Skip to main content
This repository is under review for potential modification in compliance with Administration directives.
Study Information

dbGaP Study Accession: phs002525

NIH Institute/Center: NIDA

RADx Data Program: RADx-rad

DOI: 10.60773/tca1-nb16

Release Date: 01/26/2022

Study Description: The University of Miami (UM), with three primary campuses in Miami, Florida, was geographically spread within one of the worst COVID-19 hotbeds at the time of study. UM deployed an elaborate human surveillance testing, tracking, and tracing (3T) system to monitor the student body, faculty, and staff. The 3T system included a major hospital that is part of UM and that treats COVID-19 patients. To augment the COVID-19 monitoring system, UM deployed a pilot wastewater surveillance program for detecting SARS-CoV-2 from clusters of buildings on campus. Weill Cornell Medicine (WCM) is located in New York City, NY, an area that (at the time of study) had one of the worst outbreaks of COVID-19. WCM established an international consortium for SARS-CoV-2 environmental surveillance, including in NYC and globally with the MetaSUB Consortium, which created metagenomic and metatranscriptomic maps of the world's sewage. Based on this work at both UM and WCM, the aim of the project was to develop, implement, and demonstrate effective and predictive wastewater surveillance by optimizing sampling, concentration, and detection strategies. Working closely with the RADx-rad Data Coordination Center (DCC), work under application SF-RAD included the development and implementation of data standards and informatics infrastructure and performing integrative analyses that made all data, results, and models available to the community, thus providing a critical contribution to the national SARS-COV-2 RADx-rad Wastewater Detection Consortium. The objectives were addressed through three aims. Aim 1: Data Standardization, focused on developing and implementing data standards and quality metrics, and establishing the operational infrastructure to manage SARS-CoV-2 wastewater-based surveillance datasets and metadata. Aim 2: Wastewater Characterization, focused on optimizing wastewater surveillance protocols and parameters for wastewater sampling, sample concentration, and viral detection technologies. Aim 3: Integration with Human Health Surveillance, focused on metatranscriptomic analyses and on the integration of wastewater quantification data with community and hospital COVID-19 prevalence, to develop predictive models to detect local and community level spread of COVID-19. The results from this project developed and deployed experimental and informatics infrastructure and operations as part of the national RADx-rad SARS-CoV-2 wastewater surveillance network and provided a proof-of-concept implementation to use wastewater for infectious disease surveillance for early detection of localized COVID-19 outbreaks.

Updated Date: 10/30/2023

Principal Investigator: Solo-Gabriele, Helena

Has Data Files: Yes

Study Domain: Community Outreach Programs; Wastewater Surveillance

Data Collection Method: Wastewater Sampling

Keywords: Cluster/Outbreaks; Data Standardization; Fecal Coliform; Pepper Mild Mottle Virus (PMMoV); Predictive Modeling; Transcription; Virological Detection Technology; Volcano Second Generation (V2G)-qPCR; Water Quality; β-2 Microglobulin (B2M)

Study Design: Longitudinal Cohort

Multi-Center Study: No

Data Types: Clinical; Electronic Medical Records; Environmental; Genomic; Genotyping; Immunological; Metagenomic; Questionnaire or Survey; Sequencing; Supporting Documents

