title: Illumina HiSeq 2000 (Lemna gibba)

status: Public on Jun 30 2020

last: GEO

country: USA

organism: Lemna gibba

technology: high-throughput sequencing

distribution: virtual


title: Illumina HiSeq 2000 (Eriocheir sinensis)

organism: Eriocheir sinensis


title: Microarrays of Bacillus encoded tRNAs

status: Public on Dec 27 2020

city: Hamburg

first: Zoya

last: Ignatova

address: Martin -Luther-King-Platz 6

country: Germany

institute: Universitaet Hamburg

organism: Bacillus subtilis

technology: spotted oligonucleotide

distribution: non-commercial

manufacturer: Fraunhofer Institute for Biomedical Research (Potsdam, Germany)

manufacture_protocol:
1. Oligos were arrayed in 384 well plates with a final concentration of 10 µM in 3× SSC/0.01% SDS in a total volume of 25 µl.
2. Arrays were printed onto (3-Glycidyloxypropyl)trimethoxysilane (Sigma) activated glas slides using a contact-spotter (QArray 2, Moleculare Devices).
3. After spotting arrays were incubated overnight at 4°C in a humidified atmosphere and subsequently dried for 30 min at 30°C.
4. Arrays were stored in a dry atmosphere at room temperature until use.


title: 085499_SBC human ceRNA microarray version 1.1

city: Shanghai

first: xiaona

last: zhang

address: No.151 Libing Road

country: China

institute: Shanghai Biochip Corporation

organism: Homo sapiens

technology: in situ oligonucleotide

distribution: custom-commercial

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


title: Ion Torrent Proton (Pyrococcus furiosus)

status: Public on Jun 29 2020

organism: Pyrococcus furiosus


title: Illumina NextSeq 500 (Bacillus amyloliquefaciens)

organism: Bacillus amyloliquefaciens


title: NIA Mouse 17K_A

status: Public on Nov 24 2004

city: Baltimore

first: Supriyo

last: De

state: Maryland

address: 251 Bayview Blvd

department: Laboratory of Genetics and Genomics

institute: NIA-IRP, NIH

organism: Mus musculus

technology: spotted DNA/cDNA

description: NIA Mouse 17K set - array A. The first 8,448 clones from a total of 16,896 for the set of 2 arrays. The first ~15K of this set come from the NIA Mouse 15K set; the additional ~1,700 come from the NIA extension of that set referred to as the NIA 7.4K set.

first: Kevin

middle: G

last: Becker

first: William

middle: H

last: Wood III

manufacture_protocol: PCR amplified cDNA from individual clones was spotted onto nylon membrane from twenty-two 384 well plates using a BioRobotics MicroGrid II Arrayer with a 384 pin head for each of the 2 membranes in the set.  Each of the 384 sub-arrays was a 5X5 grid of 22 spots and 3 blanks.


title: Arraystar LncPath Human Angiogenesis Array (Agilent-075014)

status: Public on Jun 26 2020

city: Rockville

first: Panos

last: Pan

state: MD

address: 9430 Key West Avenue

institute: Arraystar Inc.

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


title: Illumina HiSeq 2500 (Balaenoptera physalus)

organism: Balaenoptera physalus


title: Illumina HiSeq 1000 (Saccharomyces paradoxus)

organism: Saccharomyces paradoxus


title: Illumina NovaSeq 6000 (Lutjanus campechanus)

status: Public on Jun 25 2020

organism: Lutjanus campechanus


title: NIA Mouse 17K_B

description: NIA Mouse 17K set - array B. The second 8,448 clones from a total of 16,896 for the set of 2 arrays. The first ~15K of this set come from the NIA Mouse 15K set; the additional ~1,700 come from the NIA extension of that set referred to as the NIA 7.4K set.


title: NIA MGC, Mammalian Genome Collection

status: Public on May 03 2004

description: The goal of the Mammalian Gene Collection (MGC), a trans-NIH initiative, is to provide full-length open reading frame (FL-ORF) clones for human, mouse, and rat genes. In 2005, the project added the cow cDNAs generated by Genome Canada.  Initially, cDNA libraries provided the source of the clones. Recently, alternative methods based on gene-specific amplification have been developed to target the recovery of human and mouse genes absent from the MGC collection.

