id stringlengths 13 13 | branch stringclasses 3
values | go_id stringlengths 10 10 | genes stringlengths 11 2.73k | genes_list listlengths 3 456 | gene_count int64 3 456 | process_name stringlengths 5 173 | system stringclasses 1
value | user stringlengths 1.47k 4.18k | prompt stringlengths 1.57k 4.28k | source_file stringclasses 3
values | source_row int64 0 999 | target_mode stringclasses 1
value | completion stringlengths 362 866 | split stringclasses 1
value | text stringlengths 1.96k 4.73k | prompt_tokens int64 311 1.89k | completion_tokens int64 82 184 | total_tokens int64 397 1.98k |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
BP:GO:0090240 | BP | GO:0090240 | BRCA1 AUTS2 PIH1D1 MUC1 ARRB1 SMARCB1 | [
"BRCA1",
"AUTS2",
"PIH1D1",
"MUC1",
"ARRB1",
"SMARCB1"
] | 6 | positive regulation of histone H4 acetylation | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 303 | gold_label_with_stub_reasoning | Process: positive regulation of histone H4 acetylation
Analysis: The provided genes are annotated to the Gene Ontology biological process term "positive regulation of histone H4 acetylation" (GO:0090240). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated ... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 327 | 109 | 436 |
MF:GO:0048027 | MF | GO:0048027 | SHMT1 IGF2BP1 SYNCRIP DDX3X RPL5 DHX36 RPS7 GNL3 IGF2BP2 NCL IGF2BP3 FMR1 RPL41 RPS14 RARA LARP1 CCT5 RPS3A RPS13 RSL1D1 UTP23 RPL26 MYH10 LARP6 | [
"SHMT1",
"IGF2BP1",
"SYNCRIP",
"DDX3X",
"RPL5",
"DHX36",
"RPS7",
"GNL3",
"IGF2BP2",
"NCL",
"IGF2BP3",
"FMR1",
"RPL41",
"RPS14",
"RARA",
"LARP1",
"CCT5",
"RPS3A",
"RPS13",
"RSL1D1",
"UTP23",
"RPL26",
"MYH10",
"LARP6"
] | 24 | mRNA 5'-UTR binding | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 740 | gold_label_with_stub_reasoning | Process: mRNA 5'-UTR binding
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "mRNA 5'-UTR binding" (GO:0048027). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "mRNA 5'-UTR bindi... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 385 | 102 | 487 |
MF:GO:0051427 | MF | GO:0051427 | GNRH1 GPHB5 PTHLH NPPA FABP4 CSH1 GH2 NPPB JAK1 GNRH2 VIP UCN3 GH1 JAK2 CSHL1 TYK2 GHRH PSMC5 PTH CSH2 JAK3 ADCYAP1 UCN CRH CCK NPPC LEP SOCS2 UCN2 GNAS GPHA2 GNAO1 PTPN11 | [
"GNRH1",
"GPHB5",
"PTHLH",
"NPPA",
"FABP4",
"CSH1",
"GH2",
"NPPB",
"JAK1",
"GNRH2",
"VIP",
"UCN3",
"GH1",
"JAK2",
"CSHL1",
"TYK2",
"GHRH",
"PSMC5",
"PTH",
"CSH2",
"JAK3",
"ADCYAP1",
"UCN",
"CRH",
"CCK",
"NPPC",
"LEP",
"SOCS2",
"UCN2",
"GNAS",
"GPHA2",
"G... | 33 | hormone receptor binding | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 121 | gold_label_with_stub_reasoning | Process: hormone receptor binding
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "hormone receptor binding" (GO:0051427). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "hormone... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 405 | 92 | 497 |
CC:GO:1990696 | CC | GO:1990696 | PDZD7 ADGRV1 WHRN USH2A | [
"PDZD7",
"ADGRV1",
"WHRN",
"USH2A"
] | 4 | USH2 complex | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 551 | gold_label_with_stub_reasoning | Process: USH2 complex
