each detection probe consists of a chemically modified nucleotide coding segment complementary to target microRNA (from miRBase, http://miRBase.org) or other RNA (control or customer defined sequences) and a spacer segment of polyethylene glycol to extend the coding segment away from the substrate. The detection probes are made by in situ synthesis using PGR (photogenerated reagent) chemistry.


title: IRHS_Abra_v1

city: BEAUCOUZE

first: Sandra

last: Pelletier

address: 42, rue Georges Morel - BP 60057

country: France

institute: INRA

organism: Alternaria brassicicola

description: The probe design and production of the high-density A. brassicicola Nimblegen microarrays was performed on a dataset of the 10 633 ORFs predicted in the A. brassicicola automatically annotated genome database (JGI Genome Portal, https://genome.jgi.doe.gov/Altbr1/Altbr1.home.html).  Ten probe for each ORFs was designed.

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


title: Illumina HiSeq 4000 (Canis lupus familiaris; Homo sapiens; Mus musculus)


title: Illumina HiSeq 2000 (Canis lupus familiaris; Homo sapiens; Mus musculus)


title: Illumina HiSeq 2000 (Paeonia lutea x Paeonia suffruticosa)

status: Public on Jun 28 2019

organism: Paeonia lutea x Paeonia suffruticosa


title: BGISEQ-500 (Pseudomonas aeruginosa)

status: Public on Jun 27 2019

organism: Pseudomonas aeruginosa


title: Illumina NextSeq 500 (Acutodesmus deserticola)

status: Public on Jun 26 2019

organism: Tetradesmus deserticola


title: ImmunoGC, custom Nanostring probe panel

city: Rockville

first: Jeffrey

last: Robinson

state: United States

address: 9630 Gudelsky Dr

department: Translational Life Sciences Technology

institute: UMBC

manufacture_protocol: see manufacturer's website


title: Illumina NextSeq 500 (Flechtneria rotunda)

organism: Flechtneria rotunda


title: Illumina HiSeq 4000 (Caulobacter vibrioides NA1000)

organism: Caulobacter vibrioides NA1000


title: MinION (Bacillus subtilis)

organism: Bacillus subtilis


title: MinION (Tetrahymena thermophila)

organism: Tetrahymena thermophila


title: Illumina NovaSeq 6000 (Canis lupus familiaris; Homo sapiens; Mus musculus)


title: Illumina NextSeq 500 (Enallax costatus)

organism: Enallax costatus


title: HiSeq X Ten (Anser cygnoides domesticus)

organism: Anser cygnoides


title: QIAGEN PAMM030 RT2 Profiler PCR Arrays

city: Bethesda

first: GEO

last: admin

state: MD

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

technology: RT-PCR

description: QIAGEN PAMM030 RT2 Profiler PCR Arrays


title: HiSeq X Ten (Sporothrix schenckii)

organism: Sporothrix schenckii


title: Illumina HiSeq 3000 (Canis lupus familiaris; Homo sapiens; Mus musculus)


title: Illumina NovaSeq 6000 (Escherichia coli K-12)

organism: Escherichia coli K-12


title: NanoString nCounter isoform expression cancer cell line

status: Public on Jun 25 2019

city: Orlando

first: WEI

last: ZHANG

state: FL

address: 4000 central florida blvd

department: Computer Science

institute: UNIVERSITY OF CENTRAL FLORIDA


title: Illumina Genome Analyzer (Escherichia coli O157:H7)

status: Public on Jun 24 2019

organism: Escherichia coli O157:H7


title: Raybio Human Cytokine Antibody Array Q-Series 640 (QAH-CAA-640)

city: Guangzhou

first: Huihua

last: Zhang

address: 601, west Huangpu avenue, Tianhe district

department: Biomedicine Institute & Cell Biology Department

country: China

institute: Jinan University

organism: Homo sapiens

technology: antibody


title: Illumina HiSeq 4000 (Wickerhamomyces anomalus)

organism: Wickerhamomyces anomalus


title: Agilent-035430 Mouse miRNA Array [miRBase release 18, miRNA ID version]

organism: Mus musculus

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


title: Illumina HiSeq 2500 (Pinus elliottii)

status: Public on Jun 21 2019

organism: Pinus elliottii


title: HuProt™ v3.0

manufacture_protocol: A human proteome microarray (HuProtTM v3.0 , CDI Labs, Mayaguez, PR) that contains over 19,000 recombinant human full-length proteins in duplicates was used to profile serum autoantibodies .


