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HIV Study Tutorial
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How is Study Data Stored in LabKey Server?

This topic answers a few questions about how study data is stored inside the server: When you create a study dataset and import data to it, how is that data stored and managed in the system? How is data from different studies related? Is the data from different studies physically or logically separated? Topics Data Tables within Schema Import Process System Tables Visit Labels ...

Dataset Properties

The properties of a dataset include how it is keyed, categorized, and shown or shared. Dataset Properties Page Action Buttons Edit Dataset Properties Data Row Uniqueness Additional Key Fields Using Time as an Additional Key Advanced Settings Edit Dataset Fields Dataset Properties Page Administrators can view and edit dataset properties either by clicking the name of a dataset...

"immune-score.xlsx" attached to page "Step 2: Import Lab Data"

Sheet1 ParticipantId SpecimenId Date M1 M2 M3 pt-1 vl-100 4/4/20 1 0.8 0.12 pt-1 vl-200 6/4/20 0.9 0.6 0.22 pt-1 vl-300 8/4/20 0.8 0.7 0.32 pt-2 vl-400 4/4/20 0.77 0.4 0.33 pt-2 vl-500 6/4/20 0.99 0.5 0.44 pt-2 vl-600 8/4/20 0.98 0.55 0.41 pt-3 vl-700 4/4/20 0.94 0.3 0.32 pt-3 vl-800 6/4/20 0.8 0.77 0.21 pt-3 vl-900 8/4/20 0.88 0.88 0.22 pt-3 vl-1000 10/4/20 0.87 0.66 0.11

immune-score.xlsx

Sheet1 ParticipantId SpecimenId Date M1 M2 M3 pt-1 vl-100 4/4/20 1 0.8 0.12 pt-1 vl-200 6/4/20 0.9 0.6 0.22 pt-1 vl-300 8/4/20 0.8 0.7 0.32 pt-2 vl-400 4/4/20 0.77 0.4 0.33 pt-2 vl-500 6/4/20 0.99 0.5 0.44 pt-2 vl-600 8/4/20 0.98 0.55 0.41 pt-3 vl-700 4/4/20 0.94 0.3 0.32 pt-3 vl-800 6/4/20 0.8 0.77 0.21 pt-3 vl-900 8/4/20 0.88 0.88 0.22 pt-3 vl-1000 10/4/20 0.87 0.66 0.11

"CellCulture_004.xls" attached to page "Step 1: Assay Tutorial Setup"

Sheet1 SpecimenID ParticipantID Date CultureDay TotalCellCount Media S-031 PT-102 05/17/19 1 99 Media B S-032 PT-102 05/18/19 2 198 Media B S-033 PT-102 05/19/19 3 345 Media B S-034 PT-102 05/20/19 4 485 Media B S-035 PT-102 05/21/19 5 664 Media B S-036 PT-102 05/22/19 6 982 Media B S-037 PT-102 05/23/19 7 1548 Media B S-038 PT-102 05/24/19 8 2393 Media B S-039 PT-102 05/25/19 9 2821 Media...

"CellCulture_003.xls" attached to page "Step 1: Assay Tutorial Setup"

Sheet1 SpecimenID ParticipantID Date CultureDay TotalCellCount Media S-021 PT-102 05/17/19 1 99 Media B S-022 PT-102 05/18/19 2 198 Media B S-023 PT-102 05/19/19 3 345 Media B S-024 PT-102 05/20/19 4 485 Media B S-025 PT-102 05/21/19 5 664 Media B S-026 PT-102 05/22/19 6 982 Media B S-027 PT-102 05/23/19 7 1548 Media B S-028 PT-102 05/24/19 8 2393 Media B S-029 PT-102 05/25/19 9 2821 Media...

flexAssay_run2.xlsx

data ParticipantID SpecimenID Date Analyte MFI 202 106443199.2404.501 20080716 ENV1 33.74269 202 106443199.2404.502 20080716 ENV2 33.74269 202 106443199.2404.503 20080716 ENV3 33.74269 202 106443199.2404.504 20080716 ENV4 33.74269 202 106443199.2404.506 20080716 ENV1 33.74269 202 106443199.2404.507 20080716 ENV2 33.74269 202 106443199.2404.508 20080716 ENV3 33.74269 202 106443199.2404.509...

CellCulture_run1.xlsx

Sheet1 ParticipantId date media cellCount 101 8/18/08 control 1 101 8/19/08 control 1.18 101 8/20/08 control 1.5 101 8/21/08 control 1.94 101 8/22/08 control 2.31 101 8/23/08 control 2.82 101 8/24/08 control 3.66 101 8/25/08 control 4.6 101 8/26/08 control 5.96 101 8/27/08 control 7.21 101 8/28/08 control 8.75 101 8/29/08 control 11.52 101 8/30/08 control 13.9 101 8/31/08 control 17.8...

CellCulture_run1.xlsx

Sheet1 ParticipantId date media cellCount 101 8/18/08 control 1 101 8/19/08 control 1.18 101 8/20/08 control 1.5 101 8/21/08 control 1.94 101 8/22/08 control 2.31 101 8/23/08 control 2.82 101 8/24/08 control 3.66 101 8/25/08 control 4.6 101 8/26/08 control 5.96 101 8/27/08 control 7.21 101 8/28/08 control 8.75 101 8/29/08 control 11.52 101 8/30/08 control 13.9 101 8/31/08 control 17.8...