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "USH2 complex" (GO:1990696). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "USH2 complex" (GO:1990696), so ... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 319 | 89 | 408 |
BP:GO:0019216 | BP | GO:0019216 | APOC3 APOE PIP4K2A POR NR4A3 CES1 HCAR1 STAT5B PPP2R5A FITM2 ADRA2A ARMC5 UGT1A8 PDGFRA EDF1 MTMR1 RNF213 ETFBKMT DGKQ MFSD2A MTOR CHP1 FMC1 CLCN2 ID2 ACADVL SERPINA12 SREBF1 MLYCD PDK2 CPT1A BSCL2 ABCG4 LEP PDE8B DKK3 LPIN1 WDTC1 LYN MBTPS1 FGR ABHD5 THRSP INS RGN SERPINA3 PPARGC1A IFNG IDH1 APOA4 PRKCE SOX9 SNAI2 FAM... | [
"APOC3",
"APOE",
"PIP4K2A",
"POR",
"NR4A3",
"CES1",
"HCAR1",
"STAT5B",
"PPP2R5A",
"FITM2",
"ADRA2A",
"ARMC5",
"UGT1A8",
"PDGFRA",
"EDF1",
"MTMR1",
"RNF213",
"ETFBKMT",
"DGKQ",
"MFSD2A",
"MTOR",
"CHP1",
"FMC1",
"CLCN2",
"ID2",
"ACADVL",
"SERPINA12",
"SREBF1",
"... | 335 | regulation of lipid metabolic process | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 872 | gold_label_with_stub_reasoning | Process: regulation of lipid metabolic process
Analysis: The provided genes are annotated to the Gene Ontology biological process term "regulation of lipid metabolic process" (GO:0019216). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene On... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 1,400 | 96 | 1,496 |
MF:GO:0004017 | MF | GO:0004017 | AK5 AK8 AK7 AK1 AK9 AK4 AK2 AK6 AK3 | [
"AK5",
"AK8",
"AK7",
"AK1",
"AK9",
"AK4",
"AK2",
"AK6",
"AK3"
] | 9 | adenylate kinase activity | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 697 | gold_label_with_stub_reasoning | Process: adenylate kinase activity
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "adenylate kinase activity" (GO:0004017). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "adeny... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 324 | 94 | 418 |
CC:GO:0000794 | CC | GO:0000794 | FKBP6 FAM9B TOPBP1 MLH3 SMC3 NCAPH HUS1B RNF212B NIFK DMC1 FAM9C SYCE3 C14orf39 RNF212 CHEK1 BLM ADD3 MSH4 SYCE1 PLK1 IHO1 RAD50 KIFAP3 FAM9A BRCA2 HSPA2 RGS12 SYCP3 RAD9A NCAPH2 SMC2 SYCE1L NCAPD3 TEX11 NCAPD2 SUV39H1 RCC1 NCAPG2 PSMC3IP KASH5 DNMT3L SUN2 RAD9B RAD51 NOL6 RAD1 UBE2I NCAPG HORMAD2 P3H4 BRCA1 SYN1 NEK2 ... | [
"FKBP6",
"FAM9B",
"TOPBP1",
"MLH3",
"SMC3",
"NCAPH",
"HUS1B",
"RNF212B",
"NIFK",
"DMC1",
"FAM9C",
"SYCE3",
"C14orf39",
"RNF212",
"CHEK1",
"BLM",
"ADD3",
"MSH4",
"SYCE1",
"PLK1",
"IHO1",
"RAD50",
"KIFAP3",
"FAM9A",
"BRCA2",
"HSPA2",
"RGS12",
"SYCP3",
"RAD9A",
... | 81 | condensed nuclear chromosome | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 257 | gold_label_with_stub_reasoning | Process: condensed nuclear chromosome
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "condensed nuclear chromosome" (GO:0000794). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation ... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 562 | 90 | 652 |
MF:GO:0034185 | MF | GO:0034185 | MTTP SCARB1 TREM2 PLG LIPC LPL MAPT LCAT LRP4 HSPD1 ABCA1 LRP1 PCSK9 LPA VLDLR LILRB4 LRP8 | [
"MTTP",
"SCARB1",
"TREM2",
"PLG",
"LIPC",
"LPL",
"MAPT",
"LCAT",
"LRP4",
"HSPD1",
"ABCA1",
"LRP1",
"PCSK9",
"LPA",
"VLDLR",
"LILRB4",
"LRP8"
] | 17 | apolipoprotein binding | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 216 | gold_label_with_stub_reasoning | Process: apolipoprotein binding
