title: Illumina NovaSeq 6000 (Enterobacter cloacae subsp. cloacae ATCC 13047)

status: Public on Jun 29 2023

last: GEO

country: USA

technology: high-throughput sequencing

distribution: virtual


title: Illumina HiSeq 2500 (Cronobacter turicensis)

status: Public on Jun 30 2023

organism: Cronobacter turicensis


title: CAT-30K Schizosaccharomyces-probes-str-ASM294v2

city: Puebla

first: Irma

last: Herrera-Camacho

state: Puebla

address: Av. San Claudio y 22 sur, Jardines de San Manuel

department: Instituto de Ciencias

country: Mexico

institute: Benemérita Universidad Autónoma de Puebla

organism: Schizosaccharomyces pombe

technology: spotted DNA/cDNA

distribution: custom-commercial

manufacturer: MYcroarray Biodiscovery Llc. now Daicel Arbor Biosciences, Ann Arbor, MI (USA).

manufacture_protocol: Probes specific to 5131 genes from Schizosaccharomyces pombe  were designed by MYcroarray, Ann Arbor, MI (now Daicel Arbor Biosciences, Ann Arbor, MI) using a proprietary version of the publicly available software OligoArray2.1. One specific probe was designed for each gene, 4345 probes were six technical replicates of each unique probe sequence and some probes had 5 technical replicates were included on each array.  45-mer oligonucleotide probes were synthesized in situ, not spotted, on standard size (25mm x 76mm) glass slides using RotoSynth Software Version 1.0. All probes were synthesized on amine-functionalized glass substrates such that the 3' end was covalently coupled to a spacer moiety, which was covalently linked to an amine. The 5’ end of the probe sequence was pushed away from the glass by synthesizing a lawn of poly-deoxythymidine spacers. Two identical 30K arrays were synthesized on each slide so that different samples could be applied independently to each array with the use of gasket slides during hybridization to segregate the replicate arrays. Arrays also included control probes for flour-labelled spike-in control oligos for assessing hybridization and washing stringency. https://arborbiosci.com/


title: Illumina NovaSeq 6000 (Mizuhopecten yessoensis)

organism: Mizuhopecten yessoensis


title: μParaflo human and HCMV MicroRNA Microarray Assay

city: OSLO

first: Xuan

last: Jiang

department: Department of Medical Genetics

country: Norway

institute: University of Oslo

organism:
Homo sapiens
Human betaherpesvirus 5

technology: in situ oligonucleotide

manufacture_protocol: Standard protocol


title: Illumina NovaSeq 6000 (Lissachatina fulica)

organism: Lissachatina fulica


title: Arraystar Mouse circRNA Array

status: Public on Jun 28 2023

city: chengdu

first: shuaijie

last: qian

state: sichuan

address: NO. 1, 4th Keyuan Road, Chengdu,

country: China

institute: West China Hospital, Sichuan University

organism: Mus musculus

manufacture_protocol: A total of 896 spot data on the Arraystar Mouse circRNA Array.


title: nCounter Nanostring mouse miRNA (NS_M_MIR_V1.5)

status: Public on Jul 24 2023

city: GAINESVILLE

first: LAKSHMYYA

last: KESAVALU

state: FLORIDA

address: 1600 SW ARCHER ROAD Rm D10-23

department: PERIODONTOLOGY/DENTISTRY

institute: UNIVERSITY OF FLORIDA

technology: other

description: miRNA expression array

distribution: commercial


title: NextSeq 550 (Aeromonas sp. ZOR0001)

organism: Aeromonas sp. ZOR0001


title: Illumina NextSeq 500 (Homo sapiens; Staphylococcus aureus)

status: Public on Jun 27 2023

organism:
Staphylococcus aureus
Homo sapiens


title: Illumina MiSeq (Listeria monocytogenes)

organism: Listeria monocytogenes


title: Illumina NovaSeq 6000 (Epinephelus fuscoguttatus x Epinephelus lanceolatus)

status: Public on Jun 26 2023


title: Illumina NovaSeq 6000 (Piscirickettsia salmonis)

organism: Piscirickettsia salmonis


title: Illumina HiSeq 2500 (gut metagenome)

