Fish C

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish D

status: PUBLIC

characteristic: External Id

text: Stanford University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Danio rerio

characteristic: organism

text: Generic sample from Danio rerio

characteristic: title


Fish E

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish F

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish G

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish H

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish I

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish J

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish K

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish L

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish M

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


Fish N

text: Stanford University

text: live

text: Generic

text: Danio rerio

text: Generic sample from Danio rerio


HMP085-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

tag: attribute

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Staphylococcus hominis is an aerobic, gram-positive coccus. A member of the normal human skin bacterial flora, it is an opportunistic pathogen in immunocompromised patients. This strain was isolated from human skin.

characteristic: description

characteristic: estimated size

text: human-associated habitat [ENVO:00009003]

characteristic: feature

text: Level 2: High-Quality Draft39x;37

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Left arm

characteristic: misc_param: HMP body site

text: skin

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Staphylococcus hominis SK119

text: Staphylococcus hominis SK119

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

characteristic: sop

text: BEI HM-119

text: Homo sapiens

characteristic: specific host

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Staphylococcus hominis


HMP090-454 Sample

characteristic: External Id

text: J. Craig Venter Institute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

characteristic: culture-collection

text: Treponema vincentii is a spirochete. It is not a typical constituent of the human oral cavity bacterial flora in healthy individuals. Implicated in periodontitis and acute necrotizing ulcerative gingivitis (trench mouth) when present with the rod-shaped bacterium Fusobacterium fusiforme. This strain was isolated from the human oral cavity.

text: Level 2: High-Quality Draft15x;79

text: not determined

text: not determined

text: not determined

text: biological product [ENVO:02000043]

text: not determined

text: oral

text: not determined

text: not determined

text: Treponema vincentii ATCC 35580

characteristic: organism

text: Treponema vincentii ATCC 35580

text: Reference Genome

text: not determined

text: ATCC 35580

text: Homo sapiens

text: ATCC 35580

text: MIGS Cultured Bacterial/Archaeal sample from Treponema vincentii ATCC 35580

characteristic: title


FOWS

text: Joint Genome Institute, U.S. Department of Energy

text: live

text: Generic

text: Actinosynnema mirum DSM 43827

characteristic: description

text: Actinosynnema mirum DSM 43827

text: DSM 43827

text: Generic sample from Actinosynnema mirum DSM 43827

text: type strain of Actinosynnema mirum

characteristic: type material


HMP091-454 Sample

characteristic: External Id

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

text: terrestrial biome [ENVO:00000446]

text: not determined

text: Lactobacillus jensenii is an anaerobic, gram-positive rod. It is one of the predominant constituents of the normal human female urogenital tract. It is known to decrease the risk of STDs. This strain was isolated from the human vaginal cavity.

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft40x;57

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Vaginal

characteristic: misc_param: HMP body site

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Lactobacillus jensenii 269-3

text: Lactobacillus jensenii 269-3

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

characteristic: sop

text: BEI HM-645

text: Homo sapiens

characteristic: specific host

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Lactobacillus jensenii 269-3


FWPA

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Lutiella nitroferrum 2002

characteristic: description

text: Pseudogulbenkiania ferrooxidans 2002

characteristic: organism

text: Generic sample from Pseudogulbenkiania ferrooxidans 2002

characteristic: title


FPHU

characteristic: External Id

text: live

text: Generic

text: Beutenbergia cavernae DSM 12333

text: Beutenbergia cavernae DSM 12333

text: DSM 12333

text: Generic sample from Beutenbergia cavernae DSM 12333

text: type strain of Beutenbergia cavernae

characteristic: type material


FWCB

text: live

text: Generic

text: Capnocytophaga ochracea DSM 7271

text: Capnocytophaga ochracea DSM 7271

text: DSM 7271

text: Generic sample from Capnocytophaga ochracea DSM 7271

text: type strain of Capnocytophaga ochracea


FPHS

text: live

text: Generic

text: Cellulomonas flavigena DSM 20109

text: Cellulomonas flavigena DSM 20109

text: DSM 20109

text: Generic sample from Cellulomonas flavigena DSM 20109

text: type strain of Cellulomonas flavigena


HMP084-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Neisseria flavescens is an aerobic, gram-negative diplococci. It is a normal commensal inhabitant of the human oral cavity. It is an opportunistic pathogen in immunocompromised patients. It has been implicated in endocarditis, meningitis, and septicemia. This strain was isolated from human skin.

characteristic: estimated size

characteristic: feature

text: Level 5: Non-contiguous Finished21.82x;31

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Right arm

characteristic: misc_param: HMP body site

text: skin

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Neisseria flavescens SK114

text: Neisseria flavescens SK114

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

text: BEI HM-115

text: Homo sapiens

text: MIGS Cultured Bacterial/Archaeal sample from Neisseria flavescens SK114


FTOC

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Chitinophaga pinensis DSM 2588

characteristic: description

text: Chitinophaga pinensis DSM 2588

characteristic: organism

text: DSM 2588

characteristic: strain

text: Generic sample from Chitinophaga pinensis DSM 2588

characteristic: title

text: type strain of Chitinophaga pinensis


Epimedium sagittatum RNA sample

text: Wuhan Botanical Garden, The Chinese Academy of Sciences

text: live

text: Generic

text: ESTs derived from red-magenta fully expanded leaves

text: Epimedium sagittatum

text: Generic sample from Epimedium sagittatum


HMP013-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Prevotella melaninogenica is a gram-negative, anaerobic, rod-shaped bacterium that inhabits the oral cavity. The bacterium has many virulence factors including neuraminidase, collagenase, specific immunoglobulin G and IgA proteases, phospholipase A, and hemolysin. The pathogenic significances of the bacteria is considered small in comparison with other periodontal pathogens.

characteristic: estimated size

text: human-associated habitat [ENVO:00009003]

characteristic: feature

text: Level 6: Finished136x

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: not determined

characteristic: misc_param: HMP body site

text: oral

characteristic: misc_param: HMP supersite

text: not determined

text: not determined

text: Prevotella melaninogenica ATCC 25845

text: Prevotella melaninogenica ATCC 25845

text: Reference Genome

text: not determined

characteristic: sop

text: ATCC 25845

text: Homo sapiens

characteristic: specific host

text: ATCC 25845

text: MIGS Cultured Bacterial/Archaeal sample from Prevotella melaninogenica ATCC 25845

text: type strain of Prevotella melaninogenica

characteristic: type material


HMP016-454 Sample

characteristic: External Id

text: J. Craig Venter Institute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: not determined

text: terrestrial biome [ENVO:00000446]

text: not determined

characteristic: culture-collection

text: Capnocytophaga gingivalis is a gram-negative, microaerophilic, CO2 requiring gliding bacterium. It is an opportunistic pathogen associated with periodontitis. The bacterium forms coaggregates with A. israelii that are involved in plaque formation on the surface of teeth. The coaggregates are formed by aminogalactoside- or neuraminlactose-sensitive molecules.

characteristic: description

text: Level 2: High-Quality Draft37x;37

text: not determined

text: not determined

text: not determined

text: biological product [ENVO:02000043]

text: not determined

text: oral

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Capnocytophaga gingivalis ATCC 33624

characteristic: organism

text: Capnocytophaga gingivalis ATCC 33624

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

text: ATCC 33624

text: Homo sapiens

text: ATCC 33624

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Capnocytophaga gingivalis ATCC 33624

text: type strain of Capnocytophaga gingivalis


HMP030-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Rothia mucilaginosa is a gram-positive, cocci-shaped bacterium that inhabits the oral cavity. The bacterium is considered an opportunistic pathogen and has been associated with endocarditis, meningitis, and peritonitis.

