Merge pull request #108 from protwis/ligand_switch

Updates for March 2022 release
protwis · Mar 30, 2022 · 2bd285f · 2bd285f
2 parents 933359c + 7828967
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diff --git a/ligand_data/assay_data/chembl_assays.csv.gz b/ligand_data/assay_data/chembl_assays.csv.gz
diff --git a/ligand_data/assay_data/chembl_bioactivity_data.csv.gz b/ligand_data/assay_data/chembl_bioactivity_data.csv.gz
diff --git a/ligand_data/assay_data/chembl_cpds.csv.gz b/ligand_data/assay_data/chembl_cpds.csv.gz
diff --git a/ligand_data/assay_data/dictionary.txt b/ligand_data/assay_data/dictionary.txt
diff --git a/ligand_data/assay_data/pubchem_vendor_links.csv.gz b/ligand_data/assay_data/pubchem_vendor_links.csv.gz
diff --git a/ligand_data/assay_data/pubchem_vendor_list.csv.gz b/ligand_data/assay_data/pubchem_vendor_list.csv.gz
diff --git a/ligand_data/bias_data/Biased_ligand_single_pathway_data.xlsx b/ligand_data/bias_data/Biased_ligand_single_pathway_data.xlsx
diff --git a/ligand_data/cell_line/Cell_lines.xlsx b/ligand_data/cell_line/Cell_lines.xlsx
diff --git a/release_notes/2015-09-30.yaml b/release_notes/2015-09-30.yaml
diff --git a/release_notes/2016-05-18.yaml b/release_notes/2016-05-18.yaml
diff --git a/release_notes/2016-09-21.yaml b/release_notes/2016-09-21.yaml
diff --git a/release_notes/2017-05-17.yaml b/release_notes/2017-05-17.yaml
diff --git a/release_notes/2017-07-25.yaml b/release_notes/2017-07-25.yaml
diff --git a/release_notes/2017-11-15.yaml b/release_notes/2017-11-15.yaml
diff --git a/release_notes/2018-04-05.yaml b/release_notes/2018-04-05.yaml
diff --git a/release_notes/2019-01-21.yaml b/release_notes/2019-01-21.yaml
diff --git a/release_notes/2019-03-11.yaml b/release_notes/2019-03-11.yaml
diff --git a/release_notes/2019-10-25.yaml b/release_notes/2019-10-25.yaml
diff --git a/release_notes/2020-09-03.yaml b/release_notes/2020-09-03.yaml
diff --git a/release_notes/2020-10-08.yaml b/release_notes/2020-10-08.yaml
diff --git a/release_notes/2020-11-04.yaml b/release_notes/2020-11-04.yaml
diff --git a/release_notes/2020-12-07.yaml b/release_notes/2020-12-07.yaml
diff --git a/release_notes/2021-01-12.yaml b/release_notes/2021-01-12.yaml
diff --git a/release_notes/2021-02-11.yaml b/release_notes/2021-02-11.yaml
diff --git a/release_notes/2021-03-18.yaml b/release_notes/2021-03-18.yaml
diff --git a/release_notes/2021-04-14.yaml b/release_notes/2021-04-14.yaml
diff --git a/release_notes/2021-05-14.yaml b/release_notes/2021-05-14.yaml
diff --git a/release_notes/2021-06-14.yaml b/release_notes/2021-06-14.yaml
diff --git a/release_notes/2021-07-20.yaml b/release_notes/2021-07-20.yaml
diff --git a/release_notes/2021-09-10.yaml b/release_notes/2021-09-10.yaml
diff --git a/release_notes/2021-10-07.yaml b/release_notes/2021-10-07.yaml
diff --git a/release_notes/2021-11-04.yaml b/release_notes/2021-11-04.yaml
diff --git a/release_notes/2021-12-23.yaml b/release_notes/2021-12-23.yaml
diff --git a/release_notes/2022-01-31.yaml b/release_notes/2022-01-31.yaml
diff --git a/release_notes/2022-03-30.html b/release_notes/2022-03-30.html
