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BioAssay: AID 1852

HTS assay for identification of inhibitors of TNF-a-specific NF-kB induction

Multiple cellular stimuli acting through various pathways lead to NF-kB induction. The assay described below uses tumor necrosis factor alpha (TNF-a), a canonical NF-kB inducer, and is designed for identification of hits specific to TNF-a-modulated pathways. We utilized this assay to assess selectivity of hits emerging from the primary screening of the library in NOD1- and NOD2-specific assays (AIDs 1578 and 1566). The HEK-293-T NF-kB-Luc cell line designed for luminescent detection of NF-kB induction was utilized in this assay ..more
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 Tested Compounds
 Tested Compounds
All(2481)
 
 
Active(1149)
 
 
Inactive(1332)
 
 
 Tested Substances
 Tested Substances
All(2481)
 
 
Active(1149)
 
 
Inactive(1332)
 
 
AID: 1852
Data Source: Burnham Center for Chemical Genomics (BCCG-A210-TNF-Alpha-Inhibitor-Assay)
Depositor Category: NIH Molecular Libraries Probe Production Network, Assay Provider
BioAssay Version:
Deposit Date: 2009-07-09
Modify Date: 2010-12-30

Data Table ( Complete ):           View Active Data    View All Data
Target
BioActive Compounds: 1149
Related Experiments
Show more
AIDNameTypeProbeComment
1566uHTS luminescence assay for the identification of compounds that inhibit NOD2Confirmatory depositor-specified cross reference: uHTS luminescence assay for the identification of compounds that inhibit NOD2
1575Summary assay for the identification of compounds that inhibit NOD1Summary2 depositor-specified cross reference: Summary assay for the identification of compounds that inhibit NOD1
1578uHTS luminescence assay for the identification of compounds that inhibit NOD1Confirmatory depositor-specified cross reference: uHTS luminescence assay for the identification of compounds that inhibit NOD1
1579Summary assay for the identification of compounds that inhibit NOD2Summary depositor-specified cross reference: Summary assay for the identification of compounds that inhibit NOD2
1849uHTS Fluorescence assay for the identification of cytotoxic compounds among compounds active in NOD1 cell inhibition assayConfirmatory depositor-specified cross reference
2260SAR analysis of muramyl dipeptide (MDP) induced IL-8 secretion in MCF-7/NOD2 cells.Confirmatory depositor-specified cross reference
2264SAR analysis of NF-kB dependent luciferase using DAP as an inducerConfirmatory depositor-specified cross reference
2334SAR analysis of compounds that inhibit NOD2 revisedConfirmatory depositor-specified cross reference
2337SAR analysis of inhibitors of TNFa specific NF-kB induction revisedConfirmatory depositor-specified cross reference
2466SAR analysis of compounds that inhibit NOD1 - Set 2Confirmatory depositor-specified cross reference
2475SAR analysis of compounds that inhibit NOD2 - Set 2Confirmatory depositor-specified cross reference
2483SAR analysis of inhibitors of TNFa specific NF-kB induction - Set 2Confirmatory depositor-specified cross reference
2485HTS dose response assay for identification of inhibitors of TNFa-specific NF-kB inductionConfirmatory depositor-specified cross reference
2503SAR analysis of Muramyl dipeptide (MDP) induced IL-8 secretion in MCF-7/NOD2 cells - Set 2Confirmatory depositor-specified cross reference
2793SAR analysis of NF-kappaB dependent luciferase using DAP as an inducer - Set 2Confirmatory depositor-specified cross reference
2798SAR analysis of compounds that inhibit NOD1 - Set 3Confirmatory depositor-specified cross reference
2799SAR analysis of compounds that inhibit NOD2 - Set 3Confirmatory depositor-specified cross reference
2801SAR analysis of inhibitors of TNFa specific NF-kB induction - Set 3Confirmatory depositor-specified cross reference
2245SAR analysis of tumor necrosis factor alpha (TNF-alpha) induced IL-8 secretion in MCF-7/NOD1 cells.Confirmatory same project related to Summary assay
2250SAR analysis of GM-Tri-DAP induced IL-8 secretion in MCF-7/NOD1 cellsConfirmatory same project related to Summary assay
2255SAR analysis of NF-kB dependent luciferase using Doxorucibin as an inducerConfirmatory same project related to Summary assay
2261SAR analysis of NF-kB dependent luciferase using PMA/Ionomycin as an inducerConfirmatory same project related to Summary assay
2333SAR analysis of compounds that inhibit NOD1 revisedConfirmatory same project related to Summary assay
2335SAR analysis of compounds that are cytotoxic to HEK293 revisedConfirmatory same project related to Summary assay
2469SAR analysis of compounds that are cytotoxic to HEK293 - Set 2Confirmatory same project related to Summary assay
2504SAR analysis of Tumor necrosis factor alpha (TNF-alpha) induced IL-8 secretion in MCF-7/NOD1 cells - Set 2Confirmatory same project related to Summary assay
2505SAR analysis of GM-Tri-DAP induced IL-8 secretion in MCF-7/NOD1 cells - Set 2Confirmatory same project related to Summary assay
2789SAR analysis of NF-kappaB dependent luciferase using Doxorucibin as an inducer - Set 2Confirmatory same project related to Summary assay
2792SAR analysis of NF-kappaB dependent luciferase using PMA/Ionomycin as an inducer - 2Confirmatory same project related to Summary assay
2800SAR analysis of compounds that are cytotoxic to HEK293 - Set 3Confirmatory same project related to Summary assay
1848uHTS Fluorescence assay for the identification of cytotoxic compounds among compounds active in NOD2 cell inhibition assayConfirmatory same project related to Summary assay
2001uHTS luminescence assay for the identification of compounds that inhibit NOD2 in MDP treated cellsConfirmatory same project related to Summary assay
2335SAR analysis of compounds that are cytotoxic to HEK293 revisedConfirmatory same project related to Summary assay
Description:
Data Source: Sanford-Burnham Center for Chemical Genomics (SBCCG)
Source Affiliation: Sanford-Burnham Medical Research Institute (SBMRI, San Diego, CA)
Network: NIH Molecular Libraries Production Centers Network (MLPCN)
Grant Number: 1 R03 MH084844-01
Assay Provider: Dr. John C. Reed, Sanford-Burnham Medical Research Institute, San Diego CA

Multiple cellular stimuli acting through various pathways lead to NF-kB induction. The assay described below uses tumor necrosis factor alpha (TNF-a), a canonical NF-kB inducer, and is designed for identification of hits specific to TNF-a-modulated pathways. We utilized this assay to assess selectivity of hits emerging from the primary screening of the library in NOD1- and NOD2-specific assays (AIDs 1578 and 1566). The HEK-293-T NF-kB-Luc cell line designed for luminescent detection of NF-kB induction was utilized in this assay
Protocol
Assay materials:
1) HEK-293-T NF-kB-Luc cell line obtained from the assay provider's laboratory.
2) RNDsystems (Cat # 210-TA-010/CF)
3) SteadyGlo (Promega)

TNF-a NF-kB induction assay: single concentration counterscreen

Day 1 Procedure

1) Harvest HEK-293-T NF-kB-Luc at 100% confluency at 100% confluency
2) Supplement NOD plating media with DMSO to a final concentration of 0.62% DMSO
3) Dispense 3 uL (6000 cells)/well to every well of a 1536 TC-treated white plate (Corning # 3727).
4) Spin down plates at 500 rpm for 5 min in an Eppendorf 5810 centrifuge.
5) Using a HighRes biosolution pintool equipped with V&P Scientific pins, stamp 10nl of 2mM cmpds in DMSO (col 5-48) and 10nl DMSO controls (col 1-4) to plates
6) Add 2 ul/well 0.25ng/mL dH20 TNF-a to wells in columns 3-48 using Multidrop.
7) Lid Plates. Sandwich 4 plates between 2 lidded 384 plates filled with H2O
8) Wrap plates securely in single layer of Plastic Wrap (Saran Wrap PVDC version).
9) Incubate overnight (14 hours) in 37 oC 5% CO2 incubator

Day 2 Procedure
1) Add 3 ul/well SteadyGlo to each well with Multidrop.
2) Spin plates @ 1000 rpm for 1 minute on Eppendorf 5810
3) Read luminescence on Perkin-Elmer Viewlux
Comment
Compounds with %Activity of >50% are defined as actives in this assay.

The scores were calculated using the Tiered Activity Scoring System was developed and implemented by SBCCG. Its utilization for the assay is described below.

Activity Scoring
Activity scoring rules were devised to take into consideration compound efficacy, its potential interference with the assay and the screening stage that the data was obtained. Details of the Scoring System will be published elsewhere. Briefly, the outline of the scoring system utilized for the assay is as follows:
1) First tier (0-40 range) is reserved for primary screening data. The score is correlated with %Activity in the assay demonstrated by a compound at 4 uM concentration:
a. If primary %Activity is less than 0%, then the assigned score is 0
b. If primary %Activity is greater than 100%, then the assigned score is 40
c. If primary %Activity is between 0% and 100%, then the calculated score is (% Inhibition)*0.4
2) Second tier (41-80 range) is reserved for dose-response confirmation data and thus does not apply here.
3) Third tier (81-100 range) is reserved for dry powder SAR compounds and thus does not apply here.
Categorized Comment - additional comments and annotations
From PubChem:
Assay Cell Type: HEK293
Result Definitions
TIDNameDescriptionHistogramTypeUnit
OutcomeThe BioAssay activity outcomeOutcome
ScoreThe BioAssay activity ranking scoreInteger
1%Activity% activity in primary screeningFloat
2Average Positive ControlAverage luminescent signal of positive control wellsFloatμM
3StDev Positive ControlStandard Deviation of luminescent signal of positive controlFloat
4Average Negative ControlAverage luminescent signal of negative control wellsFloat
5StDev Negative ControlStandard Deviation of luminescent signal of negative controlFloat%
Additional Information
Grant Number: 1 R03 MH084844-01

Data Table (Concise)
Data Table ( Complete ):     View Active Data    View All Data
Classification
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