016-blood_tests

Blood tests dataset

Description

The lab tests in this dataset of the Human Phenotype Project are based on tests performed to participants in the community as part of their regular medical care at their HMO (Health Maintenance Organization). Participants are asked to upload their blood/urine tests done at their HMOs from previous years. These tests range from the very common CBC and chemistry tests, vitamins levels and other laboratory tests.

Introduction

Laboratory (Lab) tests are often used in health care to determine physiological and biochemical states, such as disease, mineral content, pharmaceutical drug effectiveness, and organ function. The lab tests in this data set of the Human Phenotype Project are based on tests performed to participants in the community as part of their regular medical care at their HMO. Following registration and follow-up calls or visits the participants receive an email asking for and providing instructions on how to upload their lab test results. The participants are provided with a list of recommended tests to upload (specified in the list below) and the recommended time window for some tests (last 3 months or from the previous one year). Each participant uploads blood tests that were done throughout the years with their HMO. Upon upload, the file is analyzed based on its format, and all readable tests that can be extracted are uploaded to a PostgreSQL database.

Note that this data is created by the users own volition and the tests are done independent of their visits to the clinical testing center (CTC).

Measurement protocol

Every blood/urine test has its own measurement protocol. * Some blood tests require the participant itself to act differently prior to the test - whether it’s fasting, drinking concentrated glucose/lactose, sampling urine etc. * The technician has also a large part of the test, by selecting relevant buffers for every one of the tests and have it’s own complete protocol per test. * And the lab - each HMO would have their own storing protocols, measuring with different machines with different sensitivity thresholds and their own standards (usually aligned between different HMO, but not necessarily).

Data availability

The information is stored in 1 parquet file blood_tests.parquet.