last: Woood

manufacture_protocol: PCR amplified cDNA of ~16,800 individual clones from the NIH Mammalian Genome Collection with sucrose cresol dye for visualization were denatured with NaOH and spotted onto S&S Nytran SuperCharge nylon membranes ~12cm X 8cm. Twenty-four 384 well plates are printed using a BioRobotics MicroGrid II Arrayer with a 384 pin head.  Each of the 384 sub-arrays is a 5X5 grid of 24 spots and 1 blank.


title: Illumina NovaSeq 6000 (Nasonia vitripennis)

organism: Nasonia vitripennis


title: Illumina HiSeq 2500 (Brassica carinata)

organism: Brassica carinata


title: [MoGene-2_0-st] Affymetrix Mouse Gene 2.0 ST Array [gene symbol version]

status: Public on Aug 01 2020

city: Edinburgh

first: Cigdem

last: Selli

address: Little France Crescent

department: Centre for Reproductive Health

country: United Kingdom

institute: Queen's Medical Research Institute

description: Annotation information obtained from the Bioconductor MoGene 2.0 transcript cluster database.

manufacture_protocol: See manufacturer's web site


title: Agilent-085599 8x60K Pikeperch 064721

city: Rennes

first: Aurelie

last: LE CAM

address: Campus de Beaulieu

department: PHASE

country: France

institute: INRA

organism: Sander lucioperca

description:
Arrays of this design have barcodes that begin with 16085599 or 2585599.

The ID column represents the Agilent Probe Name.


title: GridION (Escherichia coli)

organism: Escherichia coli


title: Illumina NextSeq 500 (Solea senegalensis)

organism: Solea senegalensis


title: Illumina HiSeq 2500 (Lemna gibba)


title: Exiqon miRCURY LNA microRNA array, 7th generation - hsa, mmu & rno [miRBase v18]

status: Public on Jun 24 2020

city: Bethesda

first: GEO

last: admin

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

organism:
Homo sapiens
Mus musculus
Rattus norvegicus

description:
Product=miRCURY LNA microRNA Array, 7th generation - hsa, mmu & rno
ProductDate=March 2012
ProductNumber=208500,208501,208502,208510,208520,208521,208522
LotNumberRange=35107-35107
ArrayContents_DesignedFor=miRBase 18.0
ArrayContents_CurrentNameColumn=miRBase 21.0
ArrayContents_CurrentNameColumnCoverage=Homo sapiens and related vira:75.06%

manufacture_protocol: See manufacturers website


title: Corynebacterium glutamicum ATCC13032_ORFarray

status: Public on Jun 23 2020

city: Kyoto

first: Masayuki

last: Inui

address: 9-2 Kizugawadai, Kizugawa

country: Japan

institute: Research institute of Innovative Technology for the Earth (RITE)

organism: Corynebacterium glutamicum

manufacture_protocol: PCR primers (20-mers) were designed to amplify the full-length coding DNA segments of 3099 predicted ORFs based on the annotation of the complete Corynebacterium glutamicum ATCC 13032 genome sequence (NC_003450). Amino-terminus primers amplified 20 bp downstream from the initiation codon, which was included. Carboxy-terminus primers amplified 20 bp upstream from the termination codon, which also was included. The ORF-specific double-stranded DNA fragments were produced by standard PCR amplification methods with genomic DNA of C. glutamicum ATCC 13032 as template and the above primer sets. Each PCR product was analysed routinely by agarose gel electrophoresis to ensure its size and purity. When PCR products of the expected size or purity were not obtained, modification of PCR conditions, redesign of primer pairs, or purification of DNA fragments from gels were attempted. As a result, a library of 3071 single PCR products was obtained. PCR products were purified by a PCR96 Cleanup kit (Millipore), desiccated and resuspended in Solution-T (Takara Bio). The PCR products thus obtained were printed in duplicate at two separate positions onto a 1x3 inch (2.5x7.5 cm approx.) Takara slide glass TX704 (Takara Bio) using an arraying robot. The DNA microarrays were rehydrated in a humidity chamber at 37 °C for 1 h. They were subsequently exposed to UV light at an energy setting of 60 mJ cm–2 in a UV cross-linker, and soaked in 0.2 % SDS for 2 min at room temperature. After being washed twice with ultrapure water, the slides were immersed in a succinic anhydride solution for 20 min at room temperature, and placed in boiling water for 2 min. The slides were then immersed in 100 % ethanol for 1 min and dried by centrifugation at 185 g for 2 min. Spotting quality was assessed by checking as controls the configuration and concentration of non-specific stained DNA spots on the DNA microarrays. In addition, 12 spots each of human transferrin receptor (1 kb), E. coli plasmid pUC19 and {lambda}DNA were printed onto the slides as negative controls for DNA hybridization.


