metadata: run_metadata: 8 rows where experiment.library_source = "TRANSCRIPTOMIC", technology = "10x" and tissue

8 rows where experiment.library_source = "TRANSCRIPTOMIC", technology = "10x" and tissue_curation = "Jaw"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	study.PMIDs	sample.title	sample.alias	sample.attributes	GEOsample.title	GEOsample.dataprocessing	GEOsample.source	GEOsample.extractprotocol	GEOsample.characteristics	GEOsample.accession	experiment.title	experiment.alias	experiment.design_description	experiment.library_construction_protocol	experiment.attributes	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.study_ref	run.filename	run.semantic_name	run.total_bases	run.total_spots	run.alias	run.read_lengths	run.base_counts	run.r1_length	run.r2_length	run.Acount	run.Ccount	run.Gcount	run.Tcount	run.Ncount	run.experiment	run.pool_member	submission.accession	submission.srasource	submission.bioprojectsource	seqdetective.n_mates	seqdetective.mapping_rate.mate1	seqdetective.mapping_rate.mate2	seqdetective.nofeature_rate.mate1	seqdetective.nofeature_rate.mate2	seqdetective.sparsity.mate1	seqdetective.sparsity.mate2	seqdetective.pos_strand_rate.mate1	seqdetective.pos_strand_rate.mate2	seqdetective.readlen.mate1	seqdetective.readlen.mate2	seqdetective.judgement.mate1	seqdetective.judgement.mate2	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
66178	66178	SRR15964630	SRX12254437	SRS10230009	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	trps1:eGFP enriched	GSM5587035	source name:Adult Jaw Joint\|cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	trps1:eGFP enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587035	GSM5587035: trps1:eGFP enriched; Danio rerio; RNA Seq	GSM5587035	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587035	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	trps1enriched-1_R1_001.fastq.gz trps1enriched-1_R2_001.fastq.gz	fastq fastq	21524957734.0	145963727.0	GSM5587035 r1	0:27 1:120.47	A:6080775237;C:4508264559;G:4702878554;T:6215461741;N:17577643	27	120	6080775237	4508264559	4702878554	6215461741	17577643	SRX12254437	SRS10230009	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.00341	0.91093	0.00112	0.14627	0.99391	0.85693	0.46102	0.48941	27	121	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure
66179	66179	SRR15964631	SRX12254437	SRS10230009	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	trps1:eGFP enriched	GSM5587035	source name:Adult Jaw Joint\|cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	trps1:eGFP enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587035	GSM5587035: trps1:eGFP enriched; Danio rerio; RNA Seq	GSM5587035	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587035	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	trps1enriched-2_R1_001.fastq.gz trps1enriched-2_R2_001.fastq.gz	fastq fastq	29538626136.0	200298691.0	GSM5587035 r2	0:27 1:120.47	A:8358449730;C:6152852316;G:6409091874;T:8594034218;N:24197998	27	120	8358449730	6152852316	6409091874	8594034218	24197998	SRX12254437	SRS10230009	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.00359	0.90985	0.00119	0.14958	0.99338	0.85878	0.42675	0.48789	27	118	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure
66180	66180	SRR15964632	SRX12254437	SRS10230009	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	trps1:eGFP enriched	GSM5587035	source name:Adult Jaw Joint\|cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	trps1:eGFP enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587035	GSM5587035: trps1:eGFP enriched; Danio rerio; RNA Seq	GSM5587035	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587035	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	trps1enriched-3_R1_001.fastq.gz trps1enriched-3_R2_001.fastq.gz	fastq fastq	18834117972.0	127723979.0	GSM5587035 r3	0:27 1:120.46	A:5321823966;C:3931395608;G:4123902269;T:5441824191;N:15171938	27	120	5321823966	3931395608	4123902269	5441824191	15171938	SRX12254437	SRS10230009	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.00356	0.91092	0.00098	0.1444	0.99308	0.85066	0.45652	0.50535	27	121	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure
66181	66181	SRR15964633	SRX12254437	SRS10230009	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	trps1:eGFP enriched	GSM5587035	source name:Adult Jaw Joint\|cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	trps1:eGFP enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:trps1:eGFP positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587035	GSM5587035: trps1:eGFP enriched; Danio rerio; RNA Seq	GSM5587035	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587035	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	trps1enriched-4_R1_001.fastq.gz trps1enriched-4_R2_001.fastq.gz	fastq fastq	24543217204.0	166435205.0	GSM5587035 r4	0:27 1:120.46	A:6923484050;C:5154357751;G:5378630657;T:7066659666;N:20085080	27	120	6923484050	5154357751	5378630657	7066659666	20085080	SRX12254437	SRS10230009	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.00342	0.91125	0.00108	0.1445	0.99385	0.85279	0.4379	0.5084	27	121	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure
66182	66182	SRR15964626	SRX12254436	SRS10230008	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	sox10:DsRed enriched	GSM5587034	source name:Adult Jaw Joint\|cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	sox10:DsRed enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587034	GSM5587034: sox10:DsRed enriched; Danio rerio; RNA Seq	GSM5587034	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587034	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	sox10enriched-1_R1_001.fastq.gz sox10enriched-1_R2_001.fastq.gz	fastq fastq	2310039840.0	15674545.0	GSM5587034 r1	0:27 1:120.38	A:657104627;C:477823382;G:502418027;T:670802267;N:1891537	27	120	657104627	477823382	502418027	670802267	1891537	SRX12254436	SRS10230008	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.00331	0.90804	0.00124	0.19789	0.99385	0.84918	0.5	0.4965	27	119	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure
66183	66183	SRR15964627	SRX12254436	SRS10230008	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	sox10:DsRed enriched	GSM5587034	source name:Adult Jaw Joint\|cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	sox10:DsRed enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587034	GSM5587034: sox10:DsRed enriched; Danio rerio; RNA Seq	GSM5587034	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587034	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	sox10enriched-2_R1_001.fastq.gz sox10enriched-2_R2_001.fastq.gz	fastq fastq	2268301929.0	15392389.0	GSM5587034 r2	0:27 1:120.37	A:645886696;C:468225565;G:493153165;T:659172922;N:1863581	27	120	645886696	468225565	493153165	659172922	1863581	SRX12254436	SRS10230008	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.0032	0.90785	0.00116	0.19777	0.99423	0.84847	0.44783	0.49424	27	121	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure
66184	66184	SRR15964628	SRX12254436	SRS10230008	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	sox10:DsRed enriched	GSM5587034	source name:Adult Jaw Joint\|cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	sox10:DsRed enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587034	GSM5587034: sox10:DsRed enriched; Danio rerio; RNA Seq	GSM5587034	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587034	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	sox10enriched-3_R1_001.fastq.gz sox10enriched-3_R2_001.fastq.gz	fastq fastq	2826349266.0	19178616.0	GSM5587034 r3	0:27 1:120.37	A:803669086;C:587771264;G:615160821;T:817438779;N:2309316	27	120	803669086	587771264	615160821	817438779	2309316	SRX12254436	SRS10230008	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.00361	0.90664	0.00122	0.19569	0.99328	0.85173	0.44136	0.49393	27	121	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure
66185	66185	SRR15964629	SRX12254436	SRS10230008	SRP337784	PRJNA764519	Single Cell Analysis of adult zebrafish jaw joint	GSE184403	Transcriptome Analysis	To profile the diversity of cell types present in adult zebrafish synovial joints we performed single cell RNA sequencing of the uninjured adult jaw joint and identified multiple skeletal connective tissue and fibroblast subtypes including a joint specific periosteal population. Overall design: Single cell RNA sequencing of FACS isolated zebrafish joint cells trps1:eGFP enriched; sox10:DsRed enriched from 3 mpf microdissected jaw joints	pubmed:35127702	sox10:DsRed enriched	GSM5587034	source name:Adult Jaw Joint\|cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	sox10:DsRed enriched	Fastq files were aligned using CellRanger v3.0.0 to GRCz11 built with v4.3.2.gtf including GFP and DsRed sequences as additional artificial chromosomes Genome build: z11 Supplementary files format and content: barcodes features and matrix files from Cell Ranger alignment	Adult Jaw Joint	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	cell type:sox10:DsRed positive joint cell\|age:3 mpf\|tissue:Jaw joint	GSM5587034	GSM5587034: sox10:DsRed enriched; Danio rerio; RNA Seq	GSM5587034	1	50 micro dissected jaw joints from 3 mpf sox10:DsRed;trps1:eGFP double transgenic zebrafish were dissociated into single cell suspension then FACS sorted to isolate live DsRed positive +/ GFP and GFP positive populations. Single cells were processed through the 10X chromium controller. Barcoded single cell cDNA library construction was performed as per 10X Genomics Chromium Single Cell three prime Library and Gel Bead Kit v.2. standard protocol	GEO Accession:GSM5587034	RNA-Seq	TRANSCRIPTOMIC	cDNA	PAIRED	ILLUMINA	Illumina HiSeq 4000	SRP337784	sox10enriched-4_R1_001.fastq.gz sox10enriched-4_R2_001.fastq.gz	fastq fastq	2932941460.0	19904579.0	GSM5587034 r4	0:27 1:120.35	A:832669575;C:611997497;G:644091515;T:841813951;N:2368922	27	120	832669575	611997497	644091515	841813951	2368922	SRX12254436	SRS10230008	SRA1296796	GEO	Smeeton Lab, Rehabilitation and Regenerative Medicine, Columbia University Irving Medical Center	2	0.00343	0.91021	0.00112	0.19104	0.99375	0.84883	0.49557	0.50272	27	121	T	B	sc-like readlen	illumina	hiseq_era	unknown	cdna_unspecified	unknown	sc	single_cell_droplet	10x	United States	2021-09-19	Adult	Adult	Jaw	Surface Structure

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;