Library of Integrated Network-based Cellular Signatures (LINCS)
The Common Fund’s Library of Integrated Network-based Cellular Signatures (LINCS) program developed a library that catalogs changes that occur when different types of cells are exposed to a variety of agents that disrupt normal cellular functions, called “perturbagens.” This library integrated data across cell types, perturbagens, and measurements of cellular responses for use by scientists to design and conduct experiments that can help us better understand normal and diseased cellular states and how to alter them. (Retrieved from the NIH Common Fund site)
TRAINING & OUTREACH
Summer Research Program in Biomedical Big Data Science
The Ma'ayan Lab's Summer Research Training Program in Biomedical Big Data Science is a research intensive ten-week training program for undergraduates interested in bioinformatics. Summer fellows training in the Ma'ayan Lab at the Icahn School of Medicine at Mount Sinai conduct faculty-mentored research in the areas: data harmonization, machine learning, cloud computing, and data visualization.
Application ends: February 1, 2024
CFDE Webinar Series
The CFDE Webinar Series brings the varied programs of the CFDE to the broad biomedical research community. Join us on the last Friday of each month at 1-2 PM ET to learn the science behind the research programs that comprise CFDE, as well as about the CFDE as a whole and its coordination Centers.
Starts: May 31, 2024
Metadata and Processed Data Files
C2M2
1 Current File(s) | 10 Archived File(s)
Modified 9/18/2023
Current
| Filename | Creator | Filesize | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|---|
| datapackage.zip | LINCS | 169.2 Mb | 9/18/2023 |
Archived
| Filename | Creator | Filesize | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|---|
| datapackage.zip | LINCS | 166.0 Mb | 6/15/2023 | ||
| datapackage.zip | LINCS | 166.7 Mb | 3/21/2023 | ||
| datapackage.zip | LINCS | 166.2 Mb | 12/2/2022 | ||
| datapackage.zip | LINCS | 165.5 Mb | 9/14/2022 | ||
| datapackage.zip | LINCS | 164.2 Mb | 6/20/2022 | ||
| datapackage.zip | LINCS | 171.1 Mb | 4/14/2022 | ||
| datapackage.zip | LINCS | 171.1 Mb | 1/11/2022 | ||
| datapackage.zip | LINCS | 131.1 Mb | 9/29/2021 | ||
| datapackage.zip | LINCS | 141.3 Mb | 6/2/2021 | ||
| datapackage.zip | LINCS | 28.1 Mb | 3/24/2021 |
XMT
2 Current File(s) | 4 Archived File(s)
Modified 12/13/2022
Current
| Filename | Creator | Filesize | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|---|
| LINCS_L1000_CRISPR_KO_Consensus_Sigs.gmt | DRC | 14.9 Mb | 12/13/2022 | ||
| LINCS_L1000_Chem_Pert_Consensus_Sigs.gmt | DRC | 15.6 Mb | 12/13/2022 |
Archived
| Filename | Creator | Filesize | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|---|
| LINCS_L1000_Ligand_Perturbations_up.gmt | DRC | 87.4 Kb | 6/6/2022 | ||
| LINCS_L1000_Chem_Pert_up.gmt | DRC | 15.5 Mb | 6/6/2022 | ||
| LINCS_L1000_Ligand_Perturbations_down.gmt | DRC | 93.0 Kb | 6/6/2022 | ||
| LINCS_L1000_Chem_Pert_down.gmt | DRC | 13.4 Mb | 6/6/2022 |
Attribute Tables
4 Current File(s) | 0 Archived File(s)
Modified 3/29/2024
Current
| Filename | Creator | Filesize | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|---|
| LINCS_L1000_CRISPR_KO_Perturbation_Consensus_CD_Sigs.h5 | DRC | 317.5 Mb | 3/29/2024 | ||
| LINCS_L1000_Chemical_Perturbation_Consensus_CD_Sigs.h5 | DRC | 1.4 Gb | 3/28/2024 | ||
| LINCS L1000 Chemical Perturbations | DRC | 33.6 Gb | 6/23/2021 | ||
| LINCS L1000 CRISPR Perturbations | DRC | 6.5 Gb | 6/23/2021 |
Archived
None Available
Knowledge Graph Assertions
2 Current File(s) | 1 Archived File(s)
Modified 5/8/2024
Current
| Filename | Creator | Filesize | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|---|
| LINCS.zip | DRC | 11.6 Mb | 5/8/2024 | ||
| LINCS.zip | DRC | 11.6 Mb | 5/8/2024 |
Archived
| Filename | Creator | Filesize | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|---|
| LINCS.edges.csv | DRC | 54.6 Mb | 10/26/2023 |
Interoperability Assets
ETL Scripts
2 Current File(s) | 0 Archived File(s)
Modified 5/22/2022
Current
| Name | Creator | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|
| build_file_lincs2021.py | DRC | 6/23/2021 | ||
| process_mcf10a_c2m2.py | DRC | 5/22/2022 |
Archived
None Available
API Specifications
7 Current File(s) | 1 Archived File(s)
Modified 1/31/2023
Current
| Name | Creator | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|
Enrichr (SmartAPI) | DRC | 1/31/2023 | ||
FAIRshake API v2 (SmartAPI) | DRC | 4/5/2022 | ||
Harmonizome (SmartAPI) | DRC | 1/31/2023 | ||
L1000CDS2 (SmartAPI) | DRC | 1/31/2023 | ||
L1000FWD (SmartAPI) | DRC | 1/31/2023 | ||
SigCom LINCS Data (SmartAPI) | DRC | 5/22/2022 | ||
SigCom LINCS Metadata (SmartAPI) | DRC | 5/22/2022 |
Archived
| Name | Creator | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|
FAIRshake (SmartAPI) | DRC | 8/7/2018 |
Entity Pages
4 Current File(s) | 0 Archived File(s)
Modified 3/8/2024
PWB Metanodes
3 Current File(s) | 1 Archived File(s)
Modified 2/26/2024
Current
| Name | Creator | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|
| LINCS L1000 Reverse Search | DRC | 7/19/2023 | ||
| SigCom LINCS Gene Set Search Results | DRC | 2/7/2024 | ||
| SigCom LINCS Signature Search Results | DRC | 2/7/2024 |
Archived
| Name | Creator | Date Modified | DCC Approved | DRC Approved |
|---|---|---|---|---|
| LINCS L1000 Reverse Search | DRC | 2/26/2024 |
Chatbot Specifications
0 Available Files
Current
None Available
Archived
None Available