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft28x;25

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Pharyngeal mucosa

characteristic: misc_param: HMP body site

text: airways

characteristic: misc_param: HMP supersite

text: not determined

text: not determined

text: Rothia mucilaginosa ATCC 25296

text: Rothia mucilaginosa ATCC 25296

text: Reference Genome

text: not determined

characteristic: sop

text: ATCC 25296, CCM 2417, DSM 20746, NCTC 10663, PCM 2415

text: Homo sapiens

characteristic: specific host

text: ATCC 25296

text: MIGS Cultured Bacterial/Archaeal sample from Rothia mucilaginosa ATCC 25296

characteristic: title

text: type strain of Rothia mucilaginosa

characteristic: type material


characteristic: External Id

text: Virginia Bioinformatics Institute

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Homo sapiens

characteristic: organism

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

characteristic: cell line

text: Genomic DNA extracted from HCT116 human cells

characteristic: description

text: Homo sapiens

text: human cell line HCT116


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: Genomic DNA extracted from CXCR4 FACS sorted H9 human embryonic stem cells

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: H9 endoderm cells generated from H9 hESCs using activin A and FACS sorted with CXCR4

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: H9 alpha-fetoprotein (AFP) positive hESC-derived cells were generated by growing H9 hESCs in suspension to create H9 embryoid bodies, plating the embryoid bodies with FgF, and FACS sorting to isolate cells expressing green fluorescent protein (GFP) reporter driven from the AFP promoter.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: H9 alpha-fetoprotein (AFP) negative hESC-derived cells were generated by growing H9 hESCs in suspension to create H9 embryoid bodies, plating the embryoid bodies with FgF, and FACS sorting by using green fluorescent protein (GFP) reporter driven from the AFP promoter to isolate non-expression cells.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: H9 embryoid bodies created by growing H9 hESCs in suspension

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: Genomic DNA from H9 human embryonic stem cells grown in conditioned medium

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: H9 embryoid body (EB)-derived cells generated by growing H9 hESCs in suspension and plating the embryoid bodies

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: Genomic DNA extracted from CXCR4 FACS sorted BG02 human embryonic stem cells

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: BG02 embryoid body (EB)-derived cells generated by growing H9 hESCs in suspension and plating the embryoid bodies

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: Genomic DNA from human fetal liver obtained from legally aborted fetuses at 11 weeks gestation

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: Genomic DNA from human fetal liver obtained from legally aborted fetuses at 24 weeks gestation

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Hudson Alpha Institute of Biotechnology

text: live

text: Generic

text: Genomic DNA from normal adult human liver was obtained through Asterand plc.

text: Homo sapiens

text: Generic sample from Homo sapiens


HMP082-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Acinetobacter radioresistens is an aerobic, gram-negative diplococcoid rod. It is a constituent of the normal human skin microflora. It is an opportunistic pathogen in immunocompromised patients. This strain was isolated from human skin.

characteristic: estimated size

text: human-associated habitat [ENVO:00009003]

characteristic: feature

text: Level 2: High-Quality Draft21x;82

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Right arm

characteristic: misc_param: HMP body site

text: skin

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Acinetobacter radioresistens SK82

text: Acinetobacter radioresistens SK82

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

text: BEI HM-107

text: Homo sapiens

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Acinetobacter radioresistens SK82


characteristic: External Id

text: DNA Data Bank of Japan

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Homo sapiens

characteristic: organism

text: Generic sample from Homo sapiens

characteristic: title


text: DNA Data Bank of Japan

text: live

text: Generic

text: Human Embryonic Stem Cell (khES-1). Transcriptome Analysis.

characteristic: description

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa

characteristic: cell line

text: source: cervix cc cell line; description:

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Gene Expression Omnibus

text: live

text: Generic

text: source: liver carcinoma cell line; description:

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Gene Expression Omnibus

text: live

text: Generic

text: embryonic day 11.5 (e11.5)

characteristic: age

text: source: Mouse embryonic day 11.5 (e11.5) forebrain; description: Tissue pooled from ~150 embryos Chromatin IP against p300

text: Mixed male / female

characteristic: gender

text: Mus musculus

text: forebrain

characteristic: tissue

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

text: live

text: Generic

text: embryonic day 11.5 (e11.5)

text: source: Mouse embryonic day 11.5 (e11.5) limb; description: Tissue pooled from ~150 embryos Chromatin IP against p300

text: Mixed male / female

text: Mus musculus

characteristic: strain

text: limb

text: Generic sample from Mus musculus


characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

text: embryonic day 11.5 (e11.5)

text: source: Mouse embryonic day 11.5 (e11.5) midbrain; description: Tissue pooled from ~150 embryos Chromatin IP against p300

text: Mixed male / female

text: Mus musculus

text: midbrain

text: Generic sample from Mus musculus


Pha-4 emb GFP

text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

text: GFP

characteristic: antibody

text: source: pha-4 transgenic worm OP37; description: Chromatin IP against anti-GFP

text: Pha-4 GFP transgenic

characteristic: genotype

text: embyro

characteristic: growth stage

text: Caenorhabditis elegans

text: Generic sample from Caenorhabditis elegans


Pha-4 emb input

text: Gene Expression Omnibus

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

text: None, input DNA

text: source: pha-4 transgenic worm OP37; description: No ChIP just input DNA from the same preparation

text: Pha-4 GFP transgenic

text: embyo

text: Caenorhabditis elegans


Pha-4 L1 GFP

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: GFP

text: Pha-4 GFP transgenic

text: Caenorhabditis elegans

characteristic: organism


Pha-4 L1 input

text: Gene Expression Omnibus

text: live

text: Generic

text: None, input DNA

characteristic: description

text: Pha-4 GFP transgenic

text: Caenorhabditis elegans

characteristic: title


Drosophila melanogaster S2-GMR

text: Gene Expression Omnibus

text: live

text: Generic

text: Gerard Rubin's lab

characteristic: biomaterial provider

characteristic: cell type

text: source: Drosophila melanogaster S2 cells; description: small RNA sequencing of Drosophila melanogaster S2-GMR, second biological replicate

text: Drosophila melanogaster

text: Generic sample from Drosophila melanogaster


KOREF

characteristic: External Id

text: Korean Bioinformation Center

text: live

text: Generic

text: Korean cancer research specialist Kim Seong-jin

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Virginia Bioinformatics Institute

characteristic: INSDC center name

text: live

text: Generic

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Rutgers University

text: live

text: Generic

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in cerebellum genomic DNA of donor N6. This is one of the two replicates.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in cerebellum cDNA of donor N6.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in frontal lobe cDNA of donor N6. This is one of the two replicates.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in corpus callosum cDNA of donor N6.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in diencephalon cDNA of donor N6.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in small intestine cDNA of donor N6.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in kidney cDNA of donor N6.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard Medical School

text: live

text: Generic

text: Targeted resequencing of >36,000 predicted putative RNA editing sites in adrenal cDNA of donor N6.

text: Homo sapiens

text: Generic sample from Homo sapiens


Arabidopsis thaliana

text: Penn State University

text: live

text: Generic

text: Arabidopsis thaliana

text: Generic sample from Arabidopsis thaliana


text: Harvard University

text: live

text: Generic

text: B-Lymphocyte cell line

text: Homo sapiens

text: Generic sample from Homo sapiens


Persea americana

text: Penn State University

text: live

text: Generic

text: Persea americana

text: Generic sample from Persea americana


Eschscholzia californica

text: Penn State University

text: live

text: Generic

text: Eschscholzia californica

text: Generic sample from Eschscholzia californica


name: Sequencing and Annotation of the Equine Transcriptome from Nervous and Splenic Tissue

text: CDC

text: live

text: Generic

text: Equine neurological tissue (cortex, cerebellum, midbrain, hindbrain, thalamus, cervical and lumber spinal cord) and spleen were obtained by necropsy from three groups of two horses each (total of 6 individuals) and consisted of 1) naive horses infected with 1 X 105 WNV, intrathecally 2) non naive horses vaccinated for protection against WNV (Prevenile, Intervet-Schering-Plough) and infected with 1 X 105 WNV , intrathecally and 3) horses that were not infected or vaccinated Tissues were snap frozen and stored at -80oC until RNA extraction. Total RNA was extracted using Trizol (Guanidium thiocyanate- Invitrogen, Carlsbad, CA) and a traditional phase separation technique. Concentration and purity of each RNA sample was assessed using spectrophotometric technology (ND-1000, Nanodrop Technologies, Wilmington, DE) and degradation assessed by microfluidics (Agilent 2100 Bio-analyzer, Santa Clara, CA). The RNA was converted to a normalized cDNA library (SMART PCR cDNA synthesis kit and Advantage 2 PCR kit, Clontech, Mountainview, CA; QIAquick PCR Purification Kit, Qiagen, Valencia, California; and cDNA Normalization Trimmer Kit, Evrogen, Moscow, Russia).