title: Illumina NextSeq 500 (compost metagenome)

organism: compost metagenome


title: Illumina NovaSeq 6000 (Callosobruchus maculatus)

organism: Callosobruchus maculatus


title: Agilent-062646 INP_028005_G3_Mouse_GE_8x60K 028005

city: Greifswald

first: Anke

last: Schmidt

state: MV

address: Felix-Hausdorff-Str. 2

department: Plasma Life Science

institute: INP Greifswald

manufacture_protocol: See manufacturer's web site (www.agilent.com).


title: Illumina HiSeq 4000 (Laodelphax striatellus)

organism: Laodelphax striatellus


title: Illumina NextSeq 500 (Pseudomonas aeruginosa PAO1; Pseudomonas virus phiKZ)

organism:
Phikzvirus phiKZ
Pseudomonas aeruginosa PAO1


title: Illumina HiSeq 2000 (Polistes dominula)

organism: Polistes dominula


title: Illumina HiSeq 4000 (Solenopsis invicta)

status: Public on Jun 28 2020

organism: Solenopsis invicta


title: Illumina HiSeq 4000 (Marchantia polymorpha)

organism: Marchantia polymorpha


title: Geochip 4.0

status: Public on Jun 22 2020

city: Nanjing

first: Félix

last: Picazo

state: Jiangsu

address: 22#, 18, North Linshan Road, Qixia

department: Nanjing Institute of Geography and Limnology

institute: Chinese Academy of Sciences

organism:
Bacteria
Archaea
Fungi


title: Qiagen Custom Pick&Mix 192-plex Serum/Plasma Array

city: Vienna

first: Matthias

last: Hackl

state: Austria

address: Leberstrasse 20

country: Austria

institute: TAmiRNA GmbH

organism: Homo sapiens

technology: RT-PCR

description:
PCR assay
mature microRNA primer assay

manufacture_protocol: LNA-enhanced dual-specific primers are dried in 384-well plate format; 2x 192 microRNAs analyzed per 384-well plate. Plate contains assays for spike-in controls (RNA, cDNA and PCR) as quality control.


title: [RM-RG01Aa520491] Rosetta/Merck Rat RSTA Custom Affymetrix 1.0 microarray (CDF: RM-RG01Aa520491_custom_MMPM.cdf)

city: West Point

first: Alexei

middle: A

last: Podtelezhnikov

state: PA

address: 770 Sumneytown Pike

department: Non-clinical Drug Safety

institute: Merck & Co., Inc.

organism: Rattus norvegicus

description:
Oligonucleotide array on glass.
Contains 60-mer probes (60-mer).

manufacture_protocol: See manufacturer's website (www.affymetrix.com)


title: Exiqon miRCURY LNA microRNA array v.11.0

city: Copenhagen N

first: Thomas

last: Litman

state: Outside the US or Canada

address: Blegdamsvej 3C

department: ISIM

country: Denmark

institute: University of Copenhagen

manufacture_protocol: See manufacturer's website (www.exiqon.com)


title: [Clariom_D_Human] Affymetrix Human Clariom D Assay [transcript (gene) version] [CDF: ClariomDHuman_Hs_ENTREZG, v22]

city: Toronto

first: Ricardo

last: Zamel

state: Ontario

address: 101 College St.

country: Canada

institute: University Health Network

manufacture_protocol: This is similar to GPL23126 but a custom CDF environment was used to extract data [Brainarray Version 22, ClariomDHuman]. CDF and other files can be downloaded from Brainarray (see web link below).


