Download BioPlex Protein-Protein Interaction Data
Citations for the below data, please cite appropriately.
Select a dataset to download and view interactions
| Dataset | Cell line | Description | # Baits | # Interactions | Reference |
|---|---|---|---|---|---|
| BioPlex 1.0 Interactions (293T Cells) | HEK293T | Summary of protein interactions in the BioPlex 1.0 Network for HEK293T cell AP-MS. | 2,594 | ~24,000 | Huttlin et al. (2015) Cell |
| BioPlex 2.0 Interactions (293T Cells) | HEK293T | Summary of protein interactions in the BioPlex 2.0 Network for HEK293T cell AP-MS. | 5,891 | ~56,000 | Huttlin et al. (2017) Nature |
| BioPlex 3.0 Interactions (293T Cells) | HEK293T | Summary of protein interactions in the BioPlex 3.0 Network for HEK293T cell AP-MS. | 10,128 | ~120,000 | Huttlin et al. (2021) Cell |
| BioPlex 3.0 Interactions (HCT116 Cells) | HCT116 | Summary of protein interactions in the BioPlex 3.0 Network for HCT116 cell AP-MS. | 5,522 | ~71,000 | Huttlin et al. (2021) Cell |
Select a dataset to download and view directed bait-prey interactions
| Dataset | Cell line | Description | # Baits | # Interactions | Reference |
|---|---|---|---|---|---|
| BioPlex 1.0 Directed Interactions (293T Cells) | HEK293T | List of directed bait-prey interactions in the BioPlex 1.0 Network for HEK293T cell AP-MS. | 2,594 | ~24,000 | Huttlin et al. (2015) Cell |
| BioPlex 2.0 Directed Interactions (293T Cells) | HEK293T | List of directed bait-prey interactions in the BioPlex 2.0 Network for HEK293T cell AP-MS. | 5,891 | ~60,000 | Huttlin et al. (2017) Nature |
| BioPlex 3.0 Directed Interactions (293T Cells) | HEK293T | List of directed bait-prey interactions in the BioPlex 3.0 Network for HEK293T cell AP-MS. | 10,128 | ~130,000 | Huttlin et al. (2021) Cell |
| BioPlex 3.0 Directed Interactions (HCT116 Cells) | HCT116 | List of directed bait-prey interactions in the BioPlex 3.0 Network for HCT116 cell AP-MS. | 5,522 | ~77,000 | Huttlin et al. (2021) Cell |
* Note: The files in this table list directed edges from each version of the BioPlex network as described. Because they list directed, rather than undirected, edges, the final edge counts differ slightly from the undirected lists in the table above. Most published analyses have been performed on undirected versions of the BioPlex networks, so results obtained using these directed networks may differ.
Download the original BioPlex viewer.
To use this browser you will need the Wolfram Player or a valid Mathematica license.
Wolfram Player: https://www.wolfram.com/player/| Browswer Version | Description | Reference |
|---|---|---|
| BioPlex 1.0 | CDF viewer to explore HEK293T BioPlex 1.0 interactome | Huttlin et al. (2015) Cell |
Download unfiltered BioPlex protein-protein interaction data
Select a dataset to download and view candidate interactions prior to filtering to remove background
| Dataset | Description | Reference |
|---|---|---|
| BioPlex 2.0 Unfiltered Interaction List | Summary of all potential interactions in the BioPlex 2.0 Network. WARNING: this list has not been filtered to remove background and nonspecific interactors. Use with caution. | Huttlin et al. (2017) Nature |
| BioPlex 3.0 Unfiltered Interaction List | Summary of all potential interactions in the BioPlex 3.0 Network (293T Cells). WARNING: this list has not been filtered to remove background and nonspecific interactors. Use with caution. | Huttlin et al. (2021) Cell |
| BioPlex HCT116 1.0 Unfiltered Interaction List | Summary of all potential interactions in the BioPlex HCT116 1.0 Network (HCT116 Cells). WARNING: this list has not been filtered to remove background and nonspecific interactors. Use with caution. | Huttlin et al. (2021) Cell |
* Note: the files in this table HAVE NOT been filtered to remove non-specific interacting proteins and background.
Other Datasets
| Dataset | Description | Reference(s) |
|---|---|---|
| 293T-HCT116 Proteome Comparison | This file contains a summary of protein abundances from a TMT experiment comparing 5 vs. 5 293T and HCT116 cell lysates. Data were quantified with real-time search MS3 quantitation as described in Erickson et al. (2019) J. Prot. Res 18(3):1299-1306. Data were also analyzed in Huttlin et al. (2021) Cell and are reproduced in Table S1 from that paper. Column descriptions are available here. | Erickson et al. (2019) J. Prot. Res.Huttlin et al. (2021) Cell |
This table contains various datasets that have been released alongside the networks we published.
Quarterly updates - U24
| Year | Quarter | Date | Cell Line | First-pass baits |
|---|---|---|---|---|
| 1 | Q1 | 11/15/2018 | HCT116 | 405 |
| 1 | Q2 | 3/1/2019 | HCT116 | 399 |
| 1 | Q3 | 5/1/2019 | HCT116 | 400 |
| 1 | Q4 | 8/1/2019 | HCT116 | 391 |
| 2 | Q1 | 11/1/2019 | HCT116 | 404 |
| 2 | Q2 | 2/1/2020 | HCT116 | 410 |
| 2 | Q3 | 5/1/2020 | HCT116 | 405 |
| 2 | Q4 | 8/1/2020 | None | 0 (COVID Shutdown*) |
| 3 | Q1 | 11/1/2020 | None | 0 (COVID Shutdown*) |
| 3 | Q2 | 2/1/2021 | HCT116 | 415 |
| 3 | Q3 | 5/1/2021 | HCT116 | 410 |
| 3 | Q4 | 8/1/2021 | HCT116 | 409 |
| 3 | Q4 | 8/1/2021 | U2OS | 2279 |
| 4 | Q1 | 11/1/2021 | HCT116 | 413 |
| 4 | Q1 | 2/14/2022 | RPE-1 | 1925 |
*These two data releases were postponed as a result of a mandatory pipeline shutdown due to COVID in early 2020.
NOTE: This unpublished data is provided as a resource to enable researchers to obtain information on individual proteins. With proper attribution, we highly encourage publication of targeted biological studies that follow up on individual complexes and interactions. However, we request that users refrain from publishing large-scale analysis or data mining studies using this data until we have published its contents in a peer-reviewed journal.
Quarterly updates - U41
| Year | Quarter | Date | First-pass baits |
|---|---|---|---|
| 1 | Q1 | 12/01/2015 | 362 |
| 1 | Q2 | 05/01/2016 | 298 |
| 1 | Q3 | 08/01/2016 | 325 |
| 1 | Q4 | 12/01/2016 | 299 |
| 2 | Q2 | 4/01/2017 | 298 |
| 2 | Q3 | 10/31/2017 | 275 |