2025-10-30
ENA first public
ERC000011
ENA-CHECKLIST
UCSDMI
INSDC center name
public
INSDC status
ERS27120076
SRA accession
not applicable
anonymized_name
FALSE
bad_rat
CGTGTTATGTGG
barcode_16s
Batch22
batch
not applicable
batchnumber
B22-13
cage
3
cage_density
box8
ccc_box
not provided
cecum_box
UCSDMI
center_name
UCSDMI
center_name_16s
Heterogeneous Stock rats
center_project_name
Heterogeneous Stock rats
center_project_name_16s
00077E982C
clean_ids_16s
not provided
collection date
not provided
collection_date
not provided
collection_timestamp
brownhood
color
11479_prep_6462_20191016-101040_11479.00077E982C
compound_name_16s
USA
country
crf_MI_box11
crf_mi_box
not provided
crf_ny_box
HSF02620
dam
NA
datetime_dissected
not provided
datetime_fasting_started
not provided
datetime_glucose_measured_at_dissection
175553
deblur_biom_id
175553.11479.00077E982C
deblur_rooname
not provided
delay_discounting_box
cecum; Heterogeneous Stock rat; University of Michigan
description
not provided
dna_extracted
2017-12-12
dob
2018-01-03
dow
NA
duplicated_16s
LC
earpunchlcn
840
elevation
Host-associated
empo_1
Animal (non-saline)
empo_2
Animal proximal gut (non-saline)
empo_3
Animal proximal gut (non-saline)
empo_4
urban biome
env_biome
animal-associated habitat
env_feature
cecum
env_material
host-associated
env_package
Carmen_KF3
extraction_robot_16s
160033450
extractionkit_lot_16s
70124.11479.00077E982C
full_ids_16s
82
generation
TRUE
genotyped
USA:MI:Ann Arbor
geo_loc_name
USA
geographic location (country and/or sea)
104
glucose_at_dissection
128
glucose_at_weaning
mg_dl
glucose_units
no
has_dupl_16s
92.84444
host_age
days
host_age_units
UBERON:gastro-intestinal system
host_body_habitat
UBERON:lumen of gut
host_body_product
UBERON:cecum
host_body_site
rat
host_common_name
not collected
host_height
not applicable
host_height_units
not provided
host_life_stage
Rattus norvegicus
host_scientific_name
00077E982C
host_subject_id
10116
host_taxid
159
host_weight
g
host_weight_units
YES
in_16s_prep
Illumina MiSeq
instrument_model
Illumina MiSeq
instrument_model_16s
42.28
latitude
cm
length_units
34
length_w_tail
18
length_wo_tail
Illumina EMP protocol 515fbc, 806r amplification of 16S rRNA V4
library_construction_protocol
Illumina EMP protocol 515fbc, 806r amplification of 16S rRNA V4
library_construction_protocol_16s
GT
linker_16s
2
litternumber
11
littersize
not provided
locomotor_testing_box
-83.74
longitude
not applicable
losttransp
453873
mastermix_lot_16s
NO
metabolomicsed
19948
nb_seqs_16s
not provided
notes_cecum
box7
novelty_seeking_box
rat gut metagenome
organism
00077E982C
orig_name_16s
70124
otu_biom_id_16s
box11
pavca_mi_box
not provided
pavca_ny_box
FWD:GTGYCAGCMGCCGCGGTAA; REV:GGACTACNVGGGTWTCTAAT
pcr_primers
FWD:GTGYCAGCMGCCGCGGTAA; REV:GGACTACNVGGGTWTCTAAT
pcr_primers_16s
MI
phenotyping_center
Baud lab, Centre for Genomic Regulation, Barcelona, Spain
physical_specimen_location
not provided
physical_specimen_remaining
Illumina
platform
Illumina
platform_16s
GT
plating_16s
11479_prep_6462_20191016-101040
prep_name_16s
GTGTGYCAGCMGCCGCGGTAA
primer_16s
101918
primer_date
101918
primer_date_16s
7
primer_plate
7
primer_plate_16s
ROBE
processing_robot_16s
Palmer Rats Winter2018
project_name_16s
6462
qiita_prep_id_16s
not provided
reaction_time_box
UCSDMI
run_center
UCSDMI
run_center_16s
3/28/19
run_date
3/28/19
run_date_16s
Palmer_Rats_Winter_2018_7-8_Perez_Lopez_1_AGP_259-261_S1_L001
run_prefix_16s
190328_M05314_0162_000000000-BLGCP
runid_16s
11479.00077E982C
sample_name_16s
00077E982C
sample_name_in_metadata_16s
not applicable
sample_name_metabo
not applicable
sample_name_mg
Palmer_Rats_Winter2018_Plate_7
sample_plate_16s
cecum content
sample_type
rat gut metagenome
scientific_name
YES
sequenced_16s
NO
sequenced_mg
Sequencing by synthesis
sequencing_meth_16s
Sequencing by synthesis
sequencing_method
F
sex
2018-01-23
shipment_to_phenotyping_center_date
HSM02649
sire
not provided
social_reinforcement_box
MI
study
16S rRNA
target_gene
16S rRNA
target_gene_16s
V4
target_subfragment
V4
target_subfragment_16s
not provided
time_elapsed_removefood_dissection
not provided
time_elapsed_removefood_measure
11479.00077E982C
title
Genome-wide mapping of gene-microbiome interaction: implication in behavior and effect on microbiome and metabolome
title
216152F
tm1000_8_tool_16s
208484Z
tm300_8_tool_16s
108364Z
tm50_8_tool_16s
not provided
tn_cage
not provided
tn_track
00077E982C
tube_id
FALSE
unknown_rat
2003606
water_lot_16s
17-135-647
weaning_cagecard
3-D7
weaning_cagelocation
630
weaning_roomnumber
MI-B22-5
weaning_shippingbox
F
weaning_suite
45
weight_at_weaning
Palmer_Rats_Winter2018_Plate_7_00077E982C_F9
well_description_16s
F9
well_id_16s