title: Ion Torrent PGM (Pseudomonas aeruginosa)

last: GEO

organism: Pseudomonas aeruginosa


title: Illumina NextSeq 500 (Amia calva)

organism: Amia calva


title: Illumina HiSeq 2500 (Brassica nigra)

organism: Brassica nigra


title: Illumina NovaSeq 6000 (Hydra vulgaris)

organism: Hydra vulgaris


title: GeoChip 3.0

city: Beijing

first: Yun

last: Wang

address: Shuangqing Road 18th, Haidian District

institute: Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences

organism:
Bacteria
Archaea
Fungi
Viruses


title: Illumina HiSeq 2000 (Mesoplasma florum)

organism: Mesoplasma florum


title: Illumina Genome Analyzer IIx (Mesoplasma florum)


title: BGISEQ-500 (Escherichia coli)

organism: Escherichia coli


title: [MG_U74Av2] Affymetrix Murine Genome U74A Version 2 Array [MGU74Av2_Mm_ENTREZG_21.0.0]

status: Public on Jun 21 2020

city: Padova

first: Silvio

last: Bicciato

address: via U. Bassi 59/b

department: Molecular Medicine

country: Italy

institute: University of Padova

organism: Mus musculus

description: Brainarray custom CDF.

relation: Alternative to: GPL81 (Alternative CDF [official])

manufacture_protocol: See manufacturer's web site.


title: Illumina HiSeq 2000 (Pogona vitticeps)

organism: Pogona vitticeps


title: Illumina HiSeq 4000 (Anas platyrhynchos)

organism: Anas platyrhynchos


title: Illumina HiSeq 2500 (Saccharomyces cerevisiae SK1)

organism: Saccharomyces cerevisiae SK1


title: Illumina HiSeq 2500 (Aspergillus fumigatus; Mus musculus)

status: Public on Jun 18 2020

organism:
Mus musculus
Aspergillus fumigatus


title: Illumina HiSeq 3000 (Oryza sativa)

organism: Oryza sativa


title: Illumina HiSeq 4000 (Anopheles gambiae)

organism: Anopheles gambiae


title: MinION (Lactuca sativa)

status: Public on Jun 20 2020

organism: Lactuca sativa


title: Illumina NextSeq 500 (Chiroptera)

organism: Chiroptera


title: RPPA platform - RPPA Core Facility at the University of Texas MD Anderson Cancer Center

status: Public on Jun 17 2020

city: Santa Monica

first: Dave

last: Hoon

state: CA

address: 2200 Santa Monica Boulevard

department: Translational Molecular Medicine

institute: Saint John's Cancer Institute

organism: Homo sapiens

technology: antibody


title: Illumina HiSeq 2500 (Klebsiella variicola)

status: Public on Jun 19 2020

organism: Klebsiella variicola


title: Illumina HiSeq 2000 (Phaffia rhodozyma)

organism: Phaffia rhodozyma


title: Illumina NextSeq 500 (Phaffia rhodozyma)


title: BGISEQ-500 (Morus alba var. atropurpurea)

organism: Morus alba var. atropurpurea


title: Illumina NovaSeq 6000 (Oryctes rhinoceros)

organism: Oryctes rhinoceros


title: Illumina HiSeq 4000 (Fukomys damarensis)

organism: Fukomys damarensis


title: Illumina HiSeq 1500 (Bacillus anthracis)

status: Public on Jun 12 2020

organism: Bacillus anthracis


title: Illumina NovaSeq 6000 (Phaffia rhodozyma)


title: Illumina NovaSeq 6000 (Trichuris muris)

status: Public on Jun 16 2020

organism: Trichuris muris


title: Illumina NovaSeq 6000 (Heligmosomoides polygyrus bakeri)

organism: Heligmosomoides polygyrus bakeri


title: HiSeq X Ten (Homo sapiens; Severe acute respiratory syndrome coronavirus 2)

organism:
Homo sapiens
Severe acute respiratory syndrome coronavirus 2


title: Illumina NovaSeq 6000 (Marchantia polymorpha)

organism: Marchantia polymorpha


title: Illumina NextSeq 500 (Serratia marcescens SM39)

status: Public on Jun 15 2020

organism: Serratia marcescens SM39


title: Agilent-058029 Custom human expression microarray (Probe Name version)

city: Leipzig

first: Kristin

last: Reiche

address: Perlickstr. 1

institute: Fraunhofer Institute for Cell Therapy and Immunology


title: Illumina Miseq (Rattus norvegicus)

organism: Rattus norvegicus


title: [AraGene-1_0-st] Arabidopsis Gene 1.0 ST Array [CDF: aragene10st_At_TAIRG_22.0.0]

organism: Arabidopsis thaliana

manufacture_protocol:
This is identical to GPL17416 but a custom CDF environment was used to extract data [Brainarray Version 22, aragene10st].
CDF and other files can be downloaded at: http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/22.0.0/tairg.asp


title: NextSeq 550 (Bacillus anthracis)


title: Illumina NovaSeq 6000 (Triticum turgidum subsp. durum)

organism: Triticum turgidum subsp. durum


title: Illumina HiSeq 4000 (Labrus bergylta)

organism: Labrus bergylta


title: [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array [CDF: Brainarray HGU133Plus2_Hs_ENTREZG_v23]

description: This array is identical to GPL570 but the data were analyzed with a custom CDF environment.