text: Equus caballus

text: Generic sample from Equus caballus


text: Gene Expression Omnibus

text: live

text: Generic

text: source: immature floral tissue; description: smRNA high-throughput sequencing

text: abh1-1 mutant

text: Arabidopsis thaliana

text: unopened flower bud

characteristic: tissue


text: Gene Expression Omnibus

text: live

text: Generic

text: source: immature floral tissue; description: 5'-RACE high-throughput sequencing

text: Columbia-0 wild type

characteristic: genotype

text: Arabidopsis thaliana

text: unopened flower bud


text: Gene Expression Omnibus

text: live

text: Generic

text: Columbia-0 wild type

text: Arabidopsis thaliana

text: unopened flower bud


text: Gene Expression Omnibus

text: live

text: Generic

text: ein5-6 mutant

text: Arabidopsis thaliana

text: unopened flower bud


text: Gene Expression Omnibus

text: live

text: Generic

text: ein5-6 mutant

text: Arabidopsis thaliana

text: unopened flower bud


text: Gene Expression Omnibus

text: live

text: Generic

text: ein5-6 abh1-1 mutant

text: Arabidopsis thaliana

text: unopened flower bud


10 dpp MILI

text: Gene Expression Omnibus

text: live

text: Generic

text: MILI

characteristic: chip antibody

text: source: ; description: MILI-associated small RNA isolated from testes of 10 dpp males (Dnmt3L heterozygous)

text: 10 dpp

characteristic: developmental stage

text: Dnmt3L heterozygous

text: Mus musculus

characteristic: strain

text: testes

text: Generic sample from Mus musculus


10 dpp Dnmt3L-KO MILI

text: Gene Expression Omnibus

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

text: Generic

text: MILI

text: source: ; description: MILI-associated small RNA isolated from testes of 10 dpp Dnmt3L-deficient males

text: 10 dpp

text: Dnmt3L knockout

text: Mus musculus

text: testes

text: Generic sample from Mus musculus


16.5 dpc total

text: Gene Expression Omnibus

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

text: source: ; description: 24-33nt RNA isolated from testes of 16.5 dpc embryos

text: 16.5 dpc

text: wild type

text: Mus musculus

text: testes

text: Generic sample from Mus musculus


16.5 dpc MILI

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: SRA accession

text: MILI

text: source: ; description: MILI-associated small RNA isolated from testes of 16.5 dpc embryous

characteristic: description

text: 16.5 dpc

text: wild type

text: Mus musculus

characteristic: organism

text: testes

text: Generic sample from Mus musculus


16.5 dpc MIWI2

text: Gene Expression Omnibus

text: live

text: Generic

text: source: ; description: MIWI2-associated small RNA isolated from testes of 16.5 dpc embryos

text: 16.5 dpc

text: wild type

text: Mus musculus

text: testes

text: Generic sample from Mus musculus

characteristic: title


Ovary total

characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

text: source: ; description: 24-33nt RNA isolated from ovaries of 4-6 week old females

text: 4-6 week

text: wild type

text: Mus musculus

text: ovaries

text: Generic sample from Mus musculus


2 dpp total

text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

text: source: ; description: 24-33nt RNA isolated from testes of 2 dpp males

text: 2 dpp

text: wild type

text: Mus musculus

text: testes

text: Generic sample from Mus musculus


10 dpp total

text: Gene Expression Omnibus

text: live

text: Generic

text: source: ; description: 24-33nt RNA isolated from testes of 10 dpp males (MILI heterozygous)

text: 10 dpp

text: MILI heterozygous

text: Mus musculus

text: testes

characteristic: tissue

text: Generic sample from Mus musculus


10 dpp MILI-KO total

text: Gene Expression Omnibus

text: live

text: Generic

text: source: ; description: 24-33nt RNA isolated from testes of 10 dpp MILI-deficient males

text: 10 dpp

text: mili knockout

characteristic: genotype

text: Mus musculus

text: testes

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

text: live

text: Generic

text: source: mixed developmental stages; description: small RNA sequencing, 15-30 nt size selection

text: mixed

text: Nematostella vectensis

text: Generic sample from Nematostella vectensis


Trichoplax

text: Gene Expression Omnibus

text: live

text: Generic

text: source: whole organisms; description: small RNA sequencing, 15-30 nt size selection

text: adult

text: Trichoplax adhaerens

text: Generic sample from Trichoplax adhaerens


NematostellaPeriodateMock

text: Gene Expression Omnibus

text: live

text: Generic

text: source: mixed developmental stages, RNA mock-treated; description: small RNA sequencing, 15-30 nt size selection

text: mixed

text: Nematostella vectensis

text: RNA mock

characteristic: treated


text: Gene Expression Omnibus

text: live

text: Generic

text: source: mixed developmental stages, RNA periodate-treated; description: small RNA sequencing, 15-30 nt size selection

text: mixed

characteristic: developmental stage

text: Nematostella vectensis

text: RNA periodate


AmphimedonPeriodateMock

text: Gene Expression Omnibus

text: live

text: Generic

text: source: adult tissue, RNA mock-treated; description: small RNA sequencing, 15-30 nt size selection

text: adult

text: Amphimedon queenslandica

text: Generic sample from Amphimedon queenslandica

text: RNA mock


text: Gene Expression Omnibus

text: live

text: Generic

text: source: adult tissue, RNA periodate-treated; description: small RNA sequencing, 15-30 nt size selection

text: adult

text: Amphimedon queenslandica

text: RNA periodate


text: Gene Expression Omnibus

text: live

text: Generic

text: source: mixed developmental stages; description: small RNA sequencing, 15-24 nt size selection

text: mixed

text: Nematostella vectensis


text: Gene Expression Omnibus

text: live

text: Generic

text: source: mixed developmental stages; description: small RNA sequencing, 25-30 nt size selection

text: mixed

text: Nematostella vectensis


text: Gene Expression Omnibus

text: live

text: Generic

text: source: adult tissue; description: small RNA sequencing, 15-30 nt size selection

text: adult

text: Amphimedon queenslandica


text: Gene Expression Omnibus

text: live

text: Generic

text: source: mixed embryos; description: small RNA sequencing, 15-30 nt size selection

text: mixed embryo

text: Amphimedon queenslandica


text: Gene Expression Omnibus

text: live

text: Generic

text: source: whole fly; description:

text: adult

text: mixed

characteristic: gender

text: Drosophila melanogaster

text: whole organism

text: Generic sample from Drosophila melanogaster


ago1-25 biological replicate 1

text: Gene Expression Omnibus

characteristic: INSDC first public

text: live

text: Generic

text: source: Inflorescence tissue: flower stages 1-12; description:

characteristic: ecotype

text: ago1-25 homozygous

text: Arabidopsis thaliana

text: inflorescence flower stages 1-12

text: Generic sample from Arabidopsis thaliana


ago1-25 biological replicate 2

text: Gene Expression Omnibus

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

text: Generic

text: ago1-25 homozygous

text: Arabidopsis thaliana

text: inflorescence flower stages 1-12


ago1-25 biological replicate 3

text: Gene Expression Omnibus

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

text: ago1-25 homozygous

text: Arabidopsis thaliana

text: inflorescence flower stages 1-12


Col-0 biological replicate 1

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission package

characteristic: SRA accession

text: wild type

text: Arabidopsis thaliana

text: inflorescence flower stages 1-12


Col-0 biological replicate 2

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: description

text: wild type

text: Arabidopsis thaliana

characteristic: organism

text: inflorescence flower stages 1-12


Col-0 biological replicate 3

characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

text: wild type

text: Arabidopsis thaliana

text: inflorescence flower stages 1-12

characteristic: title


cerebral cortex

text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

text: source: Human cerebral cortex tissue; description: RNA_seq

text: Homo sapiens

text: cerebral cortex

characteristic: tissue

text: Generic sample from Homo sapiens


heart

text: Gene Expression Omnibus

text: live

text: Generic

text: source: Human heart tissue; description: RNA_seq

text: Homo sapiens

text: heart

text: Generic sample from Homo sapiens


liver

text: Gene Expression Omnibus

text: live

text: Generic

text: source: Human liver tissue; description: RNA_seq

text: Homo sapiens

text: liver

text: Generic sample from Homo sapiens


lung

text: Gene Expression Omnibus

text: live

text: Generic

text: source: Human lung tissue; description: RNA_seq

text: Homo sapiens

text: lung

text: Generic sample from Homo sapiens


skeletal muscle

text: Gene Expression Omnibus

text: live

text: Generic

text: source: Human skeletal muscle tissue; description: RNA_seq

text: Homo sapiens

text: skeletal muscle

text: Generic sample from Homo sapiens


text: Gene Expression Omnibus

text: live

text: Generic

text: V6.5 embryonic stem cells

characteristic: cell type

characteristic: chip antibody

text: source: RNAP2 IP; description:

text: Mus musculus

characteristic: strain

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

characteristic: INSDC first public

text: live

text: Generic

text: 0-2hrs post-laying

characteristic: age

text: source: ; description: Small RNA sequencing

text: female

characteristic: gender

text: Drosophila melanogaster

text: Harwich

text: 24 degrees C

characteristic: temperature

text: embryo


text: Gene Expression Omnibus

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

text: 0-2hrs post-laying

text: female

text: Drosophila melanogaster

text: LK

text: 24 degrees C

text: embryo


text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: 0-2hrs post-laying

text: female

text: Drosophila melanogaster

text: 24 degrees C

text: embryo


characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

text: 0-2hrs post-laying

characteristic: description

text: female

text: Drosophila melanogaster

characteristic: organism

text: 21 degrees C

text: embryo


text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

text: 0-2hrs post-laying

text: female

text: Drosophila melanogaster

text: wK

text: 21 degrees C

text: embryo

characteristic: tissue

characteristic: title


text: Gene Expression Omnibus

text: live

text: Generic

text: 3-5 days old

text: female

text: Drosophila melanogaster

text: Harwich

characteristic: strain

text: 24 degrees C

text: ovary


text: Gene Expression Omnibus

characteristic: INSDC first public

text: live

text: Generic

text: 3-5 days old

text: female

text: progeny of a cross between strain LK (female) and Harwich (male)