@@ -0,0 +1,20 @@
+<ul>
+	<li>Release of the new Biased Signalling resource</li>
+	<ul>
+		<li>Bias calculations according to the recently published <a href="https://doi.org/10.1111/bph.15811" target="_blank">Community Guidelines for GPCR Ligand Bias</a>.</li>
+		<li>In-depth browsing and plotting of biased signalling data for individual receptors on transducer family and subtype level.</li>
+		<li>Visualisation of the trends in the signalling data via the <a href="https://gpcrdb.org/biased_signalling/bias_statistics"> statistics</a> pages.</li>
+		<li>Annotation of endogenous ligands via the Guide to Pharmacology for identifying physiology-biased ligands.</li>
+		<li>Comparison of receptor-signalling profiles between any ligand with signalling data for a given receptor.</li>
+	</ul>
+	<li>Revamped ligand handling in GPCRdb</li>
+	<ul>
+		<li>Improved ligand identification, processing, curation, integration, and crosslinking.</li>
+		<li>Updated GPCR ligand and bioactivity data from ChEMBL.</li>
+		<li>Updated ligand vendor data from PubChem.</li>
+		<li>Linking ligands to external sources (<a href="https://www.guidetopharmacology.org" target="_blank">Guide to Pharmacology</a>, <a href="https://www.ebi.ac.uk/chembl/" target="_blank">ChEMBL</a>, <a href="https://pubchem.ncbi.nlm.nih.gov" target="_blank">PubChem</a>, <a href="https://drugcentral.org" target="_blank">Drug Central</a>, and <a href="https://www.drugbank.ca" target="_blank">DrugBank</a>). </li>
+	</ul>
+	<li>Updated <a href="https://gpcrdb.org/structure/">GPCR</a> and <a href="https://gproteindb.org/structure/g_protein_structure_browser">G protein</a> structures.</li>
+	<li>Updated GPCR <a href="https://gpcrdb.org/structure/homology_models">homology</a> and <a href="https://gpcrdb.org/structure/">refined</a> structure models.</li>
+	<li>Minor bug and performance fixes.</li>
+</ul>
diff --git a/structure_data/Structural_Annotation.xlsx b/structure_data/Structural_Annotation.xlsx
diff --git a/structure_data/annotation/GPCRdb_structure_info.xlsx b/structure_data/annotation/GPCRdb_structure_info.xlsx
diff --git a/structure_data/annotation/fusion_proteins.csv b/structure_data/annotation/fusion_proteins.csv
@@ -338,3 +338,11 @@ PDB	Name
 7VUI	Xylanase
 7VUJ	Xylanase
 7F8X	T4-Lysozyme
+7B6W	DARPin D12
+7WC4	BRIL
+7WC5	BRIL
+7WC6	BRIL
+7WC7	BRIL
+7WC8	BRIL
+7WC9	BRIL
+7F83	BRIL
diff --git a/structure_data/annotation/g_proteins.csv b/structure_data/annotation/g_proteins.csv
@@ -205,3 +205,9 @@ PDB	Alpha_UniProt	Alpha_ChainID	Beta_UniProt	Beta_ChainID	Gamma_UniProt	Gamma_Ch
 7EO2	gnai1_human	B	gbb1_human	C	gbg2_human	D	
 7EO4	gnai1_human	B	gbb1_human	C	gbg2_human	D	
 7WF7	gnai1_human	B	gbb1_human	C	gbg2_human	D	
+7W2Z	gnao_human	A	gbb1_human	B	gbg2_human	G	
+7LLL	gnas2_human	A	gbb1_human	B	gbg2_human	G	
+7LLY	gnas2_human	A	gbb1_human	B	gbg2_human	G	
+7RKF	gna11_human	A	gbb1_human	B	gbg2_human	G	
+7RKM	gnai1_human	A	gbb1_human	B	gbg2_human	C	
+7RKN	gnai1_human	A	gbb1_human	B	gbg2_human	C	
diff --git a/structure_data/annotation/ligands.csv b/structure_data/annotation/ligands.csv