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "apolipoprotein binding" (GO:0034185). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "apolipoprot... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 352 | 92 | 444 |
BP:GO:0003012 | BP | GO:0003012 | KCNIP2 GAA BECN1 ABCC8 CACNB1 P2RY1 ATP2B1 KCNA5 MAP2K3 DOCK4 RYR2 PABPN1 NEDD4L TNNC2 MYOG NR4A3 ADORA2B SMAD4 TACR2 INPP5F GTF2IRD1 ADRA2A CAMK2B SCN5A CAMK2G SELENON CCN2 NOS1 SLC9A1 SCN11A MTOR AGT GATA4 ZDHHC21 CHRM3 NMU ASPH GLRX3 OXTR TNNT3 TNNI2 MYL3 LEP MKKS SLMAP GSTO1 TRPM4 ADRA2B JSRP1 ACTA2 RAP1GDS1 PARP2 ... | [
"KCNIP2",
"GAA",
"BECN1",
"ABCC8",
"CACNB1",
"P2RY1",
"ATP2B1",
"KCNA5",
"MAP2K3",
"DOCK4",
"RYR2",
"PABPN1",
"NEDD4L",
"TNNC2",
"MYOG",
"NR4A3",
"ADORA2B",
"SMAD4",
"TACR2",
"INPP5F",
"GTF2IRD1",
"ADRA2A",
"CAMK2B",
"SCN5A",
"CAMK2G",
"SELENON",
"CCN2",
"NOS1",... | 425 | muscle system process | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 800 | gold_label_with_stub_reasoning | Process: muscle system process
Analysis: The provided genes are annotated to the Gene Ontology biological process term "muscle system process" (GO:0003012). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "muscle system... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 1,662 | 90 | 1,752 |
MF:GO:0045309 | MF | GO:0045309 | ABL2 PIK3R2 VAV2 CBLB YWHAG LDLRAP1 CRKL SHB SHE VAV1 SHC3 SAMSN1 PTPN11 SH2D3C PIK3R3 SOCS3 YWHAZ MAPK1 YES1 PLCG2 HCK PIK3R1 CRK RASA1 PCIF1 GRAP2 LCK SYK GRAP GRB2 SCAF4 NCK2 SLA SHD IRS1 LEO1 ABL1 BTRC SH2D3A PIN1 CBLC BCAR3 ZAP70 SHC1 NEDD4 PTPN3 PTPN6 PTPN5 PFN1 YWHAB SH3BP2 YWHAE CBL MAPK3 FBXW7 SCAF8 STAP1 FGR | [
"ABL2",
"PIK3R2",
"VAV2",
"CBLB",
"YWHAG",
"LDLRAP1",
"CRKL",
"SHB",
"SHE",
"VAV1",
"SHC3",
"SAMSN1",
"PTPN11",
"SH2D3C",
"PIK3R3",
"SOCS3",
"YWHAZ",
"MAPK1",
"YES1",
"PLCG2",
"HCK",
"PIK3R1",
"CRK",
"RASA1",
"PCIF1",
"GRAP2",
"LCK",
"SYK",
"GRAP",
"GRB2",
... | 58 | protein phosphorylated amino acid binding | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 654 | gold_label_with_stub_reasoning | Process: protein phosphorylated amino acid binding
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "protein phosphorylated amino acid binding" (GO:0045309). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 481 | 97 | 578 |
CC:GO:0043256 | CC | GO:0043256 | LAMC1 LAMB3 NTN4 LAMC2 LAMB2 LAMA5 LAMA3 LAMB1 LAMA1 | [
"LAMC1",
"LAMB3",
"NTN4",
"LAMC2",
"LAMB2",
"LAMA5",
"LAMA3",
"LAMB1",
"LAMA1"
] | 9 | laminin complex | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 296 | gold_label_with_stub_reasoning | Process: laminin complex
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "laminin complex" (GO:0043256). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "laminin complex" (GO:0043... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 334 | 90 | 424 |
MF:GO:0102158 | MF | GO:0102158 | HACD4 HACD1 HACD2 HACD3 | [
"HACD4",
"HACD1",
"HACD2",
"HACD3"
] | 4 | very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase activity | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 628 | gold_label_with_stub_reasoning | Process: very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase activity
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase activity" (GO:0102158). This target is derived from the released GO label for the gene set.
