Standardized Metadata in the Built Environment Lynn M. Schriml University of Maryland School of Medicine Institute for Genome Sciences Baltimore, Maryland

Community-driven solutions Sample and Sequence Metadata Biomedical Data Data problem Community Standards Implementation Data Analysis

17th Genomic Standards Consortium meeting JGI May 4-6 th, years, 28 meetings, 534 GSC Consortium members from 14 countries & Areas of research soil, water, environmental samples, metagenomics, microbiome, indoor environment, human health

Pelin Yilmaz - MIxS Checklist standards: flexible and extensible, minimum information standards, fosters exchange and integration of genomic data and standardized descriptions Built environment MIxS: capture geographic and environmental context MIxS Shell Oil: hydrocarbon resources

MIxS-BE: A MIxS extension defining the Minimal Metadata for the Built Environment Minimal Information Checklist MIxS Descriptors MiXs – air environmental package project name, sample environment, sequencing specifications BE - core carbon dioxide, ventilation type, organism count BE – building properties BE – sample properties surface material, temperature, humidity, occupancy room type, HVAC system, light source sample processing, occupancy load Built Environment (BE) package. The BE package represents a minimal metadata description of the built environment to be collected and reported for each sequenced sample.

MIxS-BE: Building  Built Structure & Room Checklist built structuregeographic location, region, city, state, country setting, built structure type, building identifier, net area of built structure BE documentation: drawings, specifications, design, construction architectural elementsbuilding: # floors, # rooms, stairs, elevators room: ID/name, floor, volume, condition, # windows floors, walls, ceilings, room, windows, shading devices, doors & archways, furnishings: area, location, type, structure, material, condition, age, signs of water/mold building systemsheating, cooling, ventilation: system ID, delivery method & locations occupants and functiondata types: manual, automated counts, video, estimated, average daily, houseplants, cleaning & cooking frequency building environmental conditions temperature (globe, variance), humidity, illuminations, solar radiation, air distribution (Lynn Schriml & Jeff Kline) extension to capture breadth of study related metadata

MIxS-BE: Building & Room Data Gathering Scott Kelley, John Chase, Jeffrey Siegel, Greg Caporaso, Jack Gilbert, Kin Handley, Brent Stephens, Curtis Huttenhower, Regina Joice, Rachel Adams, Seema Bhangar, Jean Francis Ruiz Calderon, Atila Novoselec, Maria Gloria Dominguez-Bello, Humberto Cavallin Calanche, Jessica Green, James Meadow, Jeff Kline, Jordan Peccia, Susan Lynch, Chris Johnson, Al Levin

building (collection location) Age of building building type University housing location longitude Train stop collection location train line Station collection location latitude urban/rural architectural elements number of bathrooms number of bedrooms flooring type flooring material: vinyl tiles, carpeting Flooring (carpet, hard-floor, throw-rug) exterior siding exterior siding: fiber-cement (HardiPlank) building exterior material Slope of roof wall wall material: painted sheetrock Interior wall construction (drywall/plaster) interior wall type collection date date day collection date collection time month time weekday Season humidity average relative humidity humidity at time of sampling humidity on sampling day Indoor air absolute humidity (humidity ratio) relative_humidity RelHumid_mean Indoor air relative humidity Chamber Temperature/relative humidity occupancy number of adults number of children Pets (# and kind) Crowdedness cleaning frequency Number of infrared beam breaks at patient room doorways (a metric of human occupancy/activity) House occupied during the day (1-2, 3-4, or 7) Times/week a meal is cooked (1-2, 3-4, or 7) gender Houseplant (yes/no) Pets Usage Indoor air CO2 concentration (patient rooms only) Last time swept/mopped/vacuumed Indoor illumination levels

structure typemechanical, architectural, aerospace built structureairport, bus, taxi, train, train station geographic locationUSA: New York City, New York latitude longitude sample ID collection dateJune 20, 2015 environmental featurepark [ENVO: ] train station collection locationsouth station above ground, south station underground train linered, blue, green indoor surface turnstile, emergency exit, Metro Card kiosks, wooden bench, metal bench, stairwell handrail, garbage can, train door, train poll, train handrail, train seat surface materialconcrete, wood, stone, tile, plastic, glass, metal, vinyl, carpet collection methodCopan Liquid Amies Elution Swab 481C DNA extraction methodMoBio Powersoil DNA isolation kit Link to Ontologies Develop a MetaSub metadata template, link to MIxS standard

Clinical Biomedical Research Samples, Phenotypes, Ontology Team Health Data

6,582 disease terms (38% defined) 37,988 xref mappings Human Disease Ontology DO website: