NA
Additional.info.affecting.microbiome..M3...Biospecimen.
More than 200000
Annual.household.income..Biospecimen.
True
Anti.infective..Biospecimen.
NA
Autism.spectrum.disorder..Biospecimen.
0.115
Average.conc..Extract.
NA
Batch..OmicsFileSet.
False
Behavior.video.submitted..M3...Biospecimen.
B18012443
Biospecimen.Barcode
2018-04-11T00:00:00
Biospecimen.Date.Collected
Matched with metadata entry:ASD_T1_Family_131
Biospecimen.Description
152944
Biospecimen.ID
M3_131_P1_A_V1
Biospecimen.Name
0.18
Biospecimen.consumption
g
Biospecimen.consumption.unit
SBIR BOX 32_D2
Biospecimen.location..Extract.
NA
Biospecimen.mass
NA
Biospecimen.mass.unit
False
Born.by.caesarian.section..Biospecimen.
False
Born.prematurely..Biospecimen.
NA
Bread..consumption.frequency...longitudinal...Biospecimen.
Uncertain about behavioral development
Childhood.behavioral.development.finding..Biospecimen.
0.11
Conc1..Extract.
0.12
Conc2..Extract.
NA
Constipation..Biospecimen.
Able to have conversation
Conversation.ability..Biospecimen.
Daily
Dairy..consumption.frequency...Biospecimen.
NA
Dairy..consumption.frequency...longitudinal...Biospecimen.
NA
Diarrhea..Biospecimen.
Mother's milk diet
Diet.during.infancy..Biospecimen.
NA
Dietary.fat.and.oil..consumption.frequency...longitudinal...Biospecimen.
Omnivorous diet
Dietary.regime..Biospecimen.
False
Dietary.restrictions..M3...Biospecimen.
NA
Dietary.restrictions.details..M3...Biospecimen.
NA
Dietary.supplement..Biospecimen.
False
Environmental.tobacco.smoke.exposure..Biospecimen.
NA
Explain.how.you.collected.stool.sample..M3...Biospecimen.
SAMN31514901
External Id
Z19014207
Extract.Barcode
2019-03-25T00:00:00
Extract.Date.Collected
199931
Extract.ID
M3_131_P1_A_V1 (Extract)
Extract.Name
23
Extract.concentration
ng/microliter
Extract.concentration.unit
5
Extract.consumption
microliter
Extract.consumption.unit
30
Extract.volume
uL
Extract.volume.unit
DNA extraction using KingFisher and Zymo DNA clean up kit
Extraction.Protocol.description
glass
Extraction.Protocol.disruption_bead_type
600
Extraction.Protocol.disruption_duration
20
Extraction.Protocol.disruption_intensity
23
Extraction.Protocol.disruption_temperature
2019-03-29T15:41:15.874Z
Extraction.Protocol.dtstamp
gDNA
Extraction.Protocol.extract_type
Qiagen MagAttract PowerMicrobiome DNA/RNA Kit #27600-4-KF. ZR-96 DNA Clean-up kit Zymo #D4017, D4018
Extraction.Protocol.extraction_kit
H2O
Extraction.Protocol.final_buffer
352
Extraction.Protocol.id
DNA Extraction for the M3 Project
Extraction.Protocol.name
This protocol is developed to accommodate the fact that for M3 project, many of the stool samples in Second Genome preservative were watery. The protocol is modified based on the SOP-SL-100 with additional steps for sample pre-processing and final clean-up.
Extraction.Protocol.notes
30
Extraction.Protocol.nucleic_acid_eluted_volume
553
Extraction.Protocol.protocol_id
KingFisher ClearMag bead-based combined with Zymo column-based clean up
Extraction.Protocol.purification_method
-20
Extraction.Protocol.storage_temperature
65
Extraction.Protocol.user_id
KF0077
Extraction.batch.ID..Extract.
160042804
Extraction.kit.lot.number..Extract.
Some eye contact
Eye.contact.finding..Biospecimen.
