Datasets:

vandijklab
/

immune-c2s

input_ids stringlengths 3.69k 16.7k	cell_type stringlengths 9 74
FTH1 FTL MT-CO2 MT-CO1 TMSB10 MT-CO3 TMSB4X S100A6 B2M MT-ND3 MT-ND1 RPL41 C1QB MT-ND2 S100A11 CCL3 CCL4 MT-CYB MT-ND4 ACTB MT-ATP6 EEF1A1 ARIH2OS CCL20 RPL28 VIM CD74 DUSP1 HLA-B RPS12 SAT1 MYL6 TPT1 IFI30 CXCL8 S100A10 RPLP1 RPL10 INHBA CSTB CTSD HLA-DRA RPS28 SRGN IFI27 CXCL3 RPS27 APOC1 C1QA FOS RPL12 RPL34 CXCL2 S...	alveolar macrophage
MALAT1 EEF1A1 B2M RPLP1 RPL41 RPL10 RPL13 MT-CO2 TMSB4X RPS27 RPS12 MT-CO1 HLA-B MT-CYB HSP90AA1 RPL30 BTG1 RPS23 RPL39 RPS18 RPL32 MT-ATP8 PTMA ACTB RPS15A RPL19 RPS4X RPS27A RPL28 HSPA1A TPT1 MT-CO3 RPS8 RPS28 RPS3 MT-ND3 RPS19 RPL37 RPS3A KLF6 RPL35A RPL3 RPS2 RPL18A RPL11 RPL34 MT-ND4L RPS6 RPS14 RPS21 RPL18 RPS13 ...	T follicular helper cell
FTH1 FTL MT-CO2 VIM MT-ATP6 MT-ND3 TMSB10 SPP1 IFI30 MT-ND1 RPL41 AREG RPLP1 RPLP2 CCL2 MT-ND4 CEBPD DUSP1 MT-CO3 PSAP SH3BGRL3 MT-CO1 CTSB RPL35 B2M RPL12 MIF EIF4A3 MT-ND2 SERF2 EREG RPS12 FOSB TNFAIP3 PTMA ACTB RPLP0 CSTB S100A10 MT-CYB BRI3 GAPDH RPS28 TIMP1 RPL8 KLF6 RPS20 TMEM51 RPS8 PFN1 HLA-B ZEB2 HMOX1 OAZ1 HN...	macrophage
B2M EEF1A1 MALAT1 RPL41 MT-CO3 MT-CO1 ACTB MT-CO2 RPS27 RPLP1 RPS12 RPL13 RPL10 MT-CYB HLA-B RPL30 RPL39 MT-ND4L MT-ATP8 RPS27A RPS4X TMSB10 MT-ND3 RPL32 RPL34 RPS19 RPS15A RPL37 RPL28 RPS8 CCL5 TMSB4X RPS28 RPS14 RPL19 CCL4 RPS7 RPL18 RPS3 RPS3A RPL18A RPS15 TSC22D3 RPS18 HLA-A TPT1 RPL26 RPS23 TRBV14 RPS16 RPS29 RPS2...	CD8-positive, alpha-beta memory T cell, CD45RO-positive
FTL FTH1 CCL2 TMSB10 S100A6 RPL12 RPL41 IFI30 ACTB MT-ATP6 RPLP1 GLUL GAPDH MT-CO3 RPS12 NFKBIA MT-CO1 MT-ND1 MT-ND2 RPS28 B2M PLIN2 KLF6 RPL13 CTSB CTSL RPLP0 SH3BGRL3 MT-ND3 S100A11 PFN1 CTSD NEAT1 TMSB4X TIMP1 RPL30 VIM MIF RNASE1 TNFAIP3 MT-CO2 CCL4 MT-ND4 CXCL3 RPL39 ATP5F1E CSTB CCL3 CXCL2 SERF2 RPS21 H3-3A PTMA ...	macrophage
MALAT1 CCL4 MT-CO2 B2M GNLY ACTB EEF1A1 RPL41 RPS27A HLA-B RPS12 MT-CO1 RPL30 RPL10 RPS27 RPL13 MT-ND3 MT-CYB TMSB4X CCL3 RPS3 MT-CO3 RPLP1 RPL34 RPL19 MT-ATP8 RPS14 RPS28 NKG7 MT-ND4L RPS19 DUSP2 RPL35A RPL28 RPS3A RPS21 RPL11 XCL1 HLA-C RPS8 RPS24 RPL7A RPL39 RPS4X RPS23 RPS6 RPL23A RPL14 RPS2 RPS15A PFN1 RPL26 RPS16...	CD16-positive, CD56-dim natural killer cell, human
EEF1A1 RPS27 RPL41 TMSB10 B2M RPL28 RPL13 RPLP1 RPS12 TMSB4X TPT1 RPL30 RPS23 RPS18 ACTB RPL10 RPL11 RPS3 HLA-B S100A4 RPL18A RPL32 RPS4X RPS29 RPL19 JUNB FTH1 MALAT1 RPL29 RPLP0 MT-CO2 RPS19 RPS8 RPL12 RPS15A RPS27A RPL34 RPS28 RPL26 RPL14 PFN1 RPL37 RPS15 RPS13 PTMA ZFP36L2 RPS14 RPS21 RPS2 RPL35A RPL39 MT-CO3 RPS6 R...	effector memory CD4-positive, alpha-beta T cell
MALAT1 RPS27 EEF1A1 RPS12 RPL41 RPL28 RPLP1 RPS15A TMSB4X RPL10 RPS29 RPL13 RPS3 RPL30 RPL37 B2M RPS8 RPS2 TPT1 RPL39 RPS23 RPS15 MT-CO2 RPL32 RPS27A RPS4X RPS28 RPL34 RPL19 RPL3 RPL12 ACTB JUNB RPL35A RPS14 RPS18 RPSA RPL26 RPL11 RPL36 MTRNR2L12 RPS19 FAU RPS6 RPLP0 RPS13 HLA-B PTMA RPL18A RPS21 MT-CYB RPL29 RPL23A RP...	T follicular helper cell
EEF1A1 RPS12 RPL10 RPL13 RPL41 RPS27 RPLP1 RPL28 RPL32 RPL18A RPS23 RPL19 RPS4X RPS14 RPL39 MALAT1 RPS18 MT-CO2 ACTB RPL34 RPS15A RPS19 RPLP0 RPS3 RPS2 TPT1 RPS28 RPS27A MT-ND3 RPL3 RPS6 RPL30 RPL11 RPL35A TMSB4X RPS8 RPL12 RPS3A RPS21 B2M RPS25 RPL14 RPS29 RPL37 RPL29 RPS13 RPL26 RPL21 MT-CO1 RPS16 MT-CO3 RPL18 RPL36 ...	naive thymus-derived CD8-positive, alpha-beta T cell
ACTB RPL41 MALAT1 TMSB4X RPS27 B2M EEF1A1 S100A4 RPLP1 RPL28 FOS RPS19 TMSB10 ACTG1 TPT1 RPS3 RPS27A RPL30 RPL13 MT-CO2 SH3BGRL3 HLA-B RPL10 BTG1 RPL32 MT-CO3 RPS12 RPS4X PFN1 RPS28 RPL34 RPS23 RPS18 RPS21 KLF6 RPS13 RPL11 RPS15 MT-CO1 RPS14 MT-ATP8 RPL39 RPL26 RPL19 MT-ND3 RPL35A FTH1 ATP5F1E GAPDH RPS8 JUNB RPS29 IL3...	CD4-positive helper T cell
ACTB TMSB4X RPLP1 B2M EEF1A1 RPS19 RPS12 RPL28 HSPA1A RPL13 RPL41 MT-CO2 RPS27 TRBV7-2 TPT1 HSP90AA1 RPL32 MT-CO1 MALAT1 RPL19 RPS4X PFN1 MT-CO3 RPL10 HLA-B RPS15A RPS18 RPS8 HSPA1B RPLP0 PTMA RPL34 RPL39 RPL30 RPS23 RPS13 RPL18A RPS14 RPS28 RPS6 RPS3A MT-CYB RPS27A RPL15 H3-3B RPS2 ATF3 DNAJB1 CD69 TMSB10 RPL11 ACTG1 ...	CD4-positive helper T cell
FTH1 FTL NEAT1 MALAT1 VIM FOS S100A6 MT-CO1 CD163 MT-CO2 EEF1A1 IFI30 CXCL8 B2M RPL10 MT-CO3 TMSB4X PTMA S100A10 S100A4 MT-CYB TPT1 CTSB RPLP1 JUN SH3BGRL3 NFKBIA RPL39 TMSB10 S100A11 GAPDH S100A8 RPL8 SOD2 MT-ND4 CXCL2 CCL4 RPL41 MT-ND3 PSAP ACTB DUSP1 MT-ND1 MT-ATP6 COTL1 RPS12 RPL30 HLA-C CTSD RPS13 TPM4 RHOA ZFP36 ...	macrophage
MALAT1 MT-CO1 CD74 MT-CO3 MT-CO2 MT-CYB MT-ND3 MT-ND4L B2M HLA-DRA EEF1A1 MTRNR2L12 MT-ATP8 RPL41 MT-ND1 TMSB4X MT-ND4 MT-ATP6 RPLP1 HLA-DQB1 RPS18 ACTB RPL11 MT-ND2 RPS27 RPL37 RPL39 RPL30 RPS28 RPL10 RPS12 RPL13 HLA-B RPL34 RPL28 RPL26 TPT1 RPL18 RPS19 RPS14 RPS6 RPL6 PTMA RPS3 HLA-DPA1 RPS3A MT-ND5 RPS23 IGHV3-11 RP...	memory B cell
FTL FTH1 IFI30 MT-CO1 CCL3 CXCL8 MT-ATP6 TMSB10 CXCL2 CCL2 CCL4 MALAT1 MT-ND1 MT-CO2 GLUL MT-ND4 CTSB MT-ND2 B2M CXCL1 MT-ND3 MT-CO3 VIM FOS S100A6 RPL39 CSTB TNFAIP3 ACTB CTSZ SERF2 RPL41 SH3BGRL3 TIMP1 HLA-B BCL2A1 CCL3L1 HLA-A PSAP MT-CYB S100A11 CCL4L2 ZFP36 DUSP1 KLF6 S100A10 NR4A2 HLA-DRA CTSD CYBB C4orf3 MARCKS ...	macrophage