Reasoning: <think... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 322 | 139 | 461 |
BP:GO:0034759 | BP | GO:0034759 | IFNG ISCU HAMP ATP7A | [
"IFNG",
"ISCU",
"HAMP",
"ATP7A"
] | 4 | regulation of iron ion transmembrane transport | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 76 | gold_label_with_stub_reasoning | Process: regulation of iron ion transmembrane transport
Analysis: The provided genes are annotated to the Gene Ontology biological process term "regulation of iron ion transmembrane transport" (GO:0034759). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associate... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 315 | 105 | 420 |
CC:GO:0140284 | CC | GO:0140284 | MOSPD2 STARD3NL STARD3 TMCC1 | [
"MOSPD2",
"STARD3NL",
"STARD3",
"TMCC1"
] | 4 | endoplasmic reticulum-endosome membrane contact site | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 177 | gold_label_with_stub_reasoning | Process: endoplasmic reticulum-endosome membrane contact site
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "endoplasmic reticulum-endosome membrane contact site" (GO:0140284). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set ... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 319 | 115 | 434 |
CC:GO:1905286 | CC | GO:1905286 | THBD MBL2 CFH COLEC11 F7 HTRA2 PLAU FCN1 FCN2 COLEC10 FCN3 F3 PLAUR | [
"THBD",
"MBL2",
"CFH",
"COLEC11",
"F7",
"HTRA2",
"PLAU",
"FCN1",
"FCN2",
"COLEC10",
"FCN3",
"F3",
"PLAUR"
] | 13 | serine-type peptidase complex | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 234 | gold_label_with_stub_reasoning | Process: serine-type peptidase complex
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "serine-type peptidase complex" (GO:1905286). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotatio... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 339 | 103 | 442 |
BP:GO:0022406 | BP | GO:0022406 | STX16 VTI1B STXBP1 STX1A EXOC7 RAB12 RAB13 UNC13B CFTR RAB3B ICAM1 STX7 RAB7A PLEK VCAM1 VMP1 PPFIA3 TSNARE1 STX2 RAB15 EXOC2 BLOC1S6 STX8 MSN STXBP3 ESYT3 VAMP3 YKT6 SCFD2 STX17 RAB3A ESYT2 STX5 EXOC4 ESYT1 CHP1 CTBP2 VPS18 RALB PEX26 UNC13C EXOC6 STX12 MOSPD3 RAB3IP UNC13A CEP290 VAMP8 STXBP2 EXOC5 PSEN2 EXOC3 ATP2A2... | [
"STX16",
"VTI1B",
"STXBP1",
"STX1A",
"EXOC7",
"RAB12",
"RAB13",
"UNC13B",
"CFTR",
"RAB3B",
"ICAM1",
"STX7",
"RAB7A",
"PLEK",
"VCAM1",
"VMP1",
"PPFIA3",
"TSNARE1",
"STX2",
"RAB15",
"EXOC2",
"BLOC1S6",
"STX8",
"MSN",
"STXBP3",
"ESYT3",
"VAMP3",
"YKT6",
"SCFD2",
... | 94 | membrane docking | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 911 | gold_label_with_stub_reasoning | Process: membrane docking
Analysis: The provided genes are annotated to the Gene Ontology biological process term "membrane docking" (GO:0022406). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "membrane docking" (GO:0... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 608 | 87 | 695 |
CC:GO:0070516 | CC | GO:0070516 | MNAT1 ERCC2 CDK7 CCNH | [
"MNAT1",
"ERCC2",
"CDK7",
"CCNH"
] | 4 | CAK-ERCC2 complex | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 624 | gold_label_with_stub_reasoning | Process: CAK-ERCC2 complex
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "CAK-ERCC2 complex" (GO:0070516). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "CAK-ERCC2 complex" (G... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 317 | 100 | 417 |