relation: Alternative to: GPL570 (Alternative CDF [official])

manufacture_protocol: Refer to Affymetrix manufacture protocol for HG-U133 Plus 2.0 array.


title: HiSeq X Ten (Solanum arcanum)

organism: Solanum arcanum


title: Illumina NovaSeq 6000 (Francisella tularensis)

status: Public on Jun 11 2020

organism: Francisella tularensis


title: Illumina HiSeq 2500 (Borreliella burgdorferi)

organism: Borreliella burgdorferi


title: Illumina NovaSeq 6000 (Cryptococcus neoformans)

organism: Cryptococcus neoformans


title: Illumina NovaSeq 6000 (Burkholderia pseudomallei)

organism: Burkholderia pseudomallei


title: Illumina NovaSeq 6000 (Helicobacter pylori)

organism: Helicobacter pylori


title: Illumina MiSeq (Escherichia coli BL21(DE3))

status: Public on Jun 10 2020

organism: Escherichia coli BL21(DE3)


title: Illumina NextSeq 500 (Drosophila melanogaster; Homo sapiens; Mus musculus)

organism:
Drosophila melanogaster
Homo sapiens
Mus musculus


title: Illumina NovaSeq 6000 (Streptococcus agalactiae)

organism: Streptococcus agalactiae


title: Illumina NovaSeq 6000 (Felis catus)

organism: Felis catus


title: Illumina NovaSeq 6000 (Streptococcus pneumoniae)

organism: Streptococcus pneumoniae


title: Illumina HiSeq 2500 (Neisseria meningitidis)

organism: Neisseria meningitidis


title: Illumina NovaSeq 6000 (Enterococcus faecalis)

organism: Enterococcus faecalis


title: Illumina NovaSeq 6000 (Yersinia pseudotuberculosis)

organism: Yersinia pseudotuberculosis


title: Illumina NovaSeq 6000 (Vibrio cholerae)

organism: Vibrio cholerae


title: Illumina NovaSeq 6000 (Streptococcus pyogenes)

organism: Streptococcus pyogenes


title: Illumina NextSeq 500 (Streptococcus gordonii)

status: Public on Jun 08 2020

organism: Streptococcus gordonii


title: Illumina NovaSeq 6000 (Neisseria gonorrhoeae)

organism: Neisseria gonorrhoeae


title: Illumina NovaSeq 6000 (Salmonella enterica)

organism: Salmonella enterica


title: Illumina NovaSeq 6000 (Achromobacter xylosoxidans)

organism: Achromobacter xylosoxidans


title: Illumina NovaSeq 6000 (Legionella pneumophila)

organism: Legionella pneumophila


title: Illumina NovaSeq 6000 (Aggregatibacter actinomycetemcomitans)

organism: Aggregatibacter actinomycetemcomitans


title: Illumina NovaSeq 6000 (Campylobacter jejuni)

organism: Campylobacter jejuni


title: Illumina NovaSeq 6000 (Aedes aegypti)

organism: Aedes aegypti


title: Illumina NovaSeq 6000 (Streptococcus suis)

organism: Streptococcus suis


title: NanoString Gene Expression CodeSet [Serratia marcescens]

city: Pittsburgh

first: Robert

middle: MQ

last: Shanks

address: EEI 1020, 203 Lothrop st.

department: Ophthalmology

institute: University of Pittsburgh

organism: Serratia marcescens

technology: other

description: DB11 genes are from GenBank: HG326223.1 (https://www.ncbi.nlm.nih.gov/nuccore/HG326223.1).  A few of the genes were not in the Db11 genome and these were designated by orf#.