Study Start Date: 01/01/2021

Study End Date: 12/31/2022

Species: Human; Non-Human

Estimated Cohort Size: 30000

Study Population Focus: Adults

Publication URL: https://pubmed.ncbi.nlm.nih.gov/33795001/; https://pubmed.ncbi.nlm.nih.gov/34039416/; https://pubmed.ncbi.nlm.nih.gov/34043940/; https://pubmed.ncbi.nlm.nih.gov/34375259/; https://pubmed.ncbi.nlm.nih.gov/34504351/; https://pubmed.ncbi.nlm.nih.gov/35132260/; https://pubmed.ncbi.nlm.nih.gov/35136383/; https://pubmed.ncbi.nlm.nih.gov/35136384/; https://pubmed.ncbi.nlm.nih.gov/35233546/; https://pubmed.ncbi.nlm.nih.gov/35313580/; https://pubmed.ncbi.nlm.nih.gov/35864089/; https://pubmed.ncbi.nlm.nih.gov/35999570/; https://pubmed.ncbi.nlm.nih.gov/35999570/; https://pubmed.ncbi.nlm.nih.gov/36202365/; https://pubmed.ncbi.nlm.nih.gov/36202365/; https://pubmed.ncbi.nlm.nih.gov/36292799/; https://pubmed.ncbi.nlm.nih.gov/36292799/; https://pubmed.ncbi.nlm.nih.gov/36398131/; https://pubmed.ncbi.nlm.nih.gov/36398131/; https://pubmed.ncbi.nlm.nih.gov/36623667/; https://pubmed.ncbi.nlm.nih.gov/36623667/; https://pubmed.ncbi.nlm.nih.gov/37160974/; https://pubmed.ncbi.nlm.nih.gov/37160974/`; https://pubmed.ncbi.nlm.nih.gov/37216988/; https://pubmed.ncbi.nlm.nih.gov/37216988/; https://pubmed.ncbi.nlm.nih.gov/37406055/; https://pubmed.ncbi.nlm.nih.gov/37502918/; https://pubmed.ncbi.nlm.nih.gov/37502918/; https://pubmed.ncbi.nlm.nih.gov/37601294/; https://pubmed.ncbi.nlm.nih.gov/37601294/; https://pubmed.ncbi.nlm.nih.gov/37622131/

Acknowledgement Statement: This study was supported through funding, 4U01DA053941-02, for the National Institute on Drug Abuse (NIDA) as part of the RADx-rad program. Approved users should acknowledge the provision of data access by dbGaP for accession phs002525.v1.p1, and the NIH RADx Data Hub. Approved users should also acknowledge the specific version(s) of the dataset(s) obtained from the NIH RADx Data Hub.