EEF1A1 RPS27 ACTB RPL10 RPLP1 RPL41 RPS12 MALAT1 RPL39 RPL30 RPL28 RPL32 RPL13 B2M RPL19 RPS3A RPS13 RPS28 RPLP0 RPL11 RPL26 TPT1 RPS27A RPL35A RPL34 RPS8 RPS3 RPL18A RPS23 RPL12 RPS14 RPS15A RPL37 RPS15 HLA-C TMSB10 RPL29 RPS4X RPS25 RPLP2 RPS19 FAU RPS29 RPS21 RPL7A RPS24 RPL14 RPL18 PFN1 RPL8 MT-ND3 NACA RACK1 RPS6 ...	naive thymus-derived CD4-positive, alpha-beta T cell
MALAT1 HSP90AA1 TMSB4X MT-CO1 B2M CCL5 JUN ACTB HLA-B MT-CO2 RPLP1 HSPA1A EEF1A1 RPL41 NR4A2 RPL13 UBC MT-CO3 IFNG RPS19 HSPA1B DNAJB1 MT-CYB RPL28 RPS12 TPT1 MT-ND3 MT-ATP8 RPS27 XCL1 RPL10 MT-ND1 RPS18 DUSP1 H3-3B MT-ATP6 MT-ND5 HSP90AB1 HLA-A RPS3 HLA-C RPL21 MT-ND4L PTMA RPS15A RPS14 RPS28 RPS27A SRGN FOS KLF6 PFN1...	CD8-positive, alpha-beta memory T cell
FTL MALAT1 FTH1 S100A8 S100A6 TMSB4X NEAT1 MT-CO2 IFI30 FOS TMSB10 SH3BGRL3 MT-CO1 DUSP1 MT-ND1 S100A4 NAMPT MT-ND3 B2M MT-ND4 VIM S100A10 NFKBIA MT-CYB CXCL2 ACTB MT-ATP6 MT-CO3 EIF1 S100A11 HIF1A TIMP1 GLUL IL1B MT-ND2 TYROBP FCER1G RPLP2 EREG CCL3 SAT1 EGR1 CEBPB SERF2 PNRC1 BCL2A1 FAU ATP2B1-AS1 JUNB LST1 EIF4A3 SO...	macrophage
FTH1 MT-CO2 FTL MT-CO1 MALAT1 MT-CO3 S100A8 MT-ND3 MT-CYB S100A6 S100A10 MT-ND1 MT-ND2 S100A4 MT-ND4 CCL4L2 TMSB10 TMSB4X RPL39 KLF6 ACTB VIM NFKBIA UPP1 NEAT1 RPL41 SRGN FOS RPS8 MT-ATP8 RPS28 MT-ATP6 RPLP1 TNFAIP3 CXCL2 RETN B2M EEF1A1 CD14 HIF1A S100A11 PTMA PLIN2 TAGLN2 NAMPT MT-ND4L RPL28 CCL3 CRIP1 IFI30 CTSD CST...	macrophage
FTH1 FTL IFI30 S100A10 S100A6 CSTB TMSB10 PSAP S100A11 S100A8 CCL4 MT-ATP6 MT-CO1 CTSB VIM ACTB MT-CO2 CCL3 CCL4L2 SOD2 MYL6 RPLP1 GLUL RPL41 TMSB4X MT-ND1 CTSL RPL28 CXCL2 B2M FOS ATP5F1E RPL10 RPS24 RPS28 MALAT1 MIF PFN1 MT-ND4 RAC1 OAZ1 MT-CO3 RNASE1 CRIP1 MT-CYB SH3BGRL3 CCL18 RPS12 NFKBIA RPL11 CXCL3 EMP3 CD74 LGA...	macrophage

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Overview

Cell2Sentence is a novel method for adapting large language models to single-cell transcriptomics. We transform single-cell RNA sequencing data into sequences of gene names ordered by expression level, termed "cell sentences". This dataset was constructed from the immune tissue dataset in Domínguez et al., and it was used to train the Pythia-160m model capable of generating complete cells described in our paper. Details about the Cell2Sentence transformation and preprocessing pipeline can be found in our paper and GitHub repo linked below.

GitHub: https://github.com/vandijklab/cell2sentence-ft
Paper: https://www.biorxiv.org/content/10.1101/2023.09.11.557287v3
Model Card: https://huggingface.co/vandijklab/pythia-160m-c2s

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