organism: gut metagenome


title: NextSeq 550 (Fusarium proliferatum)

organism: Fusarium proliferatum


title: NextSeq 2000 (Achromobacter xylosoxidans)

status: Public on Jun 23 2023

organism: Achromobacter xylosoxidans


title: Illumina HiSeq 2500 (Spirodela polyrhiza)

organism: Spirodela polyrhiza


title: Illumina NovaSeq 6000 (Acinetobacter calcoaceticus)

organism: Acinetobacter calcoaceticus


title: Agilent-085591 Human 180K CGH+SNP

status: Public on Jun 22 2023

city: Bordeaux

first: Julian

last: Boutin

state: Nouvelle Aquitaine

address: 146 rue Leo Saignat

country: France

institute: INSERM U1312 BRIC

organism: Homo sapiens

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


title: NextSeq 2000 (Bacteroides thetaiotaomicron)

organism: Bacteroides thetaiotaomicron


title: Illumina NovaSeq 6000 (Eucalyptus grandis)

organism: Eucalyptus grandis


title: Illumina NovaSeq 6000 (Pisolithus microcarpus)

organism: Pisolithus microcarpus


title: Illumina NovaSeq 6000 (Eucalyptus grandis; Pisolithus microcarpus)

organism:
Eucalyptus grandis
Pisolithus microcarpus


title: Illumina NovaSeq 6000 (Armillaria ostoyae)

status: Public on Jun 21 2023

organism: Armillaria ostoyae


title: Illumina NovaSeq 6000 (Armillaria borealis)

organism: Armillaria borealis


title: Illumina HiSeq 2500 (Leptinotarsa decemlineata)

organism: Leptinotarsa decemlineata


title: Sequel II (Mesocricetus auratus)

status: Public on Jun 20 2023

organism: Mesocricetus auratus


title: Illumina HiSeq 4000 (Musculus)

organism: Musculus


title: Illumina HiSeq 2500 (Polypterus senegalus)

organism: Polypterus senegalus


title: Illumina HiSeq 2500 (Acipenser ruthenus)

organism: Acipenser ruthenus


title: DNBSEQ-G400 (Plasmodium berghei ANKA)

organism: Plasmodium berghei ANKA


title: Illumina NovaSeq 6000 (Tribolium castaneum)

organism: Tribolium castaneum


title: Nanostring nCounter human Custom Panel for Gene Fusions in NSCLC

city: Barcelona

first: Miguel

middle: A

last: Molina-Vila

state: Barcelona

address: Sabino de Arana 16, -1.7

country: Spain

institute: Hospital Universitario Dexeus

manufacture_protocol: See manufacturer's website.


title: MGISEQ-2000RS (Trichoderma atroviride)

organism: Trichoderma atroviride


title: Illumina NovaSeq 6000 (Salmonella enterica subsp. enterica serovar Enteritidis)


title: HiSeq X Ten (Zingiber officinale)

status: Public on Jun 16 2023

organism: Zingiber officinale


title: nCounter Nanostring mouse miRNA (NS_M_MIR_V1.5)

city: Houston

first: Raisa

last: Reyes-Castro

state: Texas

address: 6767 Bertner Ave

department: Genetics

institute: UT Health MD Anderson Cancer Center

organism: Mus musculus

description: miRNA expression array


title: Illumina HiSeq 4000 (Clostridioides difficile)

status: Public on Jun 14 2023

organism: Clostridioides difficile


title: [HG-U219] Affymetrix Human Genome U219 Array [CDF: Brainarray HGU219_Hs_ENTREZG_21.0.0]

city: Bethesda

first: GEO

last: admin

state: MD

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

organism: Homo sapiens

description:
This identical to GPL13667 but a custom cdf environment was used to extract data.
http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/21.0.0/entrezg.asp

manufacture_protocol: see manufacturer's website


title: ORB MiRBase 16 Multispecies MicroRNA Microarray

city: Los Angeles

first: Mansoureh

last: Eghbali

state: CA

address: 10833 Le Conte Ave

institute: UCLA David Geffen School of Medicine

organism:
Macaca mulatta
Homo sapiens
Mus musculus
Rattus norvegicus

technology: spotted oligonucleotide

manufacture_protocol: Proprietary spotting of DNA oligonucleotides containing dimer or trimer repeat of reverse complement of target sequence