Cell_Culture-2019-08-06-1632.tmp

ParticipantId date media cellCount day 101 8/18/2008 control 1 1 101 8/19/2008 control 1.18 2 101 8/20/2008 control 1.5 3 101 8/21/2008 control 1.94 4 101 8/22/2008 control 2.31 5 101 8/23/2008 control 2.82 6 101 8/24/2008 control 3.66 7 101 8/25/2008 control 4.6 8 101 8/26/2008 control 5.96 9 101 8/27/2008 control 7.21 10 101 8/28/2008 control 8.75 11 101 8/29/2008 control 11.52 12 ...

Cell_Culture-2019-08-06-1618.tmp

ParticipantId date media cellCount day 101 8/18/2008 control 1 1 101 8/19/2008 control 1.18 2 101 8/20/2008 control 1.5 3 101 8/21/2008 control 1.94 4 101 8/22/2008 control 2.31 5 101 8/23/2008 control 2.82 6 101 8/24/2008 control 3.66 7 101 8/25/2008 control 4.6 8 101 8/26/2008 control 5.96 9 101 8/27/2008 control 7.21 10 101 8/28/2008 control 8.75 11 101 8/29/2008 control 11.52 12 ...

Data_2023-04-26_15-45-06-1.xlsx

data RowId Sample Id Day Media Cell Count Lab Technician Incubator/Instrument Run QC Flags 1600 101 1 control 1 SteveO INC-001 CellCulture-Group1 Not Yet Reviewed 1601 101 2 control 1 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 1602 101 3 control 2 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 1603 101 4 control 2 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 1604 101 5 control...

Filter Data

You can filter data displayed in a grid to reduce the amount of data shown, or to exclude data that you do not wish to see. By default, these filters only apply for the current viewer and session, but filters may be saved as part of a grid view if desired. Filter Column Values Filter by Value Filtering Expressions Filter Value Variables Persistent Filters Faceted Filtering Understand...

Data_2023-04-26_15-45-06.xlsx

data Sample Id Day Media Cell Count Lab Technician Incubator/Instrument Run QC Flags 101 1 control 1 SteveO INC-001 CellCulture-Group1 Not Yet Reviewed 101 2 control 1 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 101 3 control 2 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 101 4 control 2 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 101 5 control 2 Molly O INC-001 CellCulture-Group1...

Data_2023-04-26_15-45-06.xlsx

data Sample Id Day Media Cell Count Lab Technician Incubator/Instrument Run QC Flags 101 1 control 1 SteveO INC-001 CellCulture-Group1 Not Yet Reviewed 101 2 control 1 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 101 3 control 2 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 101 4 control 2 Molly O INC-001 CellCulture-Group1 Not Yet Reviewed 101 5 control 2 Molly O INC-001 CellCulture-Group1...

"FlowSampleDemo.xlsx" attached to page "Add Sample Descriptions"

SampleSetDemo TubeName PTID Date Visit WellType B1.fcs 101 4/20/08 1 Baseline B2.fcs 101 5/17/08 2 Follow up B3.fcs 101 6/4/08 3 Follow up B4.fcs 101 6/30/08 4 Follow up B5.fcs 101 8/10/08 5 Follow up B6.fcs 101 9/7/08 6 Follow up B7.fcs 101 10/4/08 7 Follow up B8.fcs 101 11/23/08 8 Follow up B9.fcs 101 1/18/09 9 Follow up D1.fcs 202 4/20/08 1 Baseline D2.fcs 202 5/17/08 2 Follow up D3.fcs...

"FlowSampleDemo.xlsx" attached to page "Tutorial: Set Flow Background"

SampleSetDemo TubeName PTID Date Visit WellType B1.fcs 101 4/20/08 1 Baseline B2.fcs 101 5/17/08 2 Follow up B3.fcs 101 6/4/08 3 Follow up B4.fcs 101 6/30/08 4 Follow up B5.fcs 101 8/10/08 5 Follow up B6.fcs 101 9/7/08 6 Follow up B7.fcs 101 10/4/08 7 Follow up B8.fcs 101 11/23/08 8 Follow up B9.fcs 101 1/18/09 9 Follow up D1.fcs 202 4/20/08 1 Baseline D2.fcs 202 5/17/08 2 Follow up D3.fcs...

"data_run2.xls" attached to page "Exploring Laboratory Data"

data ParticipantID VisitID Date WBC MCV HGB 101 7/10/08 4540 159 14.2 202 10/4/08 5442 224 11.4 303 7/20/08 4145 205 15.2 404 10/4/08 3202 187 14.1 505 7/10/08 5141 141 19.2 606 10/4/08 4220 152 15.3 101 11/18/08 10562 173 13.5 202 7/25/08 5210 146 17 303 3/10/09 7369 143 17.9 404 7/18/08 9156 95 18.1 505 3/31/09 10674 106 17.9 606 1/20/09 5233 107 16.1 101 1/20/09 8931...

Step 2: Import Lab Data

In this step we import two different, but related, data tables to the buildLW1 you just created: Plasma sample inventory: a spreadsheet that describes different vials of plasma. Assay result data: a spreadsheet that holds the experimental results of assaying the plasma. These tables are connected by the fact that the assay data describes properties of the plasma in the vials. We will capture...

Sample Finder

This topic describes how to find samples in bulk using sample properties, attributes of their deriveSamples or associateSources, or in the Professional Edition, based on related assays. The Sample Finder helps you build a set of criteria to find samples of interest across all the Sample Types in your system. For example, you might want to find all samples of different types from a specific source...