title: Agilent-028943 S. cerevisiae Custom CGH array (Feature number version)

status: Public on Aug 22 2023

city: Fort Collins

first: Ruth

last: Watson

state: CO

address: 1385 Center Ave

department: ERHS

country: USA

institute: Colorado State University

organism: Saccharomyces cerevisiae

technology: in situ oligonucleotide

description: Agilent-028943:Petes custom array design for S. cerevisiae CGH with lambda dosage controls and tiled rDNA, X/Yprime, CUP1, and SFA1

distribution: custom-commercial

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


title: nCounter Neuropathology Gene Expression Panel [NS_Hs_NeuroPath_v1.0]

status: Public on Aug 23 2023

city: Pathum Thani

first: Papon

last: Muangsanit

state: Pathum Thani

address: 113 Thailand Science Park Phahonyothin Road Khlong Nueng, Khlong Luang, BIOTEC building, Room 345

department: BIOTEC

country: Thailand

institute: NSTDA

organism: Homo sapiens

technology: other

description: The nCounter® Human Neuropathology Panel includes 760 genes covering pathways involved in neurodegeneration and other nervous system diseases, and 10 internal reference genes for data normalization.

manufacture_protocol: see manufacturer's website (www.nanostring.com)


title: Agilent-048047 ACIQ2

status: Public on Aug 01 2023

city: Ås

first: Aleksei

last: Krasnov

state: Viken

address: Øreveien, 47B

country: Norway

institute: Nofima AS

organism: Gadus morhua

description:
Atlantic cod second version

Arrays of this design have barcodes that begin with 16048047 or 2548047.

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: Antigen Discovery Inc. ETEC Protein Array - Version 2

status: Public on May 31 2023

city: Irvine

first: Arlo

middle: Zan

last: Randall

state: CA

address: 1 Technology Drive, Suite E309

institute: Antigen Discovery Inc

organism: Escherichia coli

technology: spotted peptide or protein

description:
ETEC = Enterotoxigenic Escherichia coli
Printed without purification from E. coli cell free expression system


title: Nanostring custom colon high-abundance circRNA panel [KRISTENSEN_CIRC4_C9188]

status: Public on Jul 11 2023

city: Aarhus

first: Juan Luis

last: Garcia-Rodriguez

address: Høegh-Guldbergs Gade 10

department: Biomedicine

country: Denmark

institute: Aarhus University

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


title: Illumina NovaSeq 6000 (Tupaia belangeri)

status: Public on May 30 2023

last: GEO

organism: Tupaia belangeri

technology: high-throughput sequencing

distribution: virtual


title: [RaGene-1_0-st] Affymetrix Rat Gene 1.0 ST Array [transcript (gene) version] [CDF: Brainarray ENTREZG Version 20]

city: Philadelphia

first: Gordon

middle: Alfred

last: Barr

state: Pennsylvania

address: 3615 Civic Center Blvd

department: Anesthesiology

institute: CHOP

organism: Rattus norvegicus

relation: Alternative to: GPL6247 (Alternative CDF [official])

manufacture_protocol: This is identical to GPL6247 but a custom CDF environment was used to extract data [Brainarray Version 20, RaGene10stv1_Rn_ENTREZG].


title: Illumina NovaSeq 6000 (Homo sapiens; Plasmodium falciparum)

organism:
Plasmodium falciparum
Homo sapiens


title: NextSeq 2000 (Trichoderma reesei RUT C-30)

organism: Trichoderma reesei RUT C-30


title: NextSeq 2000 (Entamoeba histolytica)

status: Public on May 29 2023

organism: Entamoeba histolytica


title: Illumina iSeq 100 (Papio anubis)

organism: Papio anubis


title: Illumina NovaSeq 6000 (Cryptococcus neoformans var. grubii H99)

status: Public on May 26 2023

organism: Cryptococcus neoformans H99


title: Illumina HiSeq 2000 (Orbilia oligospora)

organism: Orbilia oligospora


title: Illumina MiSeq (Gossypium barbadense)

organism: Gossypium barbadense


title: Nanostring Custom Meningioma Gene Expression Panel

status: Public on Sep 05 2023

city: San Francisco

first: William

last: Chen

address: 1450 3rd Street, HD 402

institute: UCSF

description: Custom Nanostring probe set was manufactured by Nanostring. Target sequences are included in the sequence txt file.