characteristic: genotype

text: Drosophila melanogaster

text: 24 degrees C

text: ovary


text: Gene Expression Omnibus

text: live

text: Generic

text: 3-5 days old

characteristic: age

text: female

characteristic: gender

text: Drosophila melanogaster

text: LK

text: 24 degrees C

text: ovary


text: Gene Expression Omnibus

characteristic: INSDC last update

text: live

text: Generic

text: 3-5 days old

text: female

text: progeny of a cross between strain Na (female) and Harwich (male)

text: Drosophila melanogaster

text: 24 degrees C

characteristic: temperature

text: ovary


text: Gene Expression Omnibus

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

text: 3-5 days old

text: female

text: Drosophila melanogaster

text: 24 degrees C

text: ovary


text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

text: 3-5 days old

text: female

text: progeny of a cross between strain w1118 (female) and Harwich (male)

text: Drosophila melanogaster

text: 24 degrees C

text: ovary


characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: SRA accession

text: 3-5 days old

text: female

text: progeny of a cross between strain w1118 (female) and wK (male),

text: Drosophila melanogaster

text: 21 degrees C

text: ovary


text: Gene Expression Omnibus

text: live

text: Generic

text: 3-5 days old

characteristic: description

text: female

text: Drosophila melanogaster

characteristic: organism

text: 21 degrees C

text: ovary


text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

text: 3-5 days old

text: female

text: progeny of a cross between strain wK (female) and w1118 (male)

text: Drosophila melanogaster

text: 21 degrees C

text: ovary

characteristic: tissue


text: Gene Expression Omnibus

text: live

text: Generic

text: 3-5 days old

text: female

text: Drosophila melanogaster

text: wK

characteristic: strain

text: 21 degrees C

text: ovary

characteristic: title


GRO-seq rep 1

text: Gene Expression Omnibus

characteristic: INSDC first public

text: live

text: Generic

text: Br-dUTP

characteristic: antibody

characteristic: cell line

text: source: primary lung fibroblasts; description: Nuclear run on with 5-BromoUTP for immunopurification

text: Homo sapiens

text: Generic sample from Homo sapiens


GRO-seq rep2

text: Gene Expression Omnibus

characteristic: INSDC last update

text: live

text: Generic

text: Br-dUTP

text: Homo sapiens

text: Generic sample from Homo sapiens


DH 1_PPARg_Day0_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: PPARg

characteristic: chip antibody

text: source: 3T3L1 cells; description: Chromatin IP against PPARg

text: Mus musculus

text: DMI-induced adipogenesis, day0

characteristic: stage

text: Generic sample from Mus musculus


DH 10_RXR_Day3_3T3L1_ChIP-seq

text: Gene Expression Omnibus

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

text: RXR

text: source: 3T3L1 cells; description: Chromatin IP against RXR

text: Mus musculus

text: DMI-induced adipogenesis, day3

text: Generic sample from Mus musculus


DH 11_RXR_Day4_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

text: RXR

text: Mus musculus

text: DMI-induced adipogenesis, day4

text: Generic sample from Mus musculus


DH 12_RXR_Day6_3T3L1_ChIP-seq

characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: SRA accession

text: RXR

text: Mus musculus

text: DMI-induced adipogenesis, day6

text: Generic sample from Mus musculus


DH 13_RNAPII_Day0_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RNAPII

text: source: 3T3L1 cells; description: Chromatin IP against RNAPII

characteristic: description

text: Mus musculus

characteristic: organism

text: DMI-induced adipogenesis, day0

text: Generic sample from Mus musculus


DH 14_RNAPII_Day1_3T3L1_ChIP-seq

text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

text: RNAPII

text: Mus musculus

text: DMI-induced adipogenesis, day1

text: Generic sample from Mus musculus


DH 15_RNAPII_Day2_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RNAPII

text: Mus musculus

text: DMI-induced adipogenesis, day2

text: Generic sample from Mus musculus


DH 16_RNAPII_Day3_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RNAPII

text: Mus musculus

text: DMI-induced adipogenesis, day3

text: Generic sample from Mus musculus


DH 17_RNAPII_Day4_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RNAPII

text: Mus musculus

text: DMI-induced adipogenesis, day4

text: Generic sample from Mus musculus


DH 18_RNAPII_Day6_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RNAPII

text: Mus musculus

text: DMI-induced adipogenesis, day6

text: Generic sample from Mus musculus


DH 2_PPARg_Day1_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: PPARg

text: Mus musculus

text: DMI-induced adipogenesis, day1

text: Generic sample from Mus musculus


DH 3_PPARg_Day2_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: PPARg

text: Mus musculus

text: DMI-induced adipogenesis, day2

text: Generic sample from Mus musculus


DH 4_PPARg_Day3_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: PPARg

text: Mus musculus

text: DMI-induced adipogenesis, day3

text: Generic sample from Mus musculus


DH 5_PPARg_Day4_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: PPARg

text: Mus musculus

text: DMI-induced adipogenesis, day4

text: Generic sample from Mus musculus


DH 6_PPARg_Day6_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: PPARg

text: Mus musculus

text: DMI-induced adipogenesis, day6

text: Generic sample from Mus musculus


DH 7_RXR_Day0_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RXR

text: Mus musculus

text: DMI-induced adipogenesis, day0

text: Generic sample from Mus musculus


DH 8_RXR_Day1_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RXR

text: Mus musculus

text: DMI-induced adipogenesis, day1

text: Generic sample from Mus musculus


DH 9_RXR_Day2_3T3L1_ChIP-seq

text: Gene Expression Omnibus

text: live

text: Generic

text: RXR

text: Mus musculus

text: DMI-induced adipogenesis, day2

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

text: live

text: Generic

characteristic: cultivar

text: source: Medicago truncatula Gaertn. cv. Jemalong leaves and stem; description: Small RNA sequencing

text: 9 week seedlings

characteristic: developmental stage

text: Medicago truncatula

text: leaves and stem

characteristic: tissue

text: Generic sample from Medicago truncatula


text: Gene Expression Omnibus

characteristic: INSDC first public

text: live

text: Generic

text: source: Medicago truncatula Gaertn. cv. Jemalong leaves and stem; description:

text: 9 week seedlings

text: Medicago truncatula

text: leaves and stem

text: Generic sample from Medicago truncatula

characteristic: title


Isogenic wild-type Rep 1

text: Gene Expression Omnibus

characteristic: INSDC last update

text: live

text: Generic

text: source: S. cerevisiae control RNA; description: RNA-Seq

text: Isogenic

characteristic: genotype

text: Saccharomyces cerevisiae

text: FY23 x FY86 (Winston et al. 1995), carrying the auxotrophic markers his3-delta200, leu2-delta1, trp1-delta63, ura3-52.

characteristic: strain background

text: Generic sample from Saccharomyces cerevisiae


Isogenic wild-type Rep 2

text: Gene Expression Omnibus

characteristic: INSDC secondary accession

text: live

text: Generic

text: Isogenic

text: Saccharomyces cerevisiae


Isogenic wild-type Rep 3

text: Gene Expression Omnibus

text: live

characteristic: INSDC status

text: Generic

text: Isogenic

text: Saccharomyces cerevisiae


Isogenic wild-type Rep 4

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission model

text: Isogenic

text: Saccharomyces cerevisiae


rrp6 lsm1 pat1 Rep 1

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission package

text: source: S. cerevisiae experimental RNA; description: RNA-Seq

text: rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


rrp6 lsm1 pat1 Rep 2

characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

text: rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


rrp6 lsm1 pat1 Rep 3

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: SRA accession

text: rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


rrp6 lsm1 pat1 Rep 4

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: description

text: rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


ski2 ski8 rrp6 Rep 1

text: Gene Expression Omnibus

text: live

text: Generic

text: ski2 ski8 rrp6

text: Saccharomyces cerevisiae

characteristic: organism


ski2 ski8 rrp6 Rep 2

text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

text: ski2 ski8 rrp6

text: Saccharomyces cerevisiae


ski2 ski8 rrp6 Rep 3

text: Gene Expression Omnibus

text: live

text: Generic

text: ski2 ski8 rrp6

text: Saccharomyces cerevisiae


ski2 ski8 rrp6 Rep 4

text: Gene Expression Omnibus

text: live

text: Generic

text: ski2 ski8 rrp6

text: Saccharomyces cerevisiae


xrn1 rrp6 lsm1 pat1 Rep 1

text: Gene Expression Omnibus

text: live

text: Generic

text: xrn1 rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


xrn1 rrp6 lsm1 pat1 Rep 2

text: Gene Expression Omnibus

text: live

text: Generic

text: xrn1 rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


xrn1 rrp6 lsm1 pat1 Rep 3

text: Gene Expression Omnibus

text: live

text: Generic

text: xrn1 rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


xrn1 rrp6 lsm1 pat1 Rep 4

text: Gene Expression Omnibus

text: live

text: Generic

text: xrn1 rrp6 lsm1 pat1

text: Saccharomyces cerevisiae


Locusta migratoria gregarious sRNA

text: Gene Expression Omnibus

text: live

text: Generic

text: source: Locusta migratoria gregarious sRNA; description: small RNA sequencing