title: Illumina MiSeq (Plasmodium yoelii)

status: Public on Jun 09 2020

organism: Plasmodium yoelii


title: Illumina HiSeq 4000 (Symbiodinium microadriaticum)

organism: Symbiodinium microadriaticum


title: Illumina NovaSeq 6000 (Klebsiella pneumoniae)

organism: Klebsiella pneumoniae


title: Immune Response Biomarker Profiling on ProtoArray™ Human Protein Microarrays V5.1 (HA20458)

city: Houston

first: Sujith

middle: K

last: Joseph

state: Texas

address: 1102 Bates Avenue Suite 1770

department: Pediatrics Hematology-Oncology

institute: Baylor College of Medicine

organism: Homo sapiens

technology: spotted peptide or protein

manufacture_protocol: (Provided by Thermofisher Scientific ProtoArray™ Human Protein Microarrays and Services)  Human clones were obtained from Thermo Fisher Scientific’s Invitrogen™ UltimateTM ORF (open reading frame) collection or from a Gateway™ collection of kinase clones developed by Protometrix. The nucleotide sequence of each clone was verified by full length sequencing. All clones were transferred into a system for expressing recombinant proteins in insect cells via baculovirus infection. Using a proprietary high-throughput insect cell expression system, thousands of recombinant human proteins were produced in parallel. Each protein is tagged with Glutathione-S-Transferase (GST), which enables high-throughput affinity purification under conditions that retain activity. After purification, a sample of every purified protein is checked to ensure that the protein is present at the predicted molecular weight. In addition, all proteins are printed onto arrays, and the concentration of each protein is determined. Proteins with the prefix PV are part of Thermo Fisher Scientific's PanVera kinase collection and may be His-tagged and/or produced in E. coli. Thermo Fisher Scientific's Invitrogen™ Ultimate™ ORF clones are not available for some of these kinases.  A contact-type printer equipped with 48 matched quill-type pins is used to deposit each of these proteins along with a set of control proteins in duplicate spots on 1” x 3” glass slides that have been coated with a thin layer of nitrocellulose. The printing of these arrays is carried out in a cold room under dust-free conditions in order to preserve the integrity of both samples and printed microarrays. Before releasing protein microarrays for use, each lot of slides is subjected to a rigorous quality control (QC) procedure, including a gross visual inspection of all the printed slides to check for scratches, fibers and smearing. Since each of the proteins is tagged with GST, a GST-directed antibody detects human proteins in a second QC assay. The procedure measures the amount of protein deposited in each spot. The arrays are designed to accommodate 23,232 spots. For the ProtoArray™ Human Protein Microarray v5.1, samples are printed in 110 μm spots arrayed in 48 subarrays (4400-μm2 each) and are equally spaced in vertical and horizontal directions with 22 columns and 22 rows per subarray (Figure 4). Spots are printed with a 200 μm spot-to-spot spacing. An extra 100 μm gap between adjacent subarrays in each row and an extra 500 μm gap between rows allows for quick identification of subarrays. A few of the human accessions are printed on two locations on the arrays. In such cases, results are averaged for duplicate spots at the same concentration and array location, but not across array locations


title: [MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [moex10st_Mm_ENTREZG, Version 21.0.0]

status: Public on Jun 05 2020

organism: Mus musculus

manufacture_protocol: Affymetrix


title: Illumina HiSeq 2500 (Deinococcus geothermalis DSM 11300)

organism: Deinococcus geothermalis DSM 11300


title: Illumina NextSeq 500 (Streptococcus gordonii; Streptococcus mutans)

organism:
Streptococcus gordonii
Streptococcus mutans


title: NextSeq 550 (Bacillus subtilis; Escherichia coli)

status: Public on Jun 06 2020

organism:
Escherichia coli
Bacillus subtilis


title: Illumina HiSeq 4000 (Klebsiella pneumoniae MGH 78578)

status: Public on Jun 07 2020

organism: Klebsiella pneumoniae MGH 78578


title: Illumina HISeq 4000 (Mus musculus)


title: JCVI PFGRC Streptococcus gordonii 16K v1 array designed primarily based on strain Challis

city: Buffalo

first: M

middle: M

last: Vickerman

state: NY

address: 3435 Main St.