title: HiSeq X Ten (Sesuvium portulacastrum)

organism: Sesuvium portulacastrum


title: Nanostring nCounter

city: San Francisco

first: William

last: Chen

address: 1450 3rd Street, HD 402

institute: UCSF

manufacture_protocol: NanoString nCounter


title: Illumina HiSeq 4000 (Astyanax mexicanus)

organism: Astyanax mexicanus


title: Olink Inflammation panel (92 analytes)

status: Public on Jun 18 2023

city: Liverpool

first: John

last: Frew

address: Elizabeth St

department: Dermatology

country: Australia

institute: Liverpool Hospital

description: Olink Target 96 Inflammation(v.3024)


title: Illumina NextSeq 500 (Brucella abortus 2308)

organism: Brucella abortus 2308


title: Sequel (rat gut metagenome)

organism: rat gut metagenome


title: Illumina NextSeq 500 (Musculus)


title: Illumina NovaSeq 6000 (Sphingobacterium)

organism: Sphingobacterium


title: Illumina HiSeq 2500 (Pyrus communis)

status: Public on Jun 13 2023

organism: Pyrus communis


title: NextSeq 2000 (Nakaseomyces glabratus)

status: Public on Jun 12 2023

organism: Nakaseomyces glabratus


title: Thermo Fisher Scientific Human miRNA RT-PCR

status: Public on Jun 10 2023

city: Boston

first: Ionita

middle: Calin

last: Ghiran

state: MA

address: 3 Blackfan Circle

department: Medicine

institute: Beth Israel Deaconess Medical Center

technology: RT-PCR


title: Illumina NextSeq 500 (Hoilungia sp. H23; Trichoplax sp. H2)

status: Public on Jun 09 2023

organism:
Trichoplax sp. H2
Hoilungia sp. H23


title: Illumina HiSeq 2500 (Nakaseomyces glabratus)


title: Illumina NextSeq 500 (Hoilungia hongkongensis; Trichoplax adhaerens)

organism:
Trichoplax adhaerens
Hoilungia hongkongensis


title: Illumina NextSeq 500 (Trichoplax sp. H2)

organism: Trichoplax sp. H2


title: Illumina NextSeq 500 (Hoilungia sp. H23)

organism: Hoilungia sp. H23


title: Illumina NextSeq 500 (Human gammaherpesvirus 4)

organism: human gammaherpesvirus 4


title: Illumina NextSeq 500 (Hoilungia sp. H23; Trichoplax adhaerens)

organism:
Trichoplax adhaerens
Hoilungia sp. H23


title: Illumina NextSeq 500 (Hoilungia hongkongensis)

organism: Hoilungia hongkongensis


title: Illumina NextSeq 500 (Zea mays subsp. mays x Zea mays subsp. mexicana)


title: Thermo Fisher Scientific Human miRNA RT-PCR II


title: Illumina NovaSeq 6000 (Enterovirus A71; Homo sapiens)

organism:
Homo sapiens
Enterovirus A71


title: NanoString nCounter platform

city: Madrid

first: Jaime

last: Martinez de Villarreal

state: Madrid

address: Melchor Fernández Almagro, 3

department: Molecular Oncology Programme

institute: CNIO

organism: Homo sapiens


title: Illumina NovaSeq 6000 (Saccharomyces kudriavzevii)

status: Public on Jun 08 2023

organism: Saccharomyces kudriavzevii


title: Illumina NovaSeq 6000 (Spodoptera exigua)

status: Public on Jun 07 2023

organism: Spodoptera exigua


title: HiSeq X Ten (Escherichia coli J53)

status: Public on Jun 06 2023

organism: Escherichia coli J53


title: Illumina HiSeq 4000 (Cucumis melo)

organism: Cucumis melo


title: HiSeq X Ten (Ctenopharyngodon idella)

status: Public on Jun 05 2023

organism: Ctenopharyngodon idella


title: HiSeq X Ten (Escherichia coli CFT073)

