Download BioPlex Protein-Protein Interaction Data

Official Releases BioPlex 1.0 CDF Viewer Unfiltered Release Other Datasets Quarterly Release for U24 Quarterly Release for U41

Citations for the below data, please cite appropriately.

  1. Huttlin et al. (2015) Cell 162(2):425. doi: 10.1016/j.cell.2015.06.043.
  2. Huttlin et al. (2017) Nature 545:505-509. doi: 10.1038/nature22366.
  3. Huttlin et al. (2021) Cell 184(11):3022-3040. doi: 10.1016/j.cell.2021.04.011.

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 HCT116 v. 1.0 (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

Download the original BioPlex viewer.

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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
*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
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.