department: Periodontics and Endodontics

institute: University at Buffalo

organism: Streptococcus gordonii

manufacture_protocol: JCVI PFGRC


title: Illumina HiSeq 2500 (Erythrocebus patas)

status: Public on Jun 04 2020

organism: Erythrocebus patas


title: HiSeq X Ten (Callithrix jacchus)

organism: Callithrix jacchus


title: Illumina HiSeq 2500 (Chlorocebus pygerythrus)

organism: Chlorocebus pygerythrus


title: Illumina HiSeq 4000 (Thermococcus kodakarensis)

organism: Thermococcus kodakarensis


title: Illumina HiSeq 2500 (Novosphingobium aromaticivorans)

status: Public on Jun 03 2020

organism: Novosphingobium aromaticivorans


title: Ion Torrent S5 (Danio rerio)

organism: Danio rerio


title: Illumina HiSeq 2000 (Paeonia lactiflora)

organism: Paeonia lactiflora


title: Illumina HiSeq 2500 (Meleagris gallopavo)

organism: Meleagris gallopavo


title: Illumina HiSeq 2000 (Clarias macrocephalus)

organism: Clarias macrocephalus


title: Illumina NovaSeq 6000 (Sparus aurata)

status: Public on Jun 02 2020

organism: Sparus aurata


title: Illumina NovaSeq 6000 (Sinorhizobium meliloti)

organism: Sinorhizobium meliloti


title: NextSeq 550 (Gelatoporia subvermispora)

organism: Gelatoporia subvermispora


title: NextSeq 550 (Trametes versicolor)

organism: Trametes versicolor


title: Illumina HiSeq 4000 (Dermacentor marginatus)

organism: Dermacentor marginatus


title: Illumina HiSeq 4000 (Mus musculus; Streptococcus pneumoniae)

organism:
Streptococcus pneumoniae
Mus musculus


title: Illumina HiSeq 2500 (Aliivibrio fischeri)

organism: Aliivibrio fischeri


title: Illumina HiSeq 4000 (Chlorocebus pygerythrus)


title: Agilent-086007 EfaecalisDD14_V2

city: Villeneuve d'Ascq

first: Anca

last: Lucau-Danila

address: Cité Scientifique SN2 303

department: Biology

institute: University of Lille

organism: Enterococcus faecalis

description:
Arrays of this design have barcodes that begin with 16086007 or 2586007.

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 4000 (Oryza sativa Japonica Group x Oryza meridionalis)

status: Public on Jun 01 2020


title: Illumina NovaSeq 6000 (Acinetobacter baumannii)

organism: Acinetobacter baumannii


title: Agilent-022828 090204MR-1GE (Feature nuumber version)

city: Hachioji

first: Atsushi

last: Kouzuma

state: Tokyo

address: 1432-1 Horinouchi

institute: Tokyo University of Pharmacy and Life Sciences

organism: Shewanella oneidensis MR-1

description:
Arrays of this design have barcodes that begin with 16022828 or 2522828.

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 4000 (Oryza meridionalis)

organism: Oryza meridionalis


title: Streptomyces_coelicolor_M145OA_NimbleGen 12×135k array

first: Keqian

last: Yang

address: NO.1 Beichen West  Road, Chaoyang District

institute: IMCAS

organism: Streptomyces coelicolor

description: For the total 7,768 genes from Streptomyces coelicolor M145-OA,  6 probes were designed for each sequence. 39 sequences share the same probes with the rest genes owing to the high homogeneous. The design includes random GC and other control probes.

manufacture_protocol: NimbleGen Expression user’s guide. http://www.nimblegen.com/support/dna-microarray-support.html


title: NanoString annotated glioblastoma custom panel GBM_GNE_V2_C2296

city: South San Francisco

first: Radia

last: Johnson

address: 1 DNA Way

institute: Genentech

organism: Homo sapiens

description: Genentech

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


title: Illumina HiSeq 4000 (Pseudomonas fluorescens SBW25)

organism: Pseudomonas [fluorescens] SBW25


title: Genentech glioblastoma custom panel GBM_GNE_C1954 [Gene symbol version]

description:
Genentech glioblastoma custom panel GBM_GNE_C1954 (see GBM_GNE_C1954.RLF for exact probe and target specification)
NanoString nCounter Gene Expression Assay


title: Illumina NovaSeq 6000 (Mustela putorius furo)

organism: Mustela putorius furo


title: Agilent-075277 Cdiff 20150505

status: Public on Jun 08 2018

city: Braunschweig

first: Rebekka

last: Biedendieck

address: Rebenring 56

department: Institute of Microbiology

institute: Technische Universtität Braunschweig

organism: Clostridioides difficile 630

description:
C.diff 630 delta erm, genome release 2015, 4 probes per gene

Arrays of this design have barcodes that begin with 16075277 or 2575277.