Data dictionary

pl.dict
folder_id feature_set field_string description_string relative_location bulk_dictionary field_type data_coding stability units sampling_rate bulk_file_extension strata sexed array debut completed transformation list_of_tags pandas_dtype
tabular_field_name
hmo 16 blood_tests HMO One of 4 Isreali HMOs blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
collection_date 16 blood_tests Collection date Collection date blood_tests/blood_tests.parquet NaN Date NaN Accruing NaN NaN NaN Auxiliary Both sexes Single 2015-01-01 NaN NaN Blood Tests datetime64[ns]
bt__albumin_float_value 16 blood_tests Blood test - Albumin (Numerical) Albumin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing g/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__alkaline_phosphatase_float_value 16 blood_tests Blood test - Alkaline Phosphatase (Numerical) ALKP - Alkaline Phosphatase blood_tests/blood_tests.parquet NaN Continuous NaN Accruing u/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__alt_float_value 16 blood_tests Blood test - ALT (Numerical) ALT (GPT) - Alanine Aminotransferease blood_tests/blood_tests.parquet NaN Continuous NaN Accruing u/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__ast_float_value 16 blood_tests Blood test - AST (Numerical) AST (GOT) - Aspartate Aminotransferase blood_tests/blood_tests.parquet NaN Continuous NaN Accruing u/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__basophils_%_float_value 16 blood_tests Blood test - Basophils % (Numerical) Baso % - Basophils percent blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__basophils_abs_float_value 16 blood_tests Blood test - Basophils # (Numerical) Baso # - Basophils absolute blood_tests/blood_tests.parquet NaN Continuous NaN Accruing k/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__calcium_float_value 16 blood_tests Blood test - Calcium (Numerical) Ca - Calcium blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__creatinine_float_value 16 blood_tests Blood test - Creatinine (Numerical) Creatinine blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__direct_bilirubin_categorical_value 16 blood_tests Blood test - Direct Bilirubin (Categorical) Bilirubin Direct/Conjugated blood_tests/blood_tests.parquet NaN Continuous NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__direct_bilirubin_float_value 16 blood_tests Blood test - Direct Bilirubin (Numerical) Bilirubin Direct/Conjugated blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__eosinophils_%_float_value 16 blood_tests Blood test - Eosinophils % (Numerical) Eos % - eosinophils percent blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__eosinophils_abs_float_value 16 blood_tests Blood test - Eosinophils # (Numerical) Eos # - eosinophils absolute blood_tests/blood_tests.parquet NaN Continuous NaN Accruing k/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__estradiol_categorical_value 16 blood_tests Blood test - Estradiol (Categorical) E2 - Estradiol blood_tests/blood_tests.parquet NaN Continuous NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__estradiol_float_value 16 blood_tests Blood test - Estradiol (Numerical) E2 - Estradiol blood_tests/blood_tests.parquet NaN Continuous NaN Accruing pmol/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__ferritin_categorical_value 16 blood_tests Blood test - Ferritin (Categorical) Ferritin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__ferritin_float_value 16 blood_tests Blood test - Ferritin (Numerical) Ferritin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing ng/ml NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__ggt_float_value 16 blood_tests Blood test - GGT (Numerical) GGT - gama-Glutamyl Transpeptidase blood_tests/blood_tests.parquet NaN Continuous NaN Accruing u/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__glucose_float_value 16 blood_tests Blood test - Glucose (Numerical) Glucose blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__hba1c_float_value 16 blood_tests Blood test - HbA1C (Numerical) HbA1C % blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__hdl_cholesterol_float_value 16 blood_tests Blood test - HDL Cholesterol (Numerical) HDL Cholesterol blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__hematocrit_float_value 16 blood_tests Blood test - Hematocrit (Numerical) HCT - Hematocrit blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__hemoglobin_float_value 16 blood_tests Blood test - Hemoglobin (Numerical) Hb - Hemoglobin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing g/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__ldl_cholesterol_float_value 16 blood_tests Blood test - LDL Cholesterol (Numerical) LDL Cholesterol blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__lymphocytes_%_float_value 16 blood_tests Blood test - Lymphocytes % (Numerical) Lymp % - Lymphocytes percent blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__lymphocytes_abs_float_value 16 blood_tests Blood test - Lymphocytes # (Numerical) Lymp # - Lymphocytes absolute blood_tests/blood_tests.parquet NaN Continuous NaN Accruing k/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__mch_float_value 16 blood_tests Blood test - MCH (Numerical) MCH - Mean cell Hemoglobin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing pg/cell NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__mchc_float_value 16 blood_tests Blood test - MCHC (Numerical) MCHC - Mean cell Hemoglobin concentration blood_tests/blood_tests.parquet NaN Continuous NaN Accruing g/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__mcv_float_value 16 blood_tests Blood test - MCV (Numerical) MCV - Mean Corpuscular Volume or Mean cell volume blood_tests/blood_tests.parquet NaN Continuous NaN Accruing fl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__monocytes_%_float_value 16 blood_tests Blood test - Monocytes % (Numerical) Mono % - Monoctypes percent blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__monocytes_abs_float_value 16 blood_tests Blood test - Monocytes # (Numerical) Mono % - Monoctypes absolute blood_tests/blood_tests.parquet NaN Continuous NaN Accruing k/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__mpv_float_value 16 blood_tests Blood test - MPV (Numerical) MPV - Mean Platelet Volume blood_tests/blood_tests.parquet NaN Continuous NaN Accruing fl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__neutrophils_%_float_value 16 blood_tests Blood test - Neutrophils % (Numerical) Neut % - Neutrophils percent blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__neutrophils_abs_float_value 16 blood_tests Blood test - Neutrophils # (Numerical) Neut # - Neutrophils absolute blood_tests/blood_tests.parquet NaN Continuous NaN Accruing k/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__non_hdl_cholesterol_float_value 16 blood_tests Blood test - Non HDL Cholesterol (Numerical) Non HDL Cholesterol blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__phosphore_float_value 16 blood_tests Blood test - Phosphore (Numerical) P - Phosphore blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__platelets_float_value 16 blood_tests Blood test - Platelets (Numerical) PLT - Platelets blood_tests/blood_tests.parquet NaN Continuous NaN Accruing k/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__potassium_float_value 16 blood_tests Blood test - Potassium (Numerical) K+ - Potassium blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mmol/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__rbc_float_value 16 blood_tests Blood test - RBC (Numerical) RBC - Red Blood Cells blood_tests/blood_tests.parquet NaN Continuous NaN Accruing m/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__rdw_float_value 16 blood_tests Blood test - RDW (Numerical) RDW - Red Blood Cell Distribution Width blood_tests/blood_tests.parquet NaN Continuous NaN Accruing % NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__rheumatoid_factor_categorical_value 16 blood_tests Blood test - Rheumatoid Factor (Categorical) Rheumatoid Factor Quantit blood_tests/blood_tests.parquet NaN Continuous NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__rheumatoid_factor_float_value 16 blood_tests Blood test - Rheumatoid Factor (Numerical) Rheumatoid Factor Quantit blood_tests/blood_tests.parquet NaN Continuous NaN Accruing iu/ml NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__sodium_float_value 16 blood_tests Blood test - Sodium (Numerical) Na - Sodium blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mmol/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__testosterone_total_categorical_value 16 blood_tests Blood test - Testosterone Total (Categorical) Total Testosterone blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__testosterone_total_float_value 16 blood_tests Blood test - Testosterone Total (Numerical) Total Testosterone blood_tests/blood_tests.parquet NaN Continuous NaN Accruing nmol/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__total_bilirubin_categorical_value 16 blood_tests Blood test - Total Bilirubin (Categorical) Total Billirubin blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__total_bilirubin_float_value 16 blood_tests Blood test - Total Bilirubin (Numerical) Total Billirubin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__total_cholesterol_float_value 16 blood_tests Blood test - Total Cholesterol (Numerical) Total Cholesterol blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__total_protein_float_value 16 blood_tests Blood test - Total Protein (Numerical) Total Protien blood_tests/blood_tests.parquet NaN Continuous NaN Accruing g/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__triglycerides_float_value 16 blood_tests Blood test - Triglycerides (Numerical) Triglycerides blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__tsh_categorical_value 16 blood_tests Blood test - TSH (Categorical) TSH - Thyroid-stimulating hormone blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__tsh_float_value 16 blood_tests Blood test - TSH (Numerical) TSH - Thyroid-stimulating hormone blood_tests/blood_tests.parquet NaN Continuous NaN Accruing miu/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__urate_float_value 16 blood_tests Blood test - Urate (Numerical) Urate / Uric Acid blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__urea_float_value 16 blood_tests Blood test - Urea (Numerical) Urea blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__vitamin_b12_categorical_value 16 blood_tests Blood test - Vitamin B12 (Categorical) Vitamin B12 - Cobalamin blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__vitamin_b12_float_value 16 blood_tests Blood test - Vitamin B12 (Numerical) Vitamin B12 - Cobalamin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing pg/ml NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__vitamin_d_categorical_value 16 blood_tests Blood test - Vitamin D (Categorical) Vitamin D blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
bt__vitamin_d_float_value 16 blood_tests Blood test - Vitamin D (Numerical) Vitamin D blood_tests/blood_tests.parquet NaN Continuous NaN Accruing ng/ml NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
bt__wbc_float_value 16 blood_tests Blood test - WBC (Numerical) WBC - White blood cells blood_tests/blood_tests.parquet NaN Continuous NaN Accruing k/ul NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
urine__acr_categorical_value 16 blood_tests Urine test - ACR (Categorical) Urine ACR - Albumin / Creatinine Ratio blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
urine__acr_float_value 16 blood_tests Urine test - ACR (Numerical) Urine ACR - Albumin / Creatinine Ratio blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/g creatinine NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
urine__creatinine_float_value 16 blood_tests Urine test - Creatinine (Numerical) Creatinine blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/dl NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float
urine__microalbumin_categorical_value 16 blood_tests Urine test - Microalbumin (Categorical) Microalbumin blood_tests/blood_tests.parquet NaN Categorical (single) NaN Accruing NaN NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests category
urine__microalbumin_float_value 16 blood_tests Urine test - Microalbumin (Numerical) Microalbumin blood_tests/blood_tests.parquet NaN Continuous NaN Accruing mg/l NaN NaN Primary Both sexes Single 2015-01-01 NaN NaN Blood Tests float