title: scATAC-seq_RA_D4_6

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_195

status: Public on Jun 19 2018

type: SRA

city: Stanford

first: Zhana

last: Duren

state: CA

address: 318 Campus Drive

country: USA

institute: Stanford university

description: Retinoic-acid induction

library_source: transcriptomic

data_processing:
Reads are mapped to mm10 using STAR and RSEM
Genome_build: mm10
Supplementary_files_format_and_content: text file showing read counts across peaks and cells

molecule: total RNA

organism: Mus musculus

source_name: mouse embryonic stem cell

growth_protocol: mESC cells R1 were grown in mESC medium supplemented with 15% Knockout Serum Replacement and 1,000 U/ml of LIF. mESCs were differentiated using the handing drop method for 48 hours. Then, embryoid bodies (EBs) were collected for further treatment.

extract_protocol:
Single cells were captured and cDNA was transcripted using SMART-Seq V4 scripts on C1 fluidigm.
scRNA-seq library were constructed using Nextera XT library protocol.

treatment_protocol: EBs were placed in the well of a 6-well ultra-low attachment plate with fresh differentiation medium containing 0.5 mM retinoic acid (RA) for 4 days, with the medium being changed daily.

tag: treatment

value: retinoic acid for 4 days


title: scATAC-seq_RA_D4_5

description: Retinoic-acid induction

library_source: genomic

data_processing:
Reads are mapped to mm9 using the ATAC-seq pipeline described in https://github.com/kundajelab/atac_dnase_pipelines.
We used MACS2 to perfom peak calling on aligned sequencing reads aggregated across all cells.
Genome_build: mm9
Supplementary_files_format_and_content: test file showing read coverage  across peaks and cells

molecule: genomic DNA

extract_protocol:
Single cells were captured and transposed with Tn5 using C1 fluidigm
scATAC-seq library were constructed by additional 13 cycles of PCR with dual index primers, followed by MinElute PCR purification.


title: scATAC-seq_RA_D4_4

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_194

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_15

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_2

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_196

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_3

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_191

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_216

description: Retinoic-acid induction


title: scATAC-seq_RA_D4_1

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_201

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_190

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_187

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_188

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_186

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_185

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_184

description: Retinoic-acid induction


title: AB3973

city: Rehovot

first: Ido

last: Amit

address: 234 Herzl st.

department: Immunology

country: Israel

institute: Weizmann Institute of Science

description: Sample 325

data_processing:
bcl2fastq/2.15.0.4
Sequences with RMT of low quality (defined as RMT with minimum Phred score of less than 27) were filtered out.
Pool-barcode and well-barcode-RMT were extracted from the first and second end of the read (respectively) and concatenated to the fastq header, delimited by a underscore i.e. POOL_BARCODE_WELL_BARCODE_RMT while "NNNNNN" was used as a place holders if plate barcode was not used.
Reads were separated by POOL_BARCODE_WELL_BARCODE header data, allowing 1 sequencing error. This process created a single fastq file for each source well.
Note: Second read contained only cell and molecule barcodes. This information was appended to the fastq entry header
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include mRNA molecule count values for each Sample
Supplementary_files_format_and_content: metadata.txt (associates each single cell with its amplification batch and index sorting readouts)

molecule: polyA RNA

source_name: total bone marrow

growth_protocol: 6 to 8 weeks-old mice housed at the Weizmann Institute animal facility

extract_protocol:
Each mouse was euthanized and bone marrow harvested by crushing of the femur, tibia and ilia. Cell suspensions were stained with FACS antibodies and single cells sorted into capture plates (Jaitin et al, Science 2014)
Antibodies used: Lin = Ter119 (TER-119), CD11b (itgam), Gr-1 (RB8/8C5), CD3 (17A2), CD4 (GK1.5), CD8a (53-6.7), B220 (RA3/6B2); and cKit (2B8), Sca1 (D7), CD34 (RAM34), Flt3 (A2F10), FcgR (93), CD150 (TC15-12F12.2), CD24 (M1/69), CD11c (N418), I-A/I-E (M5/114), CD19 (1D3), NK1.1 (PK136), CD71 (R17217), SiglecH(551), CD22 (OX-97)
3' end mRNA libraries were prepared for sequencing using MARS-seq (Jaitin et al, Science 2014)