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 NovaSeq 6000 (Serratia sp. ATCC 39006)

organism: Prodigiosinella confusarubida


title: NIA Microarray Mouse Immune Gene Chip (MIC-1)

status: Public on Jun 26 2007

city: Baltimore

first: Supriyo

last: De

address: 251 Bayview Blvd

institute: NIA-IRP, NIH

organism: Mus musculus

description: MIC-1 consists of 4608 cDNA clones that were selected from the initial screening of over 20,000 unique cDNA clones (mouse embryo 15K cDNA clone set from NIA/NIH: http://lgsun.grc.nia.nih.gov/cDNA/15k.html and mouse brain 11K cDNA clones from Brain Molecular Anatomy Project (BMAP), University of Iowa, http://mgc.nci.nih.gov) for expression in mouse spleen and thymus (~4,500) plus additional 90 known genes for cytokines and cytokine receptors that were not in the initial cDNA pool.  Approximately, 64% of the cDNA clones are known genes, the remaining are unnamed genes, and ESTs.  Functionally, the known genes were involved in regulation of cell cycle, growth, and division (10.2%), immune response, chemotaxis, and adhesion (7.6%), signal transduction and transcription regulation (17.6%), apoptosis and cell death (3.1%), protein synthesis, modification, and degradation (12.8%), metabolism (9.7%), DNA packaging and chromatin organization (1.7%).

manufacture_protocol: cDNA were amplified by PCR and printed onto nylon membrane (SuperCharge Nylon, S&S) using MicroGrid II printer (BioRobotics, Apogent Discoveries Inc, Hudson, NH).  The filter is 7.5 x 11 cm2 in size and consisting of 9600 spots at the diameter of 400 micron.  The filter is divided into 384 mini-domain.  Each domain contains 12 cDNA clones that were printed twice and one blank spot as a control for the local background.


title: Illumina HiSeq 2000 (Teleogryllus oceanicus)

organism: Teleogryllus oceanicus


title: NIA Neuroarray

status: Public on Apr 03 2002

description:
The NIA Neuroarray is a focused 1152-clone cDNA microarray designed specifically for neuroscience applications.
Full details of clone preparation, printing, hybridization, image capture and spot quantification protocols used for this array can be found at the web link below.
The array template was last annotated March 2002.
Keywords = neuroarray, neuroscience

first: Tanya

last: Barrett

first: Marquis

middle: P

last: Vawter

first: William

last: Wood

first: Diane

last: Teichberg

first: David

last: Donovan

first: Chris

last: Cheadle

first: Kevin

last: Becker


title: NIA Signal Transduction Array

description:
The NIA Signal Transduction Array is a focused 1152-clone cDNA microarray designed specifically to investigate signal transduction pathways.
Full details of clone preparation, printing, hybridization, image capture, and spot quantification protocols for this array can be found at the web link below.
The array was last annotated March 2002.
Keywords = signal transduction, pathways


title: Agilent-083670 Arraystar Rat LncRNA microarray V2 (Probe Name version)

status: Public on May 07 2016

city: Rockville

first: Panos

last: Pan

address: 9430 Key West Avenue

institute: Arraystar Inc.

organism: Rattus norvegicus


title: Exiqon MicroRNA Array  ver_208000 V8.1 lot number 20728-20399

status: Public on Jan 09 2008

organism:
Homo sapiens
Mus musculus
Rattus norvegicus

description: A multi organism array containing microRNA's probes for most of the species annotated in the miRBase Release 8.1

last: Wood III

manufacture_protocol: Locked Nucleic Acid enhanced oligonucleotides capture probes that are complementary to the mature miRNA's registered in miRBase Release 8.1 are manufactured to all have a uniform Tm of 72 degrees C.  Capture probes are spotted on to glass slides in 8 different subarrays, 14 spots wide by 15 spots high, each subarray is duplicated 4 times for a total of 6720 features.  The array contains 30 control capture probes: 12 positive controls, 8 negative controls and 10 probes specific for the supplied spike-in controls.  Blank spots were deleted from this platform leaving a total of 1600 features.


title: Illumina Infinium HumanMethylation850 BeadChip

status: Public on Sep 01 2017

city: San Diego

last: Illumina Inc.

address: 9885 Towne Centre Drive

institute: Illumina Inc.

technology: oligonucleotide beads

distribution: commercial

manufacture_protocol: See manufacturer's website