text: mixed

text: Locusta migratoria

text: gregarious

characteristic: phase

text: whole body except midgut

text: Generic sample from Locusta migratoria


Locusta migratoria solitary sRNA

text: Gene Expression Omnibus

text: live

text: Generic

text: source: Locusta migratoria solitary sRNA; description: small RNA sequencing

text: mixed

characteristic: developmental stage

text: Locusta migratoria

text: solitary

text: whole body except midgut

text: Generic sample from Locusta migratoria


Ciona Egg

text: Gene Expression Omnibus

text: live

text: Generic

text: Half Moon Bay, CA

characteristic: collection point

text: source: Unfertilized egg; description: small RNA sequenced from unfertilized egg

text: egg

text: Ciona intestinalis

text: Generic sample from Ciona intestinalis


Ciona Early Embryo

text: Gene Expression Omnibus

characteristic: INSDC first public

text: live

text: Generic

text: Half Moon Bay, CA

text: source: Early embryo; description: small RNA sequenced from early embryo

text: early embryo

text: Ciona intestinalis

text: Generic sample from Ciona intestinalis


Ciona Late Embryo

text: Gene Expression Omnibus

text: live

text: Generic

text: Half Moon Bay, CA

text: source: Late embryo; description: small RNA sequenced from late embryo

text: late embryo

text: Ciona intestinalis

text: Generic sample from Ciona intestinalis

characteristic: title


Ciona Adult

text: Gene Expression Omnibus

characteristic: INSDC last update

text: live

text: Generic

text: Half Moon Bay, CA

text: source: Adult; description: small RNA sequenced from adult

text: adult

text: Ciona intestinalis

text: Generic sample from Ciona intestinalis


Ciona larva miR309

text: Gene Expression Omnibus

text: live

text: Generic

text: Half Moon Bay, CA

text: source: larva; description: small RNA sequenced from larva expressing exogenis D.mel miR309 locus.

text: larva

text: expresses miR309 locus

characteristic: genotype

text: Ciona intestinalis

text: Generic sample from Ciona intestinalis


Drosophila Toll 10b mutant embryos

text: Gene Expression Omnibus

text: live

text: Generic

text: source: Toll10b mutant embryos; description: small RNA sequenced from Toll10b mutant embryos

text: embryo

text: toll10b mutant

text: Drosophila melanogaster

text: Generic sample from Drosophila melanogaster


Input

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa

characteristic: cell line

text: none, input

characteristic: chip antibody

text: source: HeLa cells; description: Input DNA, both 26 and 36bp reads, 5 lanes.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Gene Expression Omnibus

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

text: HeLa

text: source: HeLa cells; description: Chromatin IP using Oct1 antibodies, both 26 and 36bp reads, 3 lanes.

text: Homo sapiens

text: Generic sample from Homo sapiens

text: H2O2, 1 mM, 1 hour

characteristic: treatment


Small RNA from 12-24hr embryo

characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

text: source: Drosophila melanogaster 12-24hr embryo; description: Small RNA data. These data were produced for the modENCODE project (http://www.modencode.org/) and are unpublished at this time. In accordance with NHGRI guidelines for community resource projects (http://www.genome.gov/), there is no restriction on the use or analysis of these data. However, the end-user is asked to respect a nine-month moratorium (from the public submission date) before submitting manuscripts describing analysis of these data. If the data producer has published any description of these data before the nine-month period, the moratorium ceases to apply and this accession page will be updated to note the appropriate citation.

text: 12-24hr embryo

text: Drosophila melanogaster

text: Canton S

characteristic: strain


text: Gene Expression Omnibus

characteristic: INSDC center name

text: live

text: Generic

characteristic: SRA accession

text: source: yeast BY4741, 20 min amino acid starved; description: small RNA sequencing

characteristic: description

text: acute amino acid starvation

characteristic: growth

text: polysomal RNA

characteristic: molecule

text: Saccharomyces cerevisiae

characteristic: organism

text: BY4741 (leu2D0 ura3D0 met15D0 his3D1)


text: Gene Expression Omnibus

characteristic: INSDC first public

characteristic: INSDC last update

text: live

text: Generic

text: source: yeast BY4741, mid-exponential phase; description: small RNA sequencing

text: log-phase

text: polysomal RNA

text: Saccharomyces cerevisiae

text: BY4741 (leu2D0 ura3D0 met15D0 his3D1)

characteristic: title


text: Gene Expression Omnibus

text: live

text: Generic

text: acute amino acid starvation

text: polyA RNA

text: Saccharomyces cerevisiae

text: BY4741 (leu2D0 ura3D0 met15D0 his3D1)


text: Gene Expression Omnibus

text: live

text: Generic

text: log-phase

text: polyA RNA

text: Saccharomyces cerevisiae

text: BY4741 (leu2D0 ura3D0 met15D0 his3D1)


text: Harvard University

text: live

text: Generic

text: Fibroblasts derived from Personal Genome Project member PGP1.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard University

text: live

text: Generic

text: Fibroblasts derived from Personal Genome Project member PGP9.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard University

text: live

text: Generic

text: Induced pluripotent stem cells derived from PGP1 fibroblasts.

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard University

text: live

text: Generic

text: Homo sapiens

text: Generic sample from Homo sapiens


HMP087-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Streptococcus salivarius is an aerobic, gram-positive coccus. The primary component of the normal microbial flora in the human oral cavity, it has been shown to be one of the first bacteria colonizing dental plaque. It can be an opportunistic pathogen most commonly after surgery. This strain was isolated from human skin.

characteristic: estimated size

text: human-associated habitat [ENVO:00009003]

characteristic: feature

text: Level 2: High-Quality Draft102x;101

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: not determined

characteristic: misc_param: HMP body site

text: skin

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Streptococcus salivarius SK126

text: Streptococcus salivarius SK126

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

characteristic: sop

text: BEI HM-121

text: Homo sapiens

characteristic: specific host

text: MIGS Cultured Bacterial/Archaeal sample from Streptococcus salivarius SK126


characteristic: External Id

text: University of Washington, Department of Genome Sciences -Stamatoyannopoulos Lab

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: MATa ura3Δ0 leu2Δ0 his3Δ1 met15Δ0 bar1Δ::KanMX (C. Boone, University of Toronto; S288c background derived from BY4741) Yeast strain and culture conditions S.cerevisiae R276 (MATa ura3Δ0 leu2Δ0 his3Δ1 met15Δ0 bar1Δ::KanMX) (C. Boone, University of Toronto; S288c background derived from BY4741), was cultured overnight in 50 ml rich medium (YPD) at 30*C, diluted into 500 ml fresh YPD to an OD660 of ~0.8, and treated with yeast alpha-factor (Sigma-Aldrich) at a final concentration of 50 ng / ml. The culture was incubated at 30 *C with shaking for 3 hours (final OD660 ~ 1). After this treatment, approximately 90% of the cells had formed mating projections when checked by light microscopy.

characteristic: description

text: Saccharomyces cerevisiae

characteristic: organism

text: Generic sample from Saccharomyces cerevisiae

characteristic: title


text: Harvard University

text: live

text: Generic

text: Lymphocyte cell line derived from Personal Genome Project member PGP1 (Coriell GM20431).

text: Homo sapiens

text: Generic sample from Homo sapiens


text: Harvard University

text: live

text: Generic

text: Lymphocytes derived from Personal Genome Project member PGP9 (Coriell GM21833).

text: Homo sapiens

text: Generic sample from Homo sapiens


text: FGCZ

text: live

text: Generic

text: strain NM3104

text: Mycobacterium ulcerans

text: Generic sample from Mycobacterium ulcerans


text: FGCZ

text: live

text: Generic

text: strain Jp8756

text: Mycobacterium ulcerans


text: FGCZ

text: live

text: Generic

text: strain NM2002

text: Mycobacterium ulcerans


HMP095-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Peptostreptococcus anaerobius is an anaerobic, gram-positive coccus widely distributed in the normal human flora. It has been implicated in endocarditis, genitourinary and gastrointestinal tract infections. This strain was isolated from the human vaginal cavity.

