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ZENODO
Dataset . 2023
License: CC BY
Data sources: Datacite
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ZENODO
Dataset . 2023
License: CC BY
Data sources: Datacite
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ZENODO
Dataset . 2023
License: CC BY
Data sources: ZENODO
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ProteinCartography v0.4 analyses for sample of most-studied human proteins

Authors: Bigge, Brae M; Sun, Dennis A;

ProteinCartography v0.4 analyses for sample of most-studied human proteins

Abstract

Results from running the ProteinCartography pipeline (v0.4) using analyses on 25 proteins sampled from the most-studied human proteins listed in Liu and Buck, 2021. The proteins included are listed in the table below. The results for each analysis are provided as individually-zipped folders, with the name of the file reflective of the protein name. To download all of the analyses in one folder, you can download the "25humanprotein_analysis.zip" file. UniProt ID Protein name Protein symbol (in figures) Q9UM73 ALK tyrosine kinase receptor ALK Q96RI1 Bile acid receptor NR1H4 P43235 Cathepsin K CATK P08603 Complement factor H CFAH P00374 Dihydrofolate reductase DYR P98170 E3 ubiquitin-protein ligase XIAP XIAP P49841 Glycogen synthase kinase-3 beta GSK3B P01112 GTPase HRas RASH P68871 Hemoglobin subunit beta HBB P04439 HLA class I histocompatibility antigen, A alpha chain HLAA P01834 Immunoglobulin kappa constant IGKC P14174 Macrophage migration inhibitory factor MIF P53779 Mitogen-activated protein kinase 10 MK10 Q15596 Nuclear receptor coactivator 2 NCOA2 Q99497 Parkinson disease protein 7 PARK7 P62937 Peptidyl-prolyl cis-trans isomerase A PPIA Q13451 Peptidyl-prolyl cis-trans isomerase FKBP5 FKBP5 P27986 Phosphatidylinositol 3-kinase regulatory subunit alpha P85A O75530 Polycomb protein EED EED P28074 Proteasome subunit beta type-5 PSB5 P19793 Retinoic acid receptor RXR-alpha RXRA P50120 Retinol-binding protein 2 RET2 P00441 Superoxide dismutase [Ccu-Zn] SODC Q93009 Ubiquitin carboxyl-terminal hydrolase 7 UPB7 P40337 von Hippel -–Lindau disease tumor suppressor VHL A TSV file, "most_studied_human_proteins.tsv", is included for use with the analysis notebook ("pub/most_studied_human_proteins.ipynb") found in our GitHub repository for the Arcadia Science Pub "ProteinCartography: Comparing proteins with structure-based maps for interactive exploration". The notebook produces the outputs, "sampled_proteins.tsv", and. "most_studied_human_proteins_analysis.tsv", which are used by the analysis notebook ("pub/cluster_quality_human_proteins.ipynb"), which uses the contents of this deposition.

Related Organizations
Keywords

protein clustering, AlphaFold, human, Foldseek, protein structure

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selected citations
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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
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influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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