organism: Escherichia coli CFT073


title: BGISEQ-500 (Oryzias latipes)

organism: Oryzias latipes


title: Ascaris Suum and Trichuris Suis IgG antibody profiling with Ascaris Suum protein microarray

city: St. Louis

first: Bruce

last: Rosa

state: MO

address: 4444 Forest Park Ave

institute: Washington University in St Louis

organism: Ascaris suum

technology: spotted peptide or protein

manufacture_protocol: Cloning and expression was performed using standard techniques. All sequences were PCR amplified from cDNA using sequence specific forward and reverse primers that encompassed the mature protein and contained Sac I (forward) and Xho I (reverse) restriction sites for downstream subcloning. Translation stop sites were incorporated into all reverse primers. Amplified sequences were first cloned into pCR2.1-TOPO by TA cloning then transformed into DH5α cells for sequence verification. Validated sequences were restriction enzyme digested and subcloned into the pSUMO bacterial e xpression vector (Life Sensors) and transformed into BL21 cells for protein production. Expression was performed using overnight cultures to spike 500ml of LB medium containing ampicillin (100 µg/ml) which was induced at OD = 0.7 for 5 hrs. with isopropyl β-D-1-thiogalactopyranoside (0.3 mM final). Pelleted cells were lysed with 1 mg/ml lysozyme, frozen overnight then sonicated. Because all clones formed inclusion bodies during production, the sonicated pellets were first washed 3X with 2% Triton X-100, solubilized in 8M Urea (made fresh) and batch purified by affinity chromatography using 2 ml of Ni-NTA. All mixtures were added to columns, washed with 6M urea (3X), then wash buffer containing 50 mM sodium phosphate, pH 8.0, 300 mM sodium chloride and 20 mM imidazole. Recombinant proteins were eluted with 5 ml of wash buffer containing 500 mM imidazole and 12 mM sodium lauryl sarkosine. Briefly, the clone library was created through an in vivo recombination cloning process with PCR-amplified coding sequences from cDNA, and a complementary linearized expressed vector transformed into chemically competent E. coli cells was amplified by PCR and cloned into the pXI vector using a high-throughput PCR recombination cloning method. The cloning methodology is described in detail elsewhere (Davies et al., 2005). All the clones were sequenced (Retrogen, Inc., San Diego, CA), and the results matched the correct target for the selected genes.  From each clone, the corresponding protein was expressed using an in vitro transcription and translation (IVTT) system, the E. coli cell-free rapid translation system (RTS) kit (Biotechrabbit, Berlin, Germany), as previously described (Davies et al., 2005). Each expressed protein includes a 5′ polyhistidine epitope tag and a 3′ hemagglutinin (HA) epitope tag. After expressing the proteins according to the manufacturer's instructions, translated proteins were printed onto nitrocellulose-coated glass AVID slides (Grace Bio-Labs, Inc., Bend, OR) using an ArrayJet Marathon Argus robotic microarray non-contact printer (ArrayJet, Roslin, UK). Each slide contained 16 nitrocellulose pads on which the expressed proteins along with controls were printed (this allowed sixteen samples to be probed per slide using sealed chambers that isolate the arrays). Microarray chip printing and protein expression were quality checked by probing random slides with anti-His and anti-HA monoclonal antibodies with fluorescent labeling.


title: NextSeq 2000 (Caulobacter vibrioides NA1000)

organism: Caulobacter vibrioides NA1000


title: Illumina NovaSeq 6000 (Triticum turgidum)

organism: Triticum turgidum


title: Illumina NextSeq 500 (Raphidocelis subcapitata)

organism: Raphidocelis subcapitata


title: Illumina NovaSeq 6000 (Azotobacter vinelandii DJ)

organism: Azotobacter vinelandii DJ


title: HiSeq X Ten (Triticum turgidum)


title: Illumina HiSeq 4000 (Spodoptera frugiperda)

status: Public on Jun 02 2023

organism: Spodoptera frugiperda


title: Illumina NovaSeq 6000 (Auxenochlorella pyrenoidosa)

organism: Auxenochlorella pyrenoidosa


title: Illumina NextSeq 500 (Selaginella moellendorffii)