MF:GO:0005253 | MF | GO:0005253 | CLCN3 GABRP GABRA3 ANO8 CLCA1 CLIC3 NMUR2 SLC26A9 GABRA5 GABRR1 GABRQ ANO3 CLIC5 GABRD GABRA4 PACC1 SLC1A7 GABRB3 GABRG2 CLIC6 CFTR SLC26A6 CCT8L2 GLRA2 ANO5 BEST4 TTYH3 GABRG3 ANO6 FXYD1 LRRC8C GABRG1 TTYH2 BEST3 SLC17A6 BSND CLIC1 SLC26A11 SLC1A1 ANO7 ANO10 CLCN6 GABRR2 LRRC8D TTYH1 ANO4 APOL1 CLCN2 LRRC8B CLCNKA SLC... | [
"CLCN3",
"GABRP",
"GABRA3",
"ANO8",
"CLCA1",
"CLIC3",
"NMUR2",
"SLC26A9",
"GABRA5",
"GABRR1",
"GABRQ",
"ANO3",
"CLIC5",
"GABRD",
"GABRA4",
"PACC1",
"SLC1A7",
"GABRB3",
"GABRG2",
"CLIC6",
"CFTR",
"SLC26A6",
"CCT8L2",
"GLRA2",
"ANO5",
"BEST4",
"TTYH3",
"GABRG3",
... | 93 | monoatomic anion channel activity | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 406 | gold_label_with_stub_reasoning | Process: monoatomic anion channel activity
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "monoatomic anion channel activity" (GO:0005253). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology a... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 631 | 97 | 728 |
CC:GO:0019773 | CC | GO:0019773 | PSMA8 PSMA6 PSMA2 PSMA4 PSMA5 PSMA1 PSMA3 PSMA7 | [
"PSMA8",
"PSMA6",
"PSMA2",
"PSMA4",
"PSMA5",
"PSMA1",
"PSMA3",
"PSMA7"
] | 8 | proteasome core complex, alpha-subunit complex | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 693 | gold_label_with_stub_reasoning | Process: proteasome core complex, alpha-subunit complex
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "proteasome core complex, alpha-subunit complex" (GO:0019773). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associate... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 330 | 111 | 441 |
MF:GO:0004999 | MF | GO:0004999 | ADCYAP1R1 VIPR1 VIPR2 | [
"ADCYAP1R1",
"VIPR1",
"VIPR2"
] | 3 | vasoactive intestinal polypeptide receptor activity | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 897 | gold_label_with_stub_reasoning | Process: vasoactive intestinal polypeptide receptor activity
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "vasoactive intestinal polypeptide receptor activity" (GO:0004999). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 318 | 106 | 424 |
MF:GO:0016997 | MF | GO:0016997 | NEU1 NEU4 NEU3 NEU2 | [
"NEU1",
"NEU4",
"NEU3",
"NEU2"
] | 4 | alpha-sialidase activity | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/MF_1000_selected_go_terms.csv | 79 | gold_label_with_stub_reasoning | Process: alpha-sialidase activity
Analysis: The provided genes are annotated to the Gene Ontology molecular function term "alpha-sialidase activity" (GO:0016997). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "alpha-s... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 318 | 97 | 415 |
CC:GO:0005927 | CC | GO:0005927 | CIB2 HMCN1 NRAP SMPX | [
"CIB2",
"HMCN1",
"NRAP",
"SMPX"
] | 4 | muscle tendon junction | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/upstream_hu_data/CC_MF_branch/CC_1000_selected_go_terms.csv | 160 | gold_label_with_stub_reasoning | Process: muscle tendon junction
Analysis: The provided genes are annotated to the Gene Ontology cellular component term "muscle tendon junction" (GO:0005927). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the Gene Ontology annotation "muscle tend... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 317 | 90 | 407 |
BP:GO:0032070 | BP | GO:0032070 | SIRT1 PCNA HMGB1 NPM1 AKT1 DFFA GZMA DDX11 RPS3 PRKCD | [
"SIRT1",
"PCNA",
"HMGB1",
"NPM1",
"AKT1",
"DFFA",
"GZMA",
"DDX11",
"RPS3",
"PRKCD"
] | 10 | regulation of deoxyribonuclease activity | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 209 | gold_label_with_stub_reasoning | Process: regulation of deoxyribonuclease activity