131
Family.group.ID..Biospecimen.
Never
Fermented.vegetable..consumption.frequency...Biospecimen.
NA
Fever..Biospecimen.
NA
Flu.like.symptoms..Biospecimen.
Not in past year
Flu.shot.in.the.last..M3...Biospecimen.
NA
Flu.shot.in.the.last..MFlu.shot.in.the.last..M3...Biospecimen.
12
Foreign.travel.within.past.months..Biospecimen.
NA
Frequency.of.interaction.with.pet.s...Biospecimen.
Daily
Fruit..consumption.frequency...Biospecimen.
NA
Fruit..consumption.frequency...longitudinal...Biospecimen.
Tends to have constipation
Functional.bowel.finding..Biospecimen.
False
GI.issues.one.month.ago..M3...Biospecimen.
False
GI.issues.this.week..M3...Biospecimen.
False
GI.issues.three.months.ago..M3...Biospecimen.
False
GI.issues.two.months.ago..M3...Biospecimen.
False
GI.issues.two.weeks.ago..M3...Biospecimen.
False
GI.symptoms.within.3.months..M3...Biospecimen.
No issues
Gastrointestinal.problems..M3...Biospecimen.
NA
Gestational.age..Biospecimen.
False
Gluten.allergy..Biospecimen.
12248
Host.ID
131_A
Host.Name
Case (disease status)
Host.disease.status..Biospecimen.
NA
Host.interaction.with.pets..Biospecimen.
Oregon State University
INSDC center name
2023-07-01T00:00:00Z
INSDC first public
2023-07-01T13:44:52.688Z
INSDC last update
SRS15613624
INSDC secondary accession
live
INSDC status
Imitates actions or gestures of others
Imitation.behavior..Biospecimen.
NA
Indoors.pet..Biospecimen.
False
Indoors.pets..Biospecimen.
NA
LR.L2.2.Video.classifier.score..M3...Biospecimen.
False
Lactose.intolerance..Biospecimen.
Able to speak fluently
Language.ability.and.use..Biospecimen.
28
Length.of.recent.foreign.travel..Biospecimen.
L19016210
Library.Barcode
2019-03-27T00:00:00
Library.Date.Collected
200007
Library.ID
NA
Library.Name
12.5
Library.concentration
ng/uL
Library.concentration.unit
NA
Library.mass
NA
Library.mass.unit
40
Library.volume
uL
Library.volume.unit
C04
Location.on.Extraction.Plate..Extract.
Daily
Meals.prepared.at.home..consumption.frequency...Biospecimen.
Daily
Meat..consumption.frequency...Biospecimen.
NA
Meats.and.seafood..consumption.frequency...longitudinal...Biospecimen.
1
Minimum.time.since.antibiotics..Biospecimen.
3.647
Mobile.Autism.Risk.Assessment.Score..Biospecimen.
NA
Most.recent.GI.episode.symptoms..M3...Biospecimen.
False
Multivitamin..Biospecimen.
Human
NCBI submission model
Human.1.0
NCBI submission package
505
Natural.father.current.age..months...Biospecimen.
414
Natural.mother.current.age..months...Biospecimen.
131_N
Natural.sibling.included.in.present.study..Biospecimen.
False
Non.celiac.gluten.sensitivity..Biospecimen.
5
Normalized.concentration..Extract.
0
Number.of.pet.birds..Biospecimen.
0
Number.of.pet.cats..Biospecimen.
0
Number.of.pet.dogs..Biospecimen.
0
Number.of.pet.fish..Biospecimen.
0
Number.of.pet.horses..Biospecimen.
0
Number.of.pet.reptiles..Biospecimen.
0
Number.of.roommates..Biospecimen.
Rarely
Olive.oil.used.in.cooking..M3...Biospecimen.
L19016210_M05416_77_000000000-C29M9
OmicsFileSet.Barcode
202400
OmicsFileSet.ID
L19016210_M05416_77_000000000-C29M9
OmicsFileSet.Name
NA
Other.GI.symptoms..M3...Biospecimen.