title: Illumina HiSeq 2500 (Halicephalobus mephisto)

organism: Halicephalobus mephisto


title: Illumina HiSeq 2500 (Sesamum indicum)

status: Public on Jun 23 2019

organism: Sesamum indicum


title: Nimblegene Homo sapiens Expression Array [2006-08-03_HG18_60mer_expr]

status: Public on Jun 19 2019

city: Tallahassee

first: David

middle: M

last: Gilbert

address: 319 Stadium Drive

department: Biology

institute: Florida State University

manufacture_protocol: Nimblegen


title: Agilent-071303 Candida albicans array

status: Public on Jun 20 2019

city: Hsinchu

first: Hsueh-Fen

last: Chen

address: No. 101, Section 2, Kuang-Fu Road

country: Taiwan

institute: National Tsing Hua University

organism: Candida albicans


title: Illumina NovaSeq 6000 (Acropora tenuis; Cladocopium goreaui)

organism:
Acropora tenuis
Cladocopium goreaui


title: Illumina HiSeq 2000 (Cyclocarya paliurus)

organism: Cyclocarya paliurus


title: NimbleGen 12 x 135K array for Medicago truncatula A17 [111121_Mtrunc_MG_expr]

city: Coventry

first: Miriam

last: Gifford

address: Gibbet Hill Road

department: School of Life Sciences

country: United Kingdom

institute: University of Warwick

organism: Medicago truncatula

description: The array was designed (OID36783) and manufactured according to NimbleGen protocols

manufacture_protocol: NimbleGen


title: HiSeq X Ten (Serratia marcescens)

organism: Serratia marcescens


title: GeoChip 5.0

status: Public on Jun 18 2019

city: Beijing

first: Qun

last: Gao

state: Beijing

address: Shuang Qing Road

department: Environmental sicence and engineering

institute: Tsinghua University

organism:
Bacteria
Archaea
Eukaryota


title: Illumina HiSeq 2500 (Cryptococcus neoformans var. neoformans)

organism: Cryptococcus deneoformans


title: Illumina HiSeq 2500 (Saccharomyces cerevisiae x Saccharomyces eubayanus)


title: Illumina HiSeq 3000 (Prunus mume)

organism: Prunus mume


title: Illumina HiSeq 1000 (Shewanella oneidensis)

organism: Shewanella oneidensis


title: NanoString nCounter® Mouse Inflammation v2 Panel

city: Charlestown

first: Michael

last: Whalen

address: 149 13th Street Room 6303

department: Department of Pediatrics

institute: Massachusetts General Hospital


title: Illumina HiSeq 2000 (Anser cygnoides)

organism: Anser cygnoides


title: Illumina HiSeq 2000 (Elizabethkingia anophelis)

organism: Elizabethkingia anophelis


title: Illumina Genome Analyzer IIx (Brugia malayi; Wolbachia endosymbiont strain TRS of Brugia malayi)

status: Public on Jun 17 2019

organism:
Brugia malayi
Wolbachia endosymbiont strain TRS of Brugia malayi


title: Illumina NextSeq 500 (Auriculariopsis ampla)

organism: Schizophyllum amplum


title: Illumina HiSeq 2000 (Erigeron annuus)

status: Public on Jun 14 2019

organism: Erigeron annuus


title: Illumina HiSeq 2000 (Solidago canadensis)

organism: Solidago canadensis


title: Illumina HiSeq 2000 (Erigeron canadensis)

organism: Erigeron canadensis


title: Illumina HiSeq 2000 (Medicago sativa; Solanum tuberosum; Zea mays)

organism:
Medicago sativa
Solanum tuberosum
Zea mays


title: HiSeq X Ten (Plasmodium falciparum)

organism: Plasmodium falciparum


title: [HuGene-2_0-st] Affymetrix Human Gene 2.0 ST Array [Gene2.0st.lncrna.ENSG.v21.cdf]

city: MILAN

first: Luca

last: Agnelli

address: Venezian 1

department: Department of Advanced Diagnostics

institute: IRCCS Istituto Nazionale dei Tumori

organism: Homo sapiens

description:
The linked tar.gz archive is the library installation package for running analysis in R software
The linked cdf file contains 35458 entries [coding genes + non-coding lncRNA]


title: Nanostring nCounter Vantage RNA WNT Pathways Panel (LBL-10251-03)

status: Public on Jun 15 2019

city: Birmingham

middle: Edward

last: Seifert

state: AL

address: 1600 7th Ave S Lowder 516

institute: UAB School of Medicine

manufacture_protocol: See manufacturer's website (http://www.nanostring.com)