Analysis: The provided genes are annotated to the Gene Ontology biological process term "regulation of deoxyribonuclease activity" (GO:0032070). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the G... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 335 | 108 | 443 |
BP:GO:0005981 | BP | GO:0005981 | PPP1R3D PHKG2 PPP1CA INS PPP1R3B | [
"PPP1R3D",
"PHKG2",
"PPP1CA",
"INS",
"PPP1R3B"
] | 5 | regulation of glycogen catabolic process | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 86 | gold_label_with_stub_reasoning | Process: regulation of glycogen catabolic process
Analysis: The provided genes are annotated to the Gene Ontology biological process term "regulation of glycogen catabolic process" (GO:0005981). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene set is associated with the G... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 323 | 105 | 428 |
BP:GO:0044344 | BP | GO:0044344 | FGFRL1 FGF16 CD44 TBX1 KIF16B LHX1 ZFP36L2 HHIP COL1A1 SULF2 SOS1 TBX2 NDNF WNT4 CCL2 NPTN WNT5A FGF7 FGF20 CCN2 APLN KDM5B FGF9 SPRY1 NDST1 FGF5 ITGB1BP1 FRS2 PRDM14 FLRT1 DLL4 NOG FAM20C PRKD2 SMOC2 CPS1 FGF21 FGF22 FGFBP1 EXT1 OTX2 NGFR TRIM71 FUZ CREB3L1 DSTYK IQGAP1 CXCL13 FGFR2 FGF4 GCLC FLRT3 GALNT3 FGF1 FGF19 C... | [
"FGFRL1",
"FGF16",
"CD44",
"TBX1",
"KIF16B",
"LHX1",
"ZFP36L2",
"HHIP",
"COL1A1",
"SULF2",
"SOS1",
"TBX2",
"NDNF",
"WNT4",
"CCL2",
"NPTN",
"WNT5A",
"FGF7",
"FGF20",
"CCN2",
"APLN",
"KDM5B",
"FGF9",
"SPRY1",
"NDST1",
"FGF5",
"ITGB1BP1",
"FRS2",
"PRDM14",
"FLR... | 105 | cellular response to fibroblast growth factor stimulus | You are an efficient and insightful assistant to a molecular biologist. | Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such as biological process,
molecular function, cellular component, and so on.
The proposed na... | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | /Users/bogdan.didenko/workshop/gene_r1_paper/zenodo_15008591/extracted/ncbi-nlp-GeneAgent-db0e558/Datasets/Gene Ontology/GO_terms.csv | 842 | gold_label_with_stub_reasoning | Process: cellular response to fibroblast growth factor stimulus
Analysis: The provided genes are annotated to the Gene Ontology biological process term "cellular response to fibroblast growth factor stimulus" (GO:0044344). This target is derived from the released GO label for the gene set.
Reasoning: <think>The gene ... | train | #SYSTEM:
You are an efficient and insightful assistant to a molecular biologist.#USER:
Perform insightful reasoning for the interacting proteins and write a critical analysis of the biological
functions based on your reasoning.
Propose a brief name for the prominent biological functions performed by the system, such ... | 630 | 108 | 738 |
End of preview. Expand in Data Studio
Gene-R1 GO SFT Table 2 Reconstructed Splits
Small workshop dataset used for tokenizer-transfer experiments with ncbi/Gene-R1-1B.
Rows are reconstructed from released Gene Ontology benchmark materials into Gene-R1-style prompt/completion text for tokenizer transfer experiments:
train.jsonl: 2400 rows, 800 BP + 800 MF + 800 CCvalidation.jsonl: 300 rows, 100 BP + 100 MF + 100 CCtest.jsonl: 300 rows, 100 BP + 100 MF + 100 CC
Each row contains metadata plus prompt, completion, and full text fields. This dataset is for an academic reproducibility/tokenizer-transfer workshop, not an official Gene-R1 training release.
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