NA
Other.symptoms.this.week..M3...Biospecimen.
NA
Outdoors.pet..Biospecimen.
False
Outdoors.pets..Biospecimen.
NA
PCR.Protocol.BSA_final_conc
NA
PCR.Protocol.KCl_final_conc
NA
PCR.Protocol.MgCl2_final_conc
NA
PCR.Protocol.MgSO4_final_conc
NA
PCR.Protocol.Tris_HCl_final_conc
NA
PCR.Protocol.Tris_SO4_final_conc
Q5 Hot Start High-Fidelity 2X Master Mix
PCR.Protocol.amp_polymerase
NA
PCR.Protocol.amplicon_length
NA
PCR.Protocol.amplification_target
NA
PCR.Protocol.cycle_annealing_duration
NA
PCR.Protocol.cycle_annealing_method
NA
PCR.Protocol.cycle_annealing_temp
20
PCR.Protocol.cycle_count
NA
PCR.Protocol.cycle_denaturation_duration
NA
PCR.Protocol.cycle_denaturation_temp
NA
PCR.Protocol.cycle_extension_duration
NA
PCR.Protocol.cycle_extension_temp
NA
PCR.Protocol.dATP_final_conc
NA
PCR.Protocol.dCTP_final_conc
NA
PCR.Protocol.dGTP_final_conc
NA
PCR.Protocol.dTTP_final_conc
NA
PCR.Protocol.dUTP_final_conc
NA
PCR.Protocol.denaturation_duration_initial
NA
PCR.Protocol.denaturation_temp_initial
NA
PCR.Protocol.description
2018-06-04T17:32:01.019Z
PCR.Protocol.dtstamp
NA
PCR.Protocol.extension_duration_final
NA
PCR.Protocol.extension_temp
NA
PCR.Protocol.extension_temp_duration
NA
PCR.Protocol.extension_temp_final
NA
PCR.Protocol.gelatin_final_conc
575
PCR.Protocol.id
MAD LAB 16S V4 Library Preparation (20 cycles)
PCR.Protocol.name
NA
PCR.Protocol.other_additives
NA
PCR.Protocol.pcr_buffer_pH
AMPure XP
PCR.Protocol.pcr_clean_up_kits
Bead
PCR.Protocol.pcr_clean_up_methods
NA
PCR.Protocol.pcr_kit
50
PCR.Protocol.pcr_volume
NA
PCR.Protocol.pcr_water
NA
PCR.Protocol.pmid
NA
PCR.Protocol.polymerase_units
NA
PCR.Protocol.primer_fwd_seq
NA
PCR.Protocol.primer_rev_seq
463
PCR.Protocol.protocol_id
PicoGreen
PCR.Protocol.quantification_kit
V4
PCR.Protocol.region
NA
PCR.Protocol.reverse_primer_final_conc
NA
PCR.Protocol.tail_duration
NA
PCR.Protocol.tail_polymerase
NA
PCR.Protocol.tail_temp
NA
PCR.Protocol.themocycler
NA
PCR.Protocol.triton_X_100_final_conc
24
PCR.Protocol.user_id
False
Pet.bird..Biospecimen.
False
Pet.cat..Biospecimen.
False
Pet.dog..Biospecimen.
False
Pet.fish..Biospecimen.
False
Pet.horse..Biospecimen.
False
Pet.reptile..Biospecimen.
False
Pets.in.home..Biospecimen.
NA
Pica.disease..Biospecimen.
Regularly
Picks.up.objects.to.show.to.others..Biospecimen.
2047632
PicoGreen.kit.lot.number..Extract.
Regularly
Plays.imaginatively.when.alone..Biospecimen.
Regularly
Plays.imaginatively.with.others..Biospecimen.
Sometimes
Plays.in.a.group.with.others..Biospecimen.
NA
Pooled.library.batch.ID..Sequencing...OmicsFileSet.