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft41x;73

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: not determined

characteristic: misc_param: HMP body site

text: skin

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Peptostreptococcus anaerobius 653-L

text: Peptostreptococcus anaerobius 653-L

text: Reference Genome

text: not determined

text: BEI HM-135

text: Homo sapiens

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Peptostreptococcus anaerobius 653-L


Dmiranda

characteristic: External Id

text: Duke University

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: total genomic DNA from adult females from Mather 1993 strain of Drosophila miranda

characteristic: description

text: Drosophila miranda

text: Generic sample from Drosophila miranda


HMP064-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Rhodococcus erythropolis is an aerobic, gram-positive, nonmotile, catalase-positive actinomycete that form rods to extensively branched vegetative mycelium. It is an opportunistic pathogen in immunocompromised patients. This strain was isolated from human skin.

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft38x;124

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

text: biological product [ENVO:02000043]

text: not determined

text: skin

text: not determined

text: not determined

text: Rhodococcus erythropolis SK121

characteristic: organism

text: Rhodococcus erythropolis SK121

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

characteristic: sop

text: BEI HM-116

text: Homo sapiens

characteristic: specific host

text: MIGS Cultured Bacterial/Archaeal sample from Rhodococcus erythropolis SK121

characteristic: title


Reference Library Sample

characteristic: External Id

text: CSIRO Ecosystem Sciences

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

text: Four replicate core samples were collected from each of 3 sites within each of 3 Reference locations in Sydney Harbour (Boronia Park, Tambourine Bay and Woodforde Bay). Each replicate sample was then sieved and separated into a macro(>500um), meio (500-40um) and micro (<40um)sieve-size fractions. 9 barcodes were used to identify pooled 18S rDNA sequences originating from 12 like-sieve-size fraction samples obtained from the 3 reference locations and 3 sieve-size fraction groups.

text: uncultured eukaryote

text: Generic sample from uncultured eukaryote


Impacted Library Sample

text: CSIRO Ecosystem Sciences

text: live

text: Generic

characteristic: SRA accession

text: Four replicate core samples were collected from each of 3 sites within each of 3 Impacted locations in Sydney Harbour (Iron Cove, Five Dock Bay, Hen and Chicken Bay). Each replicate sample was then sieved and separated into a macro(>500um), meio (500-40um) and micro (<40um)sieve-size fractions. 9 barcodes were used to identify pooled 18S rDNA sequences originating from 12 like-sieve-size fraction samples obtained from the 3 Impacted locations and 3 sieve-size fraction groups.

characteristic: description

text: uncultured eukaryote


text: Stowers Institute For Medical Research

text: live

text: Generic

text: WT Fly

text: Drosophila melanogaster

text: Generic sample from Drosophila melanogaster


text: Stowers Institute For Medical Research

text: live

text: Generic

text: EMS Mutated Fly

text: Drosophila melanogaster


text: BC Cancer Agency Michael Smith Genome Sciences Centre

text: live

text: Generic

text: ChIP DNA prepared from pooled sample by collaborator. Replicate to CH017 (MM0271).

text: genomic DNA

characteristic: molecule

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: genomic DNA

text: Mus musculus

characteristic: organism

text: Generic sample from Mus musculus


text: live

text: Generic

text: Histone H3 (trimethyl K4) ChIP DNA

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: Histone H3 (monomethyl K4)

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: Islets for H3K4me1 ChIP experiment and TS library construction.

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: Islets for H3K4me3 ChIP experiment and TS library construction.

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: Islets for Pdx1 ChIP experiment and TS library construction.

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: whole liver from non-pregnant female C57 strain

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: tissue from 8 adult mice

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


text: live

text: Generic

text: 2 tubes,left liver lobe (PH022-1) and right liver lobe (PH022-2), ~0.1 g per tube

text: genomic DNA

text: Mus musculus

text: Generic sample from Mus musculus


HeLa S3 STAT1 ChIP IFNgamma_1

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

characteristic: cell line

characteristic: chip antibody

text: source: HeLa S3; description: HS0148

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFNgamma stimulated

characteristic: treatment


HeLa S3 STAT1 ChIP unstimulated_4

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0151

text: Homo sapiens

text: Generic sample from Homo sapiens

text: unstimulated


HeLa S3 STAT1 ChIP unstimulated_5

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0152

text: Homo sapiens

text: Generic sample from Homo sapiens

text: unstimulated


HeLa S3 STAT1 ChIP unstimulated_6

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0152

text: Homo sapiens

text: Generic sample from Homo sapiens

text: unstimulated


HeLa S3 STAT1 ChIP unstimulated_7

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0153

text: Homo sapiens

text: Generic sample from Homo sapiens

text: unstimulated


HeLa S3 STAT1 ChIP IFNgamma_2

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0148

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFNgamma stimulated


HeLa S3 STAT1 ChIP IFNgamma_3

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0148

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFNgamma stimulated


HeLa S3 STAT1 ChIP IFNgamma_4

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0149

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFNgamma stimulated


HeLa S3 STAT1 ChIP IFNgamma_5

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0150

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFNgamma stimulated


HeLa S3 STAT1 ChIP IFNgamma_6

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0150

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFNgamma stimulated


HeLa S3 STAT1 ChIP unstimulated_1

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0151

text: Homo sapiens

text: Generic sample from Homo sapiens

text: unstimulated


HeLa S3 STAT1 ChIP unstimulated_2

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0151

text: Homo sapiens

text: Generic sample from Homo sapiens

text: unstimulated


HeLa S3 STAT1 ChIP unstimulated_3

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3

text: source: HeLa S3; description: HS0151

text: Homo sapiens

text: Generic sample from Homo sapiens

text: unstimulated


HMP098-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Lactobacillus gasseri appears to be the main species of lactobacilli that inhabits the human gastrointestinal tract. It is a rod-shaped, gram-positive anaerobe. Of the lactobacilli, it is the most amenable to DNA introduction and manipulation which should prove useful in the functional genomic analysis of this species. It has been shown to be an effective probiotic in suppressing Helicobacter pylori infections in humans. This strain was isolated from the human vaginal cavity.

characteristic: estimated size

text: human-associated habitat [ENVO:00009003]

characteristic: feature

text: Level 2: High-Quality Draft128x;;70

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Vaginal

characteristic: misc_param: HMP body site

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Lactobacillus gasseri 202-4

text: Lactobacillus gasseri 202-4

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

characteristic: sop

text: BEI HM-801

text: Homo sapiens

characteristic: specific host

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Lactobacillus gasseri 202-4


characteristic: External Id

text: Max Planck Institute for Molecular Genetics

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Transcriptom of BY4741 S.cerevisiae strain

characteristic: description

text: Saccharomyces cerevisiae

characteristic: organism

characteristic: strrain

text: Generic sample from Saccharomyces cerevisiae

characteristic: title


name: Phanerochaete chrysosporium RNA sample 1

text: Clemson University

text: live

text: Generic

text: Phanerodontia chrysosporium

text: Generic sample from Phanerochaete chrysosporium


text: University of South Florida, College of Marine Science

text: live

text: Generic

text: 100L of reclaimed water sample were collected at a wastewater treatment plant in Florida. Virus particles were concentrated from 100 l to less than 1 L using tangential flow filtration (TFF). Viral concentrates were purified through CsCl gradients and nuclease treatment prior to DNA extraction for library preparation.

text: freshwater metagenome

text: Generic sample from Viruses


text: live

text: Generic

text: 100L of reclaimed water sample were collected at a wastewater treatment plant in Florida. Virus particles were concentrated from 100 L to less than 1 L using tangential flow filtration (TFF). Viral concentrates were purified through CsCl gradients and nuclease treatment prior to DNA and RNA extraction for library preparation.

text: freshwater metagenome

text: Generic sample from Viruses


text: live

text: Generic

text: 100L of reclaimed water sample were collected at a plant nursery in Florida. Virus particles were concentrated from 100 L to less than 1 L using tangential flow filtration (TFF). Viral concentrates were purified through CsCl gradients and nuclease treatment prior to DNA and RNA extraction for library preparation.

text: freshwater metagenome

text: Generic sample from Viruses


text: live

text: Generic

text: 50L of reclaimed water sample were collected at a public park in Florida. Virus particles were concentrated from 50 L to less than 1 L using tangential flow filtration (TFF). Viral concentrates were purified through CsCl gradients and nuclease treatment prior to DNA and RNA extraction for library preparation.

text: freshwater metagenome

text: Generic sample from Viruses


text: live

text: Generic

text: 100L of potable water were collected at a plant nursery in Florida. Virus particles were concentrated from 100 L to less than 1 L using tangential flow filtration (TFF). Viral concentrates were purified through CsCl gradients and nuclease treatment prior to DNA and RNA extraction for library preparation.

text: freshwater metagenome

text: Generic sample from Viruses


HMP093-454 Sample

text: J. Craig Venter Institute

text: live

text: MIGS.ba

text: not determined

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Porphyromonas uenonis is an aerobic, gram-negative rod. It is a low virulence commensal member of the the human gut microbial flora. It is often found as part of a mixed flora in various infections which apparently originate from the intestinal tract. This strain was isolated from the human vaginal cavity.