Funding Opportunity Announcement (FOA) Number: RFA-OD-20-015

NIH Grant or Contract Number(s): 4U01DA053941-02

Consent/Data Use Limitations: General Research Use

Variable Information
Total Variables: 363
Study Variables Information Table
Variable Name
Label
nih_record_idUser ID
nih_raceWhat is your race?
nih_ethnicityAre you of Hispanic or Latino origin? May include Spanish origin.
nih_ageWhat is your age?
nih_sexWhat is your biological sex assigned at birth?
nih_zipWhat is your zip code?
nih_insuranceWhat kind of health insurance do you have?
nih_vaping_ynVaping use (Yes or No)
nih_nicotine_ynNicotine use (Yes or No)
nih_alcohol_ynAlcohol use (Yes or No)
nih_asthmaAsthma
nih_cancerCancer
nih_cardiovascular_diseaseCardiovascular disease
nih_chronic_kidney_diseaseChronic kidney disease
nih_chronic_lung_diseaseChronic lung disease
nih_diabetesDiabetes
nih_hypertensionHypertension
nih_immunosuppressive_conditionImmunosuppressive condition
nih_serious_mental_illnessSerious mental illness
nih_sickle_cell_diseaseSickle cell disease
nih_pregnancyPregnancy status
nih_heightWhat is your height in inches?
nih_weightWhat is your weight in pounds?
ageWhat is your age? (Age in years. For babies less than 1 year old, write 0 as the age)
alcohol_useAlcohol Use
asthmaAsthma
cancerCancer
cardiovascular_diseaseCardiovascular disease
chronic_kidney_diseaseChronic kidney disease
chronic_lung_diseaseChronic lung disease
diabetesDiabetes
ethnicityAre you of Hispanic or Latino origin?
height_feetHeight Feet
height_inchesHeight Inches
hypertensionHypertension
immunosuppressive_conditioImmunosuppressive condition
insuranceWhat kind of health insurance do you have?
nicotineNicotine Use
pregnancy_statusPregnancy status
raceWhat is your race? Mark one or more boxes.
serious_mental_illnessSerious mental illness
sexWhat is your biological sex assigned at birth?
sickle_cell_diseaseSickle cell disease
vapingVaping Use
weight_lbsWhat is your weight? (Weight in pounds)
zipZip or Postal Code: (De-Identified zip code)
air_vacuum_flow_rate-
aliquot_id_cornell_en-
aliquot_id_um_sharkey_en-
aliquot_id_um_williams_en-
analysis_software_name-
analysis_software_version-
approach-
assay_date-
bead_beating-
bead_manufacturer-
calculated_total_neg-
calculated_total_pos-
capacity_mgd-
chemical_principle-
Collection_date-
collection_storage_temp-
collection_storage_time-
collection_water_temp-
Comments_for_Covid_19_vac_1-
Comments_for_Covid_19_vac_2-
Comments_for_Covid_19_vac_3-
Comments_for_Covid_19_vac_4-
Comments_for_Covid_19_vac_5-
Comments_for_Covid_19_vac_6-
Comments_for_Covid_19_vac_7-
Comments_for_flu_vac_1-
Comments_for_flu_vac_2-
Comments_for_flu_vac_3-
Comments_for_flu_vac_4-
Comments_for_flu_vac_5-
commercially_performed-
composite_aliqots_attempted-
composite_aliqots_volume-
composite_end_date-
composite_end_time-
composite_freq-
composite_start_date-
composite_start_time-
composite_type-
concentrate_id-
concentration_method-
concentration_of_sodium_thiosulfate-
concentration_protocol-
conductivity-
country-
county_names-
covid_test_result-
covid_test_type-
date-
Date_of_Covid_19_vac_1-
Date_of_Covid_19_vac_2-
Date_of_Covid_19_vac_3-
Date_of_Covid_19_vac_4-
Date_of_Covid_19_vac_5-
Date_of_Covid_19_vac_6-
Date_of_Covid_19_vac_7-
Date_of_flu_vac_1-
Date_of_flu_vac_2-
Date_of_flu_vac_3-
Date_of_flu_vac_4-
Date_of_flu_vac_5-
dorm_location-
elution_buffer-
elution_volume_1-
end_samping_time-
end_sampling_date-
epaid-
equiv_sewage_amt-
exp_eff_notes-
exp_eff_source-
exp_eff_spike_conc-
exp_eff_spike_matrix-