treatment_protocol:
For samples 122-155, 217-222 mice were injected twice with 150 IU human erythropoietin (Recormon / Epoitin beta) or 4.8 µg human G-CSF (Neupogen) respectively and sacrificed on the third day
For samples 229-317, Cas9-GFP LSK cells infected with BFP+ lentiviral guide RNAs and transplanted into irradiated mice. After 9-11 days, mice were sacrified, and GFP+ BFP+ cells were analyzed by MARS-seq
For samples 318-322,  Cas9-GFP LSK cells infected with BFP+ lentiviral guide RNAs and grown with G-CSF or GM-CSF. After 9 days, GFP+ BFP+ cells were analyzed by MARS-seq

tag: strain

tag: organ

value: bone marrow


title: AB3967

description: Sample 322

source_name: ex vivo

value: C57BL/6 Cas9-GFP

value: bone marrow derived

value: Cas9-GFP LSK cells infected with lentiviral guide RNAs and grown with GM-CSF

tag: lentiviral grna

value: Control


title: AB3971

description: Sample 323


title: AB3966

description: Sample 321


title: AB3972

description: Sample 324


title: AB3965

description: Sample 320

value: Cas9-GFP LSK cells infected with lentiviral guide RNAs and grown with G-CSF


title: scRNA-seq_RA_D4_183

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_192

description: Retinoic-acid induction


title: AB3964

description: Sample 319


title: scRNA-seq_RA_D4_193

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_182

description: Retinoic-acid induction


title: AB3974

description: Sample 326


title: AB3963

description: Sample 318


title: scRNA-seq_RA_D4_179

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_180

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_181

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_189

description: Retinoic-acid induction


title: AB3961

description: Sample 316

source_name: Lin- cKit+

tag: selection marker

value: Lin- cKit+

value: Cas9-GFP LSK cells infected with lentiviral guide RNAs and transplanted into irradiated mice


title: AB3962

description: Sample 317


title: scRNA-seq_RA_D4_177

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_178

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_176

description: Retinoic-acid induction


title: AB3957

description: Sample 312


title: AB3958

description: Sample 313


title: AB3956

description: Sample 311


title: scRNA-seq_RA_D4_174

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_173

description: Retinoic-acid induction


title: AB3954

description: Sample 309


title: scRNA-seq_RA_D4_172

description: Retinoic-acid induction


title: AB3955

description: Sample 310


title: scRNA-seq_RA_D4_171

description: Retinoic-acid induction


title: AB3952

description: Sample 307


title: AB3960

description: Sample 315


title: scRNA-seq_RA_D4_169

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_170

description: Retinoic-acid induction


title: AB3951

description: Sample 306


title: AB3953

description: Sample 308


title: AB3950

description: Sample 305


title: scRNA-seq_RA_D4_168

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_167

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_166

description: Retinoic-acid induction


title: AB3959

description: Sample 314


title: AB3947

description: Sample 302


title: AB3800

description: Sample 301


title: AB3948

description: Sample 303


title: scRNA-seq_RA_D4_164

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_175

description: Retinoic-acid induction


title: AB3799

description: Sample 300


title: scRNA-seq_RA_D4_162

description: Retinoic-acid induction


title: AB3798

description: Sample 299


title: scRNA-seq_RA_D4_165

description: Retinoic-acid induction


title: AB3797

description: Sample 298


title: scRNA-seq_RA_D4_161

description: Retinoic-acid induction


title: AB3796

description: Sample 297


title: scRNA-seq_RA_D4_160

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_159

description: Retinoic-acid induction


title: AB3795

description: Sample 296


title: AB3400 [RNA-Seq]

description: Sample 295


title: scRNA-seq_RA_D4_158

description: Retinoic-acid induction


title: AB3398 [RNA-Seq]

description: Sample 293


title: AB3949

description: Sample 304


title: scRNA-seq_RA_D4_157

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_