Aug 20 12:20 Delete data/embeddings/probe_ksep 12:19 Delete data/embeddings/probe_pfam 12:14 Delete data/embeddings/hpo_ancestor_tfidf_svd256 12:12 Delete data/embeddings/cmap_gse106127_cgs_mean_landmark978_zscore 09:32 Add HPO Ancestor-Propagated TF-IDF SVD-256 embedding 09:20 Add GO Biological Process TF-IDF SVD-256 embedding 08:57 Add DRKG TransE embedding Aug 19 14:11 Add STRING WaveGC and STRING GNN embeddings Aug 4 12:35 Synchronize core display names with Space Set the display_name field in all 68 core embedding metadata.json files to the corresponding catalog name in Gene-Embeddings-Staging. This carries over the v1.1/v1_1 and PROBE-prefix display cleanups without changing stable IDs, paths, matrices, gene tables, or other metadata. The update is applied to current Dataset main, preserving every other field and all unrelated repository changes. Aug 2 09:54 Normalize and restore PROBE Gene2Vec package Restore the complete probe_gene2vec_uniprot package. Reduce genes.tsv to its ordered Ensembl gene ID column, compact metadata.json, update README provenance, and restore embeddings.npz byte-identically. Jul 30 12:52 Refine embedding READMEs and optional metadata Remove obsolete genes.tsv column sections from 67 embedding READMEs and add 23 verified optional metadata values across 18 embeddings. probe_gene2vec_uniprot remains unchanged. 12:31 Normalize genes, metadata, and READMEs for 67 embeddings Reduce genes.tsv files to the ordered ensembl_gene_id column, compact metadata.json files, and preserve removed legacy metadata in each README.md. probe_gene2vec_uniprot is unchanged. Jul 16 09:41 Rename data/embeddings/genept_model3_gene_protein_conservative/metadata.json to data/embeddings/genept_model3_gene_protein/metadata.json 09:41 Rename data/embeddings/genept_ada_conservative/metadata.json to data/embeddings/genept_ada/metadata.json 09:40 Delete data/embeddings/genept_model3_gene_protein/metadata.json 09:40 Delete data/embeddings/genept_ada/metadata.json 09:38 Synchronize embedding metadata and add package QC fields Jul 15 11:24 Update data/embeddings/depmap_crispr_gene_effect_pca256/README.md 11:18 Fix DepMap CRISPR gene-effect PCA256 matrix 09:48 Update data/embeddings/alphagenome_tss1mb_regulatory_tracksummary_pca256/README.md 09:39 Update curated AlphaGenome README documentation: data/embeddings/alphagenome_tss1mb_regulatory_tracksummary_pca256/README.md 09:27 Update data/embeddings/msa_transformer_depth1_uniprot_human/README.md 09:24 Update data/embeddings/biobert_gene_protein_summary/README.md 09:23 Update data/embeddings/pubmedbert_gene_protein_summary/README.md 09:21 Update data/embeddings/biobert_gene_protein_summary/README.md 09:18 Update curated BioBERT PubMedBERT MSA README documentation: data/embeddings/msa_transformer_depth1_uniprot_human/README.md 09:18 Update curated BioBERT PubMedBERT MSA README documentation: data/embeddings/biobert_gene_protein_summary/README.md 09:18 Update curated BioBERT PubMedBERT MSA README documentation: data/embeddings/pubmedbert_gene_protein_summary/README.md 09:10 Update data/embeddings/frogs_archs4_256/README.md 09:08 Update data/embeddings/opa2vec_goa_human/README.md 09:04 Update data/embeddings/mashup_string/README.md 09:00 Update curated Mashup OPA2Vec FRoGS README documentation: data/embeddings/frogs_archs4_256/README.md 09:00 Update curated Mashup OPA2Vec FRoGS README documentation: data/embeddings/opa2vec_goa_human/README.md 09:00 Update curated Mashup OPA2Vec FRoGS README documentation: data/embeddings/mashup_string/README.md 08:48 Update data/embeddings/bioconceptvec_skipgram/README.md 08:47 Update data/embeddings/bioconceptvec_glove/README.md 08:46 Update data/embeddings/bioconceptvec_fasttext/README.md 08:46 Update data/embeddings/bioconceptvec_fasttext/README.md 08:44 Update data/embeddings/bioconceptvec_cbow/README.md 08:43 Rename data/embeddings/genept_model3_gene_protein_conservative/metadata.json to data/embeddings/genept_model3_gene_protein/metadata.json 08:42 Rename data/embeddings/genept_model3_gene_protein_conservative/genes.tsv to data/embeddings/genept_model3_gene_protein/genes.tsv 08:42 Rename data/embeddings/genept_model3_gene_protein_conservative/embeddings.npz to data/embeddings/genept_model3_gene_protein/embeddings.npz 08:41 Rename data/embeddings/genept_model3_gene_protein_conservative/README.md to data/embeddings/genept_model3_gene_protein/README.md 08:40 Update data/embeddings/genept_model3_gene_protein_conservative/README.md 08:39 Rename data/embeddings/genept_ada_conservative/metadata.json to data/embeddings/genept_ada/metadata.json 08:39 Rename data/embeddings/genept_ada_conservative/genes.tsv to data/embeddings/genept_ada/genes.tsv 08:38 Rename data/embeddings/genept_ada_conservative/embeddings.npz to data/embeddings/genept_ada/embeddings.npz 08:37 Rename data/embeddings/genept_ada_conservative/README.md to data/embeddings/genept_ada/README.md 08:35 Update data/embeddings/gene2vec/README.md 08:35 Update data/embeddings/gene2vec/README.md 