exp_eff_target_name-
exp_eff_volume-
experimental_addition-
exp_spiked_matrix_ID-
extractant_id-
extraction_method-
extraction_run_id-
extract_label-
file_name-
filter_1a_volume-
filter_1b_volume-
filter_2a_volume-
filter_2b_volume-
filter_3a_volume-
filter_3b_volume-
filter_insertion-
filter_type-
filter_weight_final_1-
filter_weight_final_2-
filter_weight_initial_1-
filter_weight_initial_2-
flow_rate-
format-
forward_primer_sequence-
gps_latitude_degrees-
gps_latitude_minutes-
gps_latitude_seconds-
gps_longitude_degrees-
gps_longitude_minutes-
gps_longitude_seconds-
h_cl_added-
hum_frac_mic_conc-
hum_frac_mic_unit-
hum_frac_target_mic-
incubation_time_beads_on_magnet-
incubation_time_ww_on_beads-
influent_equilibrated-
inhibition_detect-
inhibition_method-
initial_ww_sample_volume_before_split-
initial_ww_volume_manual_bead-
input_amount_ul-
institution_type-
instrument_serial_number-
instrument_software_name-
instrument_software_version-
lab_extra_sample_volume_1-
lab_id-
lab_name_to_receive_extra_sample_1-
location_air_humidity-
location_air_temp-
lod_ref-
manual_bead_concentrate_id_cornell-
manual_bead_concentrate_id_um_sharkey-
manual_bead_concentrate_id_um_williams-
manual_protocol_name-
mg_cl_added-
no_aliquot_post_exp_addition_ni_EN-
no_aliquot_post_rec_addition_ni_EN-
notes_surface_area_wiped-
Num_Test-
order_date-
Order_Name-
other_norm_conc-
other_norm_name-
other_norm_unit-
output_sample_type-
parent_split_before_pre_treatment-
particulate_amount-
particulate_color-
passive_reference-
pasteurized-
patient_covid_test_complete-
patient_data_date-
patient_icu-
patient_mortality-
patient_remdesivir_use-
patient_stay_length-
patient_ventilator-
pcr_count-
pcr_gene_target-
pcr_instrument-
pcr_multipexed-
pcr_protocol_name-
pcr_run_id-
pcr_standard_type-
pcr_target-
pcr_target_chromosome-
pcr_target_gene_id-
pcr_target_gene_name-
pcr_target_gene_region-
pcr_target_gisaid_id-
pcr_target_organism_gisaid_clade-
pcr_target_organism_name-
pcr_target_organism_pango_lineage-
pcr_target_organism_subtype-
pcr_target_organism_taxonomy_id-
pcr_target_organism_who_label-
pcr_target_refseq-
pcr_type-
ph-
ph_calibration-
ph_final-
ph_meter-
plate_format-
population_served-
positive_students-
post_treatment_ID-
pre_conc_storage_temp-
pre_conc_storage_time-
pre_ext_storage_temp-
pre_ext_storage_time-
primer_source-
probe_sequence-
probe_serial_number-
rec_eff_notes-
rec_eff_source-
rec_eff_spike_conc-
rec_eff_spike_matrix-
rec_eff_target_name-
rec_eff_volume-
recovery_addition-
recovery_cntl_added_manual_bead-
Result-
reverse_primer_sequence-
rna_libprep_date_of_prep-
rna_libprep_elution_volume-
rna_libprep_index_1-
rna_libprep_index_2-
rna_libprep_industry-
rna_libprep_input_volume-
rna_libprep_kit-
rna_libprep_primer_version-
rna_libprep_protocol_version-
rna_libprep_rRNA_depletion-
rna_libprep_rRNA_depletion_kit-
rnaquant_assay_kit-
rnaquant_concentration-
rnaquant_date_of_quant-
rnaquant_sample_ul-
rnaquant_yn-
rna_seq_date-
rna_seq_flowcell-
rna_seq_industry-
rna_seq_lane-
rna_seq_machine_model-
rna_seq_machine_serial_number-
rna_seq_pf_prct_reads_per_library-
rna_seq_pf_reads-
rna_seq_protocol-
rna_seq_raw_reads-
rna_seq_runid-
rna_seq_yield_mbases-
sample_class-
sample_collect_date-
sample_collection_method-
sample_collect_time-
sample_dissolved_oxygen-
sample_id-
sample_location-
sample_location_specify-
sample_matrix-
sample_turbidity-
sars_cov2_avg_conc-
sars_cov2_units-
separation_on_magnet_time-
sewage_color-
sewage_travel_time-
sewage_turbidity-
shield_volume-