manufacture_protocol: see manufacturer's website http://www.nanostring.com


title: Illumina NovaSeq 6000 (Ilex)

status: Public on May 24 2023

organism: Ilex


title: Illumina MiSeq (Poecilia latipinna)

organism: Poecilia latipinna


title: Illumina NovaSeq 6000 (Actinidia chinensis)

organism: Actinidia chinensis


title: HiSeq X Ten (Mycoplasmopsis bovis)

status: Public on May 22 2023

organism: Mycoplasmopsis bovis


title: Fukuoka Dental College Mouse Ameloblast PCR Array

city: Fukuoka

first: Masashi

last: Shin

state: Fukuoka

address: 2-15-1 Tamura, Sawara-ku

country: Japan

institute: Fukuoka Dental College

organism: Mus musculus

technology: RT-PCR

description: PCR assay

manufacture_protocol: in house method


title: Illumina HiSeq 2500 (Armillaria luteobubalina; Eucalyptus grandis)

status: Public on May 23 2023

organism:
Eucalyptus grandis
Armillaria luteobubalina


title: Illumina HiSeq 2000 (Paspalum vaginatum)

organism: Paspalum vaginatum


title: Illumina HiSeq 2500 (Armillaria luteobubalina)

organism: Armillaria luteobubalina


title: MinION (Danio rerio)

status: Public on May 18 2023

organism: Danio rerio


title: Agilent-043155 Human array [Feature name version]

status: Public on May 17 2023

city: Rome

first: Stefano

last: Scalera

address: Via Elio Chianesi 53

country: Italy

institute: IRCCS Regina Elena National Cancer Institute

organism: Homo sapiens

manufacture_protocol: Agilent website


title: Illumina NovaSeq 6000 (Camponotus fellah)

organism: Camponotus fellah


title: HiSeq X Ten (Prunus domestica)

organism: Prunus domestica


title: DNBSEQ-G400 (Aspergillus luchuensis)

organism: Aspergillus luchuensis


title: Illumina NovaSeq 6000 (Lycium chinense)

status: Public on May 16 2023

organism: Lycium chinense


title: HiSeq X Ten (Pneumocystis sp. 'macacae')

status: Public on May 13 2023

organism: Pneumocystis sp. 'macacae'


title: Illumina HiSeq 2000 (Prunus cerasus)

organism: Prunus cerasus


title: Illumina HiSeq 4000 (Populus tremula x Populus alba)

status: Public on May 11 2023

organism: Populus tremula x Populus alba


title: Illumina NovaSeq 6000 (Serratia marcescens)

status: Public on May 10 2023

organism: Serratia marcescens


title: Illumina NextSeq 500 (Streptomyces rimosus subsp. rimosus)

organism: Streptomyces rimosus subsp. rimosus


title: Illumina NovaSeq 6000 (Microbotryum violaceum)

status: Public on May 25 2023

organism: Microbotryum violaceum


title: HiSeq X Ten (Pneumocystis murina)

status: Public on May 12 2023

organism: Pneumocystis murina


title: Illumina NextSeq 500 (Hydractinia symbiolongicarpus)

status: Public on May 09 2023

organism: Hydractinia symbiolongicarpus


title: Illumina NovaSeq 6000 (Tuber borchii)

organism: Tuber borchii


title: Illumina NovaSeq 6000 (Staurois parvus)

organism: Staurois parvus


title: Illumina HiSeq 2500 (Myodes rufocanus)

status: Public on May 08 2023

organism: Myodes rufocanus


title: Illumina NovaSeq 6000 (Human gammaherpesvirus 4)

organism: human gammaherpesvirus 4


title: Illumina HiSeq 3000 (Crassostrea virginica)

organism: Crassostrea virginica


title: Illumina NextSeq 500 (Clostridioides difficile R20291)

organism: Clostridioides difficile R20291


title: Illumina NovaSeq 6000 (Bacillus subtilis; Escherichia coli; Pseudomonas aeruginosa)

organism:
Pseudomonas aeruginosa
Escherichia coli
Bacillus subtilis


title: Illumina NextSeq 500 (Vibrio coralliilyticus)

organism: Vibrio coralliilyticus


title: Illumina NovaSeq 6000 (Anthurium andraeanum)

organism: Anthurium andraeanum


title: GridION (Talaromyces marneffei)

organism: Talaromyces marneffei


title: Illumina NovaSeq 6000 (Bacillus subtilis; Escherichia coli)

organism:
Escherichia coli
Bacillus subtilis


title: Illumina NovaSeq 6000 (Ginglymostoma cirratum)

organism: Ginglymostoma cirratum


title: Illumina HiSeq 4000 (Ictalurus punctatus)

status: Public on May 07 2023

organism: Ictalurus punctatus


title: NanoString nCounter Mouse Immune Exhaustion Panel [NS_Mm_Exhaustion_v1.0]

city: Stanford

first: Juliana

last: Idoyaga

state: California

address: 299 Campus drive, 3RD FLOOR RM D330 & D345

department: Microbiology and Immunology

institute: Stanford University

organism: Mus musculus


title: Illumina NovaSeq 6000 (Anopheles gambiae)

organism: Anopheles gambiae


title: NextSeq 1000 (Rattus norvegicus)

organism: Rattus norvegicus


title: Illumina HiSeq 3000 (Stylophora pistillata)

organism: Stylophora pistillata


title: Illumina HiSeq 2500 (Carthamus tinctorius)

organism: Carthamus tinctorius


title: Agilent-084783 Mus musculus array (circMouse_0410; Agilent Probe Name)

status: Public on May 06 2023

city: jinan

first: hai

middle: yan

last: liu

address: huaxianchanglu

country: China

institute: bohao

description:
Arrays of this design have barcodes that begin with 16084783 or 2584783.

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.


title: NextSeq 2000 (Mesocricetus auratus)

organism: Mesocricetus auratus


title: Illumina NextSeq 500 (Dengue virus; Homo sapiens)

status: Public on May 05 2023

organism:
Homo sapiens
Dengue virus


title: NextSeq 2000 (Hydractinia symbiolongicarpus)

organism: Hydractinia symbiolongicarpus


title: Illumina NextSeq 500 (Chikungunya virus; Homo sapiens)

organism:
Homo sapiens
Chikungunya virus


title: Illumina NextSeq 500 (Homo)

status: Public on May 04 2023

organism: Homo


title: Illumina NovaSeq 6000 (Homo sapiens; Human betaherpesvirus 6A; Human gammaherpesvirus 4)

status: Public on May 03 2023

organism:
Homo sapiens
human gammaherpesvirus 4
Human betaherpesvirus 6A


title: Illumina HiSeq 4000 (Microtus ochrogaster)

organism: Microtus ochrogaster


title: GridION (Rattus norvegicus)


title: Illumina NovaSeq 6000 (Saccharomyces paradoxus)

status: Public on May 01 2023

organism: Saccharomyces paradoxus


title: Illumina NextSeq 500 (Mus musculus; Mus spretus)

organism:
Mus musculus
Mus spretus


title: Illumina NovaSeq 6000 (Staphylococcus aureus subsp. aureus NCTC 8325)


title: AnyGenes Mouse Oxidative Stress Product ref OS1M1

status: Public on May 02 2023

city: Barcelona

first: Christian

middle: Griñán

last: Ferré

state: Barcelona

address: Joan XIII, s/n

department: Pharmacology, Toxicology and Therapeutic Chemistry

country: Spain

institute: University of Barcelona

manufacture_protocol: see manufacturer's website


title: NextSeq 2000 (Schmidtea mediterranea)

organism: Schmidtea mediterranea


title: Illumina NextSeq 500 (Auxenochlorella pyrenoidosa)

organism: Auxenochlorella pyrenoidosa


title: Agilent-022821 Slack_Design02

status: Public on Jun 01 2015

city: Ottawa

first: Alexandre

last: Blais

state: ON

address: 451 Smyth Road

country: Canada

institute: University of Ottawa

description:
Design for Ruth Slack. Contains UCSC genes (42100 out of 49409) from -5kb to + 3kb. Also contains miRNA genes, and all regions discovered by Asp et al.
Arrays of this design have barcodes that begin with 16022821 or 2522821.
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: Illumina HiSeq 3000 (unidentified soil bacteria)

organism: unidentified soil bacteria


title: UGA#3 IBV-IGIP array

city: Athens

first: Daniel

middle: Roberto

last: Perez

state: GA

address: 953 College Station Road

institute: University of Georgia

organism:
Influenza A virus
Influenza B virus

description:
Spotted purified influenza virus antigens.
Antigens expressed in HEK or insect cells (Sinobiological Inc).

manufacturer: Vaccine Research & Development Center (Protein Microarray Lab), University of California, Irvine.

manufacture_protocol:
Taghavian O, et al. 2018. Antibody Profiling by Proteome Microarray with Multiplex Isotype Detection Reveals Overlap between Human and Aotus nancymaae Controlled Malaria Infections. Proteomics. Jan;18(2):10.1002/pmic.201700277. doi: 10.1002/pmic.201700277
Khan S, et al. 2019. Use of an influenza antigen microarray to measure the breadth of serum antibodies across virus subtypes. J Vis Exp 149 e59973.


title: HiSeq X Ten (Talaromyces marneffei)

organism: Talaromyces marneffei


title: Illumina NextSeq 500 (Prostheceraeus crozeri)

organism: Prostheceraeus crozeri


title: Agilent-022328 Six_ChIP_01_of_03_v2

status: Public on Jul 04 2010

organism: Mus musculus

description:
Array #1 out of 3 for Six ChIP-on-chip. Made from ?Probes_for_3array_set_v2_sorted_Part_01?

Arrays of this design have barcodes that begin with 16022328 or 2522328.

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.

distribution: commercial


title: Agilent-022329 Six_ChIP_02_of_03_v2 022328

description:
Array #2 out of 3 for Six ChIP-on-chip. Made from ?Probes_for_3array_set_v2_sorted_Part_02?

Arrays of this design have barcodes that begin with 16022329 or 2522329.

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: Illumina NovaSeq 6000 (Nakaseomyces glabratus)

organism: Nakaseomyces glabratus


title: Illumina NextSeq 500 (Auxenochlorella pyrenoidosa; Yarrowia lipolytica)

organism:
Auxenochlorella pyrenoidosa
Yarrowia lipolytica


title: Agilent-022332 Six_ChIP_03_of_03_v2 022330

description:
Array #3 out of 3 for Six ChIP-on-chip. Made from ?Probes_for_3array_set_v2_sorted_Part_03?

Arrays of this design have barcodes that begin with 16022332 or 2522332.

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: Linum usitatissimum 12x270K (60-mer) [120420_Lusi_LG_exp]

status: Public on Feb 11 2018

city: Villeneuve d'Ascq

first: Anca

last: Lucau-Danila

address: Cité Scientifique SN2 303

department: Biology

country: France

institute: University of Lille

organism: Linum usitatissimum

description:
NimbleGen design name 120420_Lusi_LG_exp_UX12, NimbleGen design ID 569241. Expression design for 57,802 unigenes from flax (Linum usitatissimum) with 4 probes of 60 mer by unigene. The design includes random GC and other control probes.
The Platform data table reflects a condensed representation of the expression array's replicate (SEQ_ID) features.  The .ndf and .ngd files are linked below as supplementary files.

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