title: Illumina NextSeq 500 (Aspergillus kawachii)

last: GEO

organism: Aspergillus luchuensis


title: Illumina HiSeq 4000 (Panicum virgatum)

organism: Panicum virgatum


title: Illumina NovaSeq 6000 (Homo sapiens; Human immunodeficiency virus 1)

organism:
Homo sapiens
Human immunodeficiency virus 1


title: Illumina NextSeq 500 (Aedes aegypti; Crithidia fasciculata)

status: Public on Jun 12 2019

organism:
Crithidia fasciculata
Aedes aegypti


title: Illumina HiSeq 4000 (Heterocephalus glaber)

status: Public on Jun 13 2019

organism: Heterocephalus glaber


title: Agilent-070158_IRHS_AryANE-Venise

organism: Malus domestica

description: The malus transcriptome is the same of the platform GPL26715


title: Agilent-078635_IRHS_Pyrus

organism: Pyrus communis

description:
https://www.rosaceae.org/species/pyrus/pyrus_communis/genome_v1.0
The identifiers REFSEQ1 (e.g. PCP022954) represent the gene id (REFSEQ2 is the same without extension).
The identifiers SPOT_ID (e.g. Pyrus_v1_00000001) is the id of the probe.


title: Illumina NextSeq 500 (Crithidia fasciculata)

organism: Crithidia fasciculata


title: Nanostring Mouse RWTH Aachen University

city: Aachen

first: Oliver

last: Pabst

address: Pauwelsstrasse 30

department: Institute of Molecular Medicine

country: Germany

institute: RWTH Aachen University

organism: Mus musculus


title: Ding Human fat adventitia subset microarray v1.0

status: Public on Jun 11 2019

city: Nanjing City

first: Lijun

last: Ding

address: 321#，Zhongshan Road

department: Department of Obstetrics and Gynecology

institute: the Affiliated Drum Tower Hospital of Nanjing University Medical School

technology: spotted DNA/cDNA

manufacturer: OneArray Plus, Phalanx Biotech Group, Taiwan, China


title: Illumina HiSeq 2500 (Dictyostelium discoideum AX4)

status: Public on Jun 10 2019

organism: Dictyostelium discoideum AX4


title: Illumina HiSeq 4000 (Plasmodium chabaudi chabaudi)

organism: Plasmodium chabaudi chabaudi


title: Sebelius2 custom Nanostring probe panel

description: RLF ID = Sebelius_2_C4636


title: Illumina HiSeq 2500 (Methylacidiphilum sp. RTK17.1)

organism: Candidatus Methylacidiphilum infernorum


title: Illumina HiSeq 4000 (Bos grunniens x Bos taurus)

organism: Bos grunniens x Bos taurus


title: Sequel (Macaca mulatta)

status: Public on Jun 09 2019

organism: Macaca mulatta


title: Illumina HiSeq 2500 (Pelophylax nigromaculatus)

status: Public on Jun 06 2019

organism: Pelophylax nigromaculatus


title: Cotton drought-specfic oligo array

city: Lahore

first: Muhammad

middle: Bilal

last: Sarwar

state: Punjab

address: 87-west canal bank road, Thokar Niaz baig

country: Pakistan

institute: University of the Punjab

organism: Gossypium

technology: spotted oligonucleotide

description: In total 6864 spots were printed on glass slides, within 48 subarrays. There were two blank spot on each sub array.

manufacturer: Plant Genomics Lab, National Center of Excellence in Molecular Biology (CEMB) Lahore Pakistan.

manufacture_protocol: Picky 2.20 software was used to design the 70 mer oligonucleotide sequence, commercially synthesized from invitrogen on 200mM scale with pagepurified grade. Array printing was done by using array printer of MICROGRID II (Genomics Solition). Arrayit Superamine coated glass slides was used for array printing.


title: Illumina NovaSeq 6000 (Plasmodium falciparum)

organism: Plasmodium falciparum


title: HiSeq X Ten (Brassica oleracea)

status: Public on Jun 05 2019

organism: Brassica oleracea


title: Illumina HiSeq 2000 (Rhodospirillum centenum)

organism: Rhodospirillum centenum


title: HiSeq X Ten (Brassica rapa)

organism: Brassica rapa


title: Illumina MiSeq (Toxoplasma gondii)

organism: Toxoplasma gondii


title: Illumina NextSeq 500 (Streptomyces coelicolor A3(2))

organism: Streptomyces coelicolor A3(2)


title: Custom made TaqMan® Array Cards [catlog: 4331182]

status: Public on Jun 07 2019

city: Rotterdam

first: Hemmo

middle: A

last: Drexhage

state: Zuid-Holland

address: Dr Molewaterplein 40

department: Immunology

country: Netherlands

institute: ErasmusMC

organism: Homo sapiens

description: TaqMan Gene expression Assays


title: Illumina HiSeq 2000 (Homo sapiens; Human alphaherpesvirus 1)

status: Public on Jun 04 2019

organism:
Homo sapiens
Human alphaherpesvirus 1


title: Illumina HiSeq 1500 (Streptococcus pneumoniae D39)

organism: Streptococcus pneumoniae D39


title: Agilent Porphyromonas gingivalis Oligo Microarrays 8x15K (074976)

city: Madrid

first: Patricia

last: Romero Lastra

address: Plaza de Ramon y Cajal s/n

country: Spain

institute: Universidad Complutense de Madrid

organism: Porphyromonas gingivalis


title: Illumina HiSeq 2000 (Scutellaria baicalensis)

status: Public on Jun 01 2019

organism: Scutellaria baicalensis


title: NimbleGen GeoChip v.4.2 [110613_GeoChip_JV_Exp_new]

status: Public on Jun 03 2019

city: Norman

first: Jizhong

last: Zhou

state: OK

address: 101 David L Boren Blvd

department: Department of Microbiology and Plant Biology

institute: University of Oklahoma

organism:
Bacteria
Archaea
Eukaryota
Viruses

description:
Annotation based on DNA sequences in NCBI, see details in the design table  The sequences and probe information on the design file (.ndf) is patent protected and thus, is removed from this submission

designname=110613_GeoChip_JV_Exp_new
designid=554431

native array description file:
GeoChip4.2_110613_GeoChip_JV_Exp_new_noseq.ndf
GeoChip4.2_columns.txt

manufacture_protocol: see manufacturer's web site www.nimblegen.com


title: [PorGene-1_0-st] Porcine Gene 1.0 ST Array [porgene10st_Ss_ENTREZG_17.0.0]

status: Public on Oct 07 2016

city: Boston

first: Boston University

last: Microarray and Sequencing Resource

address: 72 East Concord Street, E631

department: Microarray and Sequencing Resource

institute: Boston University

organism: Sus scrofa

manufacture_protocol: See manufacturer's web site


title: Illumina NovaSeq 6000 (Beauveria bassiana ARSEF 2860)

organism: Beauveria bassiana ARSEF 2860


title: [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array [Ensembl version 81]

city: Los Angeles

first: Gerald

last: Lipshutz

address: 650 CE Young Drive, Box 957054, UCLA School of Medicine

department: Surgery

institute: UCLA

organism: Mus musculus

description:
This is identical to GPL1261 but a custom CDF environment was used to extract data.
Affymetrix probes were summarized and re-annotated with Ensembl gene names from the Ensembl July 2015 archive (Ensembl version 81).

relation: Alternative to: GPL1261 (alternative CDF [official])

manufacture_protocol: See manufacturer's website.


title: Illumina HiSeq 4000 (Bos grunniens)

organism: Bos grunniens


title: Illumina HiSeq 2000 (Cyanobacterium)

organism: Cyanobacterium


title: Illumina HiSeq 2500 (Capsicum annuum)

organism: Capsicum annuum


title: Illumina HiSeq 4000 (Canis lupus)

status: Public on Jun 02 2019

organism: Canis lupus


title: BGISEQ-500 (Medicago truncatula)

organism: Medicago truncatula


title: Illumina NovaSeq 6000 (Oryctolagus cuniculus)

organism: Oryctolagus cuniculus


title: Illumina NovaSeq 6000 (Equus caballus)

organism: Equus caballus


title: Illumina Human PsychArray-24 v1.3

city: Bethesda

first: GEO

last: admin

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

technology: oligonucleotide beads


title: Illumina Human Exome Fine BeadChip (Exome_Fine_30K_ExomePlus_15031625_B)

status: Public on May 22 2019

description: Descriptor File Name: Exome_Fine_30K_ExomePlus_15031625_B.csv


title: Illumina NovaSeq 6000 (Toxoplasma gondii)

organism: Toxoplasma gondii


title: Illumina NovaSeq 6000 (Gallus gallus)

status: Public on Jun 27 2019

organism: Gallus gallus