status: Public on Jun 01 2023

organism: Selaginella moellendorffii


title: Illumina NovaSeq 6000 (Mucor lusitanicus)

organism: Mucor lusitanicus


title: Nanostring nCounter HSNCC Custom Panel

city: Berlin

first: Raik

last: Otto

state: Berlin

address: Rudower Chaussee 25

department: Computer Sciences

country: Germany

institute: Humboldt-Universität zu Berlin

organism: Homo sapiens


title: Illumina NovaSeq 6000 (Triticum monococcum)

organism: Triticum monococcum


title: Agilent-024519 RBD_v3_244K_Hughes

status: Public on May 09 2013

city: Toronto

first: Timothy

last: Hughes

state: Ontario

address: 160 College Street

department: Donnelly Centre

country: Canada

institute: University of Toronto

organism: synthetic construct

description: This custom microarray consists of probes representing two complete sets of all possible 10-base sequences. The probes on the array are made double-stranded, ssDNA are stripped from the array, and PCR-amplified to create a dsDNA pool. This DNA pool is then used as a template for in vitro T7 RNA polymerase-mediated RNA transcription to generate an RNA pool used for pull-down experiments using GST-tagged RNA binding proteins. The RNAs pulled-down by each RNA-binding protein are then labelled with a fluorophore and hybridized back onto the array, along with the total pool.

first: Debashish

last: Ray

first: Hilal

last: Kazan

first: Kate

middle: B

last: Cook

first: Matthew

middle: T

last: Weirauch

first: Hamed

middle: S

last: Najafabadi

first: Xiao

last: Li

first: Mihai

last: Albu

first: Hong

last: Zheng

first: Ally

last: Yang

first: Serge

last: Guerrousov

first: Manuel

last: Irimia

first: Leah

middle: H

last: Matzat

first: Ryan

middle: K

last: Dale

first: Sarah

last: Smith

first: Christopher

last: Yarosh

first: Seth

middle: M

last: Kelly

first: Behnam

last: Nabet

first: Desirea

last: Mecenas

first: Weimin

first: Rakesh

last: Laishram

first: Mei

last: Qiao

first: Howard

middle: D

last: Lipshitz

first: Fabio

last: Piano

first: Anita

last: Corbett

first: Russ

middle: P

last: Carsten

first: Brendan

middle: J

last: Frey

first: Richard

last: Anderson

first: Kristen

middle: W

last: Lynch

first: Luiz

middle: O

last: Penalva

first: Elissa

last: Lei

first: Benjamin

last: Blencowe

first: Andrew

middle: G

last: Fraser

first: Quaid

last: Morris

manufacture_protocol: Please refer to the manufacturer's web site at http://www.agilent.com/


title: Mouse immuno-oncology-related proteins for digital spatial profiling

city: Tokyo

first: Naoto

last: Kubota

address: Shinanomachi 35, Shinjuku

country: Japan

institute: Keio University of Medicine

organism: Mus musculus


title: Illumina NovaSeq 6000 (Selaginella moellendorffii)

last: GEO


title: Illumina NextSeq 500 (Carica papaya)

organism: Carica papaya


title: Agilent-048306 026655AsQuadruplicatesOn4x180k 048295 [Probe Name version]

status: Public on May 22 2015

city: Aachen

first: Mathias

middle: W.

last: Hornef

address: Steppenbergallee 203

department: Medical Microbiology

institute: RWTH Áachen University

description:
This Microarray represents a refined version of the Whole Mouse Genome Oligo Microarray 4x44K v2 (Design ID 026655, Agilent Technologies), called '026655AsQuadruplicatesOn180k' (design ID 048306) developed in the Research Core Unit Transcriptomics of Hannover Medical School. Microarray design was defined at Agilent's eArray portal using a 4x180k design format for mRNA expression as template. All non-control probes of design ID 026655 have been selected to be printed four times onto one 180k Microarray (on-chip quadruplicates). Control probes required for proper Feature Extraction software algorithms were determined and placed automatically by eArray using recommended default settings.
Arrays of this design have barcodes that begin with 16048306 or 2548306.
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 Probe Name.
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.