Rarely
Probiotic..consumption.frequency...Biospecimen.
NA
Problems.collecting.stool.sample..M3...Biospecimen.
C9
Quant.Plate.Location1..Extract.
C10
Quant.Plate.Location2..Extract.
1
Quant.Plate.Number..Extract.
Caucasian
Racial.group..Biospecimen.
Never
Ready.to.eat.meals..consumption.frequency...Biospecimen.
NA
Recent.anxiety..caretaker.reported...Biospecimen.
NA
Recently.ill..Biospecimen.
Weekly
Red.meat..consumption.frequency...Biospecimen.
Regularly
Repetitive.motion..Biospecimen.
Sensitive to typical sounds
Response.to.typical.sounds..Biospecimen.
Rarely
Restaurant.prepared.meals..consumption.frequency...Biospecimen.
SRS15613624
SRA accession
Rarely
Seafood..consumption.frequency...Biospecimen.
No self-injurious behavior
Self.injurious.behavior.finding..Biospecimen.
NA
Sequencing.Protocol.description
NA
Sequencing.Protocol.dtstamp
NA
Sequencing.Protocol.id
NA
Sequencing.Protocol.instrument_model
NA
Sequencing.Protocol.loading_lib_concentration
NA
Sequencing.Protocol.loading_lib_concentration_unit
NA
Sequencing.Protocol.loading_lib_concentration_unit_ontology_id
NA
Sequencing.Protocol.name
NA
Sequencing.Protocol.notes
NA
Sequencing.Protocol.protocol_id
NA
Sequencing.Protocol.read_length
NA
Sequencing.Protocol.sequencing_kit
NA
Sequencing.Protocol.starting_lib_concentration
NA
Sequencing.Protocol.starting_lib_concentration_unit
NA
Sequencing.Protocol.starting_lib_concentration_unit_ontology_id
NA
Sequencing.Protocol.user_id
M05416_77_000000000-C29M9
Sequencing.run.ID..OmicsFileSet.
False
Shares.bed.with.pet..Biospecimen.
Healthy sleep pattern
Sleep.pattern.finding..Biospecimen.
False
Small.pet.rodent..Biospecimen.
Drinking water from city
Source.of.drinking.water..Biospecimen.
None
Specific.food.allergy..Biospecimen.
HR
Standard.Curve..Extract.
NA
Starchy.food..consumption.frequency...longitudinal...Biospecimen.
Less than 1
Stool.frequency..Biospecimen.
NA
Stool.sample.challenges.explained..M3...Biospecimen.
NA
Stool.sample.collection.method..M3...Biospecimen.
Several times weekly
Sugary.food..consumption.frequency...Biospecimen.
Never
Sweetened.drink..consumption.frequency...Biospecimen.
NA
Toilet.cover..M3...Biospecimen.
NA
Toilet.trained..Biospecimen.
30
Total.Volume.of.Sample..Extract.
Traveled to Russia in July 2017 for vacation (4 week stay)
Travel.outside.US..notes...Biospecimen.
Russian federation
Travel.to.country..Biospecimen.
Understands nearly all words
Understands.speech..Biospecimen.
Several times weekly
Vegetable..consumption.frequency...Biospecimen.
NA
Vegetable..consumption.frequency...longitudinal...Biospecimen.
Never
Vitamin.B.complex.supplement..consumption.frequency...Biospecimen.
Regularly
Vitamin.D..consumption.frequency...Biospecimen.
6.52173913
Volume.DNA.to.add..Extract.
23.47826087
Volume.H2O.to.add..Extract.
Several times weekly
Whole.grain..consumption.frequency...Biospecimen.
Timepoint 1
Within.study.sampling.date..Biospecimen.
80
age
months
age_units
not applicable
biomaterial_provider
not applicable
isolate
Homo sapiens
http://purl.obolibrary.org/obo/NCBITaxon_9606
organism
A
phenotype
female
sex
stool
tissue
Human sample from Homo sapiens
title