sodium_thiosulfate_added-
solids_separation-
sop_name-
specimen_id-
spiked_exp_matrix_aliquot-
spiked_matrix_aliquot-
spiked_matrix_ID-
spikein_1_amount_ul-
spikein_1_conc_cp_ul-
spikein_1_type-
split_pre_treatment_aliquot_vol_1-
split_pre_treatment_aliquot_vol_2-
split_pre_treatment_aliquot_vol_3-
split_pre_treatment_ID_1-
split_pre_treatment_ID_2-
split_pre_treatment_ID_3-
split_pre_treatment_purpose_1-
split_pre_treatment_purpose_2-
split_pre_treatment_purpose_3-
splits_pre_treatment-
staff_faculty_gable_rsmas_neg-
staff_faculty_gable_rsmas_pos-
staff_faculty_med_neg-
staff_faculty_med_pos-
standard_type-
standard_vendor-
start_sampling_date-
start_sampling_time-
State-
state_names-
stormwater_input-
stud_epic_gable_rsmas_na_neg-
stud_epic_gable_rsmas_na_pos-
stud_epic_gable_rsmas_off_neg-
stud_epic_gable_rsmas_off_pos-
stud_epic_gable_rsmas_on_neg-
stud_epic_gable_rsmas_on_pos-
stud_sun_gable_rsmas_na_neg-
stud_sun_gable_rsmas_na_pos-
stud_sun_gable_rsmas_off_neg-
stud_sun_gable_rsmas_off_pos-
stud_sun_gable_rsmas_on_neg-
stud_sun_gable_rsmas_on_pos-
study_id-
surface_area_wiped-
target_cq-
test_result_date-
tests_performed-
time_zone-
tot_conc_vol-
tube_volume_cornell-
tube_volume_um_sharkey-
tube_volume_um_williams-
user-
volume_concentrate_output_apex-
volume_input_apex-
volume_in_qPCR_wells-
volume_manual_bead_concentrate_um_sharkey-
volume_manual_bead_concentrate_um_williams-
volume_of_sodium_thiosulfate-
volume_PBS_manual_bead_wash-
volume_shield_manual_bead-
volume_used_for_reaction-
vol_wastewater_receiving_control-
vol_wastewater_receiving_exp_control-
water_flow_unit-
water_salinity-
well_id-
ww_appearance_notes-
ww_split_id_apex-
ww_split_id_manual_bead-
wwtp_jurisdiction-
wwtp_name-
ww_volume_manual_bead-
zipcode-
Study Documents
Study Documents Table
Document
Document Name
File Size
Download
Study Protocolphs002525_Protocol.pdf654.88 KB
Data Files
Total Files: 48
Data Files: 16
Metadata Files: 16
Dictionary Files: 16
Study Datasets Table
File Name
File Type
File Format(s)
# of Records
# of Variables
Metadata
Dictionary
rad_015_941-01_deidentified_clinicaldata_DATA_origcopy.csvTabular Data - Non-harmonizedcsv8123
rad_015_941-01_qPCR_RawData_DATA_origcopy.csvTabular Data - Non-harmonizedcsv21483
rad_015_941-01_qPCRData_DATA_origcopy.csvTabular Data - Non-harmonizedcsv775
rad_015_941-01_RNA_seq_Results_DATA_origcopy.csvTabular Data - Non-harmonizedcsv1253
rad_015_941-01_deidentified_clinicaldata_DATA_transformcopy.csvTabular Data - Harmonizedcsv8123
rad_015_941-01_covid_campus_counts_DATA_origcopy.csvTabular Data - Non-harmonizedcsv850
rad_015_941-01_deidentified_student_individual_Testing_DATA_transformcopy.csvTabular Data - Harmonizedcsv261497
rad_015_941-01_deidentified_student_individual_Testing_DATA_origcopy.csvTabular Data - Non-harmonizedcsv261497
rad_015_941-01_deidentified_student_individual_vaccine_DATA_transformcopy.csvTabular Data - Harmonizedcsv47277
rad_015_941-01_deidentified_student_individual_vaccine_DATA_origcopy.csvTabular Data - Non-harmonizedcsv47277
rad_015_941-01_extraction_DATA_origcopy.csvTabular Data - Non-harmonizedcsv3314
rad_015_941-01_FieldData_DATA_origcopy.csvTabular Data - Non-harmonizedcsv3055
rad_015_941-01_pretreatment_DATA_origcopy.csvTabular Data - Non-harmonizedcsv2069
rad_015_941-01_qPCR_ProcessedData_DATA_origcopy.csvTabular Data - Non-harmonizedcsv2351
rad_015_941-01_aggregated_student_DATA_origcopy.csvTabular Data - Non-harmonizedcsv4990
rad_015_941-01_concentration_DATA_origcopy.csvTabular Data - Non-harmonizedcsv3023