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft52x;250

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Vaginal

characteristic: misc_param: HMP body site

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Porphyromonas uenonis 60-3

text: Porphyromonas uenonis 60-3

characteristic: project name

text: Reference Genome

text: not determined

characteristic: sequencing method

text: BEI HM-130

text: Homo sapiens

text: MIGS Cultured Bacterial/Archaeal sample from Porphyromonas uenonis 60-3


characteristic: External Id

text: Baylor College of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Newbler v. 2.0-01162009

text: terrestrial biome [ENVO:00000446]

text: not determined

text: Staphylococcus epidermidis W23144

characteristic: description

text: Homo sapiens-associated habitat [ENVO:00009003]

text: Level 2: High-Quality Draft68.31x;192

text: not determined

text: not determined

text: not determined

text: biological product [ENVO:02000043]

text: not determined

text: skin

text: not determined

text: not determined

text: Staphylococcus epidermidis W23144

characteristic: organism

text: Staphylococcus epidermidis W23144

text: Reference Genome

text: not determined

text: 454, Illumina, Sanger

characteristic: sop

text: BEI HM-142

text: Homo sapiens

characteristic: specific host

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Staphylococcus epidermidis W23144


text: Baylor College of Medicine

text: live

text: MIGS.ba

text: Newbler v. 2.0-011609

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Staphylococcus epidermidis M23864:W1

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft19.15x;78

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: not determined

characteristic: misc_param: HMP body site

text: skin

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Staphylococcus caprae M23864:W1

text: Staphylococcus epidermidis M23864:W1

text: Reference Genome

text: not determined

text: 454-GS-FLX, Illumina

text: BEI HM-143

text: Homo sapiens

text: Staphylococcus epidermidis M23864:W1

characteristic: teleomorph

text: MIGS Cultured Bacterial/Archaeal sample from Staphylococcus epidermidis M23864:W1

characteristic: title


characteristic: External Id

text: Baylor College of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Newbler v. 1.1.03.24

text: terrestrial biome [ENVO:00000446]

text: not determined

text: Streptococcus pneumonia 19A

characteristic: description

text: Level 6: Finished89.09x

text: not determined

text: not determined

text: not determined

text: biological product [ENVO:02000043]

text: Respiratory tract

text: airways

text: not determined

text: not determined

text: Streptococcus pneumoniae TCH8431/19A

characteristic: organism

text: Streptococcus pneumoniae TCH8431/19A

characteristic: project name

text: Reference Genome

text: not determined

text: 454-GS-FLX, Sanger

characteristic: sequencing method

characteristic: sop

text: BEI HM-145

text: Homo sapiens

characteristic: specific host

text: MIGS Cultured Bacterial/Archaeal sample from Streptococcus pneumoniae TCH8431/19A


ZACS META

text: Colorado School of Mines

text: live

text: Generic

text: Metagenomic library from the surface filter of El Zacaton

text: freshwater metagenome

text: Generic sample from freshwater metagenome


Azufrosa

text: Colorado School of Mines

text: live

text: Generic

text: Biomat and water column samples from Sistema Zacaton

text: aquatic metagenome

text: Generic sample from Bacteria


text: Baylor College of Medicine

text: live

text: MIGS.ba

text: Newbler v. 1.1.03.24

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

characteristic: culture-collection

text: Corynebacterium accolens ATCC49725

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft35.35x;64

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Respiratory tract

characteristic: misc_param: HMP body site

text: airways

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Corynebacterium accolens ATCC 49725

text: Corynebacterium accolens ATCC 49725

text: Reference Genome

text: not determined

text: 454-GS-FLX, Illumina, Sanger

text: ATCC 49725

text: Homo sapiens

text: ATCC 49725

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Corynebacterium accolens ATCC 49725

text: type strain of Corynebacterium accolens

characteristic: type material


characteristic: External Id

text: Baylor College of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Newbler v. 2.0.0-01162009

text: not determined

text: Enterococcus faecalis HH22

characteristic: description

text: terrestrial biome [ENVO:00000446]

characteristic: environment (biome)

text: human-associated habitat [ENVO:00009003]

characteristic: environment (feature)

text: biological product [ENVO:02000043]

characteristic: environment (material)

text: Level 2: High-Quality Draft23.38x;307

text: not determined

characteristic: investigation type

text: not determined

text: not determined

text: Urinary tract

text: not determined

text: not determined

text: Enterococcus faecalis EnGen0297

characteristic: organism

text: Enterococcus faecalis HH22

characteristic: project name

text: Reference Genome

text: not determined

text: 454-GS-FLX, Illumina, Sanger

characteristic: sequencing method

characteristic: sop

text: BEI HM-200

text: Homo sapiens

characteristic: specific host

text: MIGS Cultured Bacterial/Archaeal sample from Enterococcus faecalis HH22

characteristic: title


characteristic: External Id

text: Max Planck Institute for Molecular Genetics

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: live

text: Generic

text: expression profile of whole brain mRNA from C57Bl/6J mouse female

text: Mus musculus

characteristic: strain

text: Generic sample from Mus musculus


Lactobacillus crispatus JV-V01

text: Baylor College of Medicine

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Newbler v. 1.1.03.24

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: collection date

text: Lactobacillus crispatus JV-V01 genomic sample

characteristic: estimated size

characteristic: feature

text: Level 2: High-Quality Draft60.26x;234

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Vaginal

characteristic: misc_param: HMP body site

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Lactobacillus crispatus JV-V01

text: Lactobacillus crispatus JV-V01

text: Reference Genome

text: not determined

text: BEI HM-103

text: Homo sapiens

text: MIGS Cultured Bacterial/Archaeal sample from Lactobacillus crispatus JV-V01


HT-29 cells small RNAs sample 1 -- BAC

characteristic: External Id

text: University of Tokyo, Graduate School of Frontier Science

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

text: Homo sapiens

characteristic: organism

text: Generic sample from Homo sapiens

characteristic: title


name: HT-29 cells small RNAs sample 2 -- small RNAs

text: live

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Homo sapiens

text: Generic sample from Homo sapiens


DM5ESEm -- BAC

text: live

text: Generic

text: Drosophila melanogaster

text: Generic sample from Drosophila melanogaster


text: Baylor College of Medicine

text: live

text: MIGS.ba

text: Newbler v. 1.1.03.24

characteristic: assembly

text: not determined

characteristic: collection date

text: Enterococcus faecium DO

characteristic: description

text: terrestrial biome [ENVO:00000446]

characteristic: environment (biome)

characteristic: environment (feature)

text: biological product [ENVO:02000043]

characteristic: environment (material)

characteristic: estimated size

text: Level 1: Standard Draft19.18x

characteristic: finishing strategy (depth of coverage)

text: USA: University of Texas Medical School

characteristic: geo loc name

characteristic: host taxid

characteristic: investigation type

text: not determined

text: not determined

text: Blood

text: other

text: not determined

text: not determined

text: Enterococcus faecium DO

text: Enterococcus faecium DO

characteristic: project name

text: Reference Genome

text: not determined

text: Illumina, 454-GS-FLX, Sanger

characteristic: sequencing method

characteristic: sop

text: ATCC BAA-472

text: Homo sapiens

characteristic: specific host

text: DO

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Enterococcus faecium DO


characteristic: External Id

text: Baylor College of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Newbler v. 1.1.03.24

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

text: Enterococcus faecium TX1330

text: Homo sapiens-associated habitat [ENVO:00009003]

characteristic: feature

text: Level 2: High-Quality Draft74.67x;156

text: not determined

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: not determined

characteristic: misc_param: HMP body site

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Enterococcus faecium TX1330

characteristic: organism

text: Enterococcus faecium TX1330

text: Reference Genome

text: not determined

text: 454, Sanger, Illumina

text: BEI HM-204

text: Homo sapiens

text: MIGS Cultured Bacterial/Archaeal sample from Enterococcus faecium TX1330

characteristic: title


characteristic: External Id

text: Duke University

characteristic: INSDC center name

text: live

text: Generic

text: Adult male and female Megaselia scalaris from an isofemale line collected in Durham, North Carolina, USA

characteristic: description

text: Megaselia scalaris

text: Generic sample from Megaselia scalaris


text: Baylor College of Medicine

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

text: MIGS.ba

text: Newbler v. 1.1.03.24

characteristic: assembly

text: terrestrial biome [ENVO:00000446]

text: not determined

characteristic: collection date

text: Oribacterium sinus F0268

characteristic: estimated size

text: Level 2: High-Quality Draft19.32x;254

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

text: not determined

text: not determined

text: biological product [ENVO:02000043]

text: not determined

text: oral

text: not determined

text: not determined

text: Oribacterium sinus F0268

text: Oribacterium sinus F0268

characteristic: project name

text: Reference Genome

text: not determined

text: 454-GS-FLX, Sanger

characteristic: sequencing method

characteristic: sop

text: BEI HM-13

text: Homo sapiens

characteristic: specific host

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Oribacterium sinus F0268


characteristic: External Id

text: Baylor College of Medicine

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Newbler v. 1.1.03.24

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

text: Lactobacillus reuteri MM2-3

characteristic: feature

text: Level 2: High-Quality Draft70.09x;167

text: not determined

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: not determined

characteristic: misc_param: HMP body site

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

text: Limosilactobacillus reuteri MM2-3

characteristic: organism

text: Lactobacillus reuteri MM2-3

text: Reference Genome

text: not determined

text: 454-GS-FLX, Sanger

text: ATCC PTA-4659

text: Homo sapiens

text: MIGS Cultured Bacterial/Archaeal sample from Lactobacillus reuteri MM2-3

characteristic: title


text: Baylor College of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

text: MIGS.ba

text: Newbler v. 2.0-01162009

characteristic: assembly

text: not determined

characteristic: collection date

text: Enterococcus faecalis TX0104

characteristic: description

text: terrestrial biome [ENVO:00000446]

characteristic: environment (biome)

characteristic: environment (feature)

text: biological product [ENVO:02000043]

characteristic: environment (material)

characteristic: estimated size

text: Level 2: High-Quality Draft23.38x;237

characteristic: finishing strategy (depth of coverage)

text: not determined

characteristic: geo loc name

characteristic: host taxid

characteristic: investigation type

text: not determined

text: not determined

text: not determined

text: not determined

text: not determined

text: Enterococcus faecalis TX0104

text: Enterococcus faecalis TX0104

characteristic: project name

text: Reference Genome

text: not determined

text: 454-GS-FLX, Sanger, Illumina

characteristic: sequencing method

characteristic: sop

text: BEI HM-201

text: Homo sapiens

text: MIGS Cultured Bacterial/Archaeal sample from Enterococcus faecalis TX0104


characteristic: External Id

text: Baylor College of Medicine

characteristic: INSDC center name

characteristic: INSDC first public

text: live

characteristic: INSDC status

text: MIGS.ba

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: Newbler v. 1.1.03.24

text: terrestrial biome [ENVO:00000446]

characteristic: biome

text: not determined

characteristic: culture-collection

characteristic: feature

text: Level 2: High-Quality Draft24.09x;122

text: not determined

text: not determined

text: not determined

characteristic: lat lon

text: biological product [ENVO:02000043]

characteristic: material

text: Vaginal

characteristic: misc_param: HMP body site

characteristic: misc_param: HMP supersite

text: not determined

characteristic: nucleic acid extraction

text: not determined

characteristic: organism

text: Reference Genome

text: not determined

text: 454-GS-FLX, Illumina, Sanger

text: ATCC 33300, DSM 2582

text: Homo sapiens

characteristic: specific host

text: ATCC 33300

characteristic: strain

text: MIGS Cultured Bacterial/Archaeal sample from Sphingobacterium spiritivorum ATCC 33300

characteristic: title


DM5ESEm -- Embryo

characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

text: Generic

text: Drosophila melanogaster


embryo hermaphrodites

text: Gene Expression Omnibus

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: source: Embryo_hermaphrodites; description: miRNA profiling

characteristic: description

text: Embryo

characteristic: developmental stage

text: hermaphrodite

characteristic: gender

characteristic: growth condition

text: Caenorhabditis elegans

text: wild-type N2

text: Generic sample from Caenorhabditis elegans


mid-L1 hermaphrodites

text: Gene Expression Omnibus

text: live

text: Generic

text: source: mid-L1_hermaphrodites; description: miRNA profiling

text: hermaphrodite

text: Caenorhabditis elegans

characteristic: organism

text: wild-type N2


mid-L2 hermaphrodites

text: Gene Expression Omnibus

text: live

text: Generic

text: source: mid-L2 hermaphrodites; description: miRNA profiling

text: hermaphrodite

text: Caenorhabditis elegans

text: wild-type N2


mid-L3 hermaphrodites

text: Gene Expression Omnibus

text: live

text: Generic

text: source: mid-L3_hermaphrodites; description: miRNA profiling

text: hermaphrodite

text: Caenorhabditis elegans

text: wild-type N2


mid-L4 hermaphrodites

text: Gene Expression Omnibus

text: live

text: Generic

text: source: mid-L4 hermaphrodites; description: miRNA profiling

text: hermaphrodite

text: Caenorhabditis elegans

text: wild-type N2


young adult hermaphrodites

text: Gene Expression Omnibus

text: live

text: Generic

text: source: young adult hermaphrodites; description: miRNA profiling

text: young adult

text: hermaphrodite

text: Caenorhabditis elegans

text: wild-type N2


young adult males

text: Gene Expression Omnibus

text: live

text: Generic

text: source: young adult_males; description: miRNA profiling

text: young adult

text: male

text: Caenorhabditis elegans

text: dpy-28(y1); him-8(e1489)


young adult spe-9 hermaphrodites

text: Gene Expression Omnibus

text: live

text: Generic

text: source: young adult spe-9; description: miRNA profiling

text: young adult

text: hermaphrodite

text: Caenorhabditis elegans


CD4+ T cell CTCF

text: Gene Expression Omnibus

text: live

text: Generic

text: primary CD4+ T cells

characteristic: cell type

text: CTCF

characteristic: chip antibody

text: source: CD4+ T cells; description: ChIP-seq

text: Homo sapiens

text: Generic sample from Homo sapiens


CD4+ T cell H3K27me3

text: Gene Expression Omnibus

text: live

text: Generic

text: primary CD4+ T cells

text: Homo sapiens

text: Generic sample from Homo sapiens

characteristic: title


HeLa CTCF

characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa

characteristic: cell line

text: CTCF

text: source: HeLa cells; description: ChIP-seq

text: Homo sapiens

text: Generic sample from Homo sapiens


HeLa H3K27me3

text: Gene Expression Omnibus

characteristic: INSDC center name

characteristic: INSDC first public

text: live

text: Generic

text: HeLa

text: Homo sapiens

text: Generic sample from Homo sapiens


Jurkat CTCF

text: Gene Expression Omnibus

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

text: Generic

text: Jurkat

text: CTCF

text: source: Jurkat cells; description: ChIP-seq

text: Homo sapiens

text: Generic sample from Homo sapiens


IFN_gamma_STAT1_ChIP-Seq in HeLa S3

text: Gene Expression Omnibus

text: live

characteristic: INSDC status

text: Generic

characteristic: NCBI submission model

text: HeLa S3 (ATCC/Snyder Lab)

text: source: IFN gamma stimulated HeLa S3 cells; description: ChIP-seq

text: Suspension

characteristic: growth properties

text: epithelial

characteristic: morphology

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFN gamma

characteristic: treatment


IFN_gamma_Input_DNA in HeLa S3

text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission package

characteristic: SRA accession

text: HeLa S3 (ATCC/Snyder Lab)

text: none, input DNA

characteristic: description

text: Suspension

text: epithelial

text: Homo sapiens

text: Generic sample from Homo sapiens

text: IFN gamma


PolII_ChIP-Seq in HeLa S3

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3 (ATCC/Snyder Lab)

text: Normal

characteristic: cellular condition

text: Pol II (Covance 8WG16)

text: source: HeLa S3 cells; description: ChIP-seq

text: Suspension

text: epithelial

text: Homo sapiens

characteristic: organism

text: Generic sample from Homo sapiens


Input_DNA in HeLa S3

text: Gene Expression Omnibus

text: live

text: Generic

text: HeLa S3 (ATCC/Snyder Lab)

text: Normal

text: none, input DNA

characteristic: chip antibody

text: Suspension

text: epithelial

text: Homo sapiens

text: Generic sample from Homo sapiens

characteristic: title


MEFF H3K27me3 ChIP-seq

characteristic: External Id

text: Gene Expression Omnibus

text: live

text: Generic

text: MEFF

characteristic: cell line

text: source: Mouse embryonic fibroblasts; description: ChIP-seq

text: Thp/+

characteristic: genotype

text: Mus musculus

text: FVBN

characteristic: strain

text: embryo

characteristic: tissue

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

characteristic: INSDC secondary accession

text: live

characteristic: INSDC status

text: Generic

text: Naive CD4+ T cells

characteristic: cell type

text: Mus musculus

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

text: live

text: Generic

characteristic: NCBI submission model

characteristic: NCBI submission package

characteristic: SRA accession

text: iTreg CD4+ T cells

text: Mus musculus

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

text: live

text: Generic

text: nTreg CD4+ T cells

characteristic: description

text: Mus musculus

characteristic: organism

text: Generic sample from Mus musculus


text: Gene Expression Omnibus

text: live

text: Generic

text: Th1 CD4+ T cells

characteristic: chip antibody

text: Mus musculus

text: Generic sample from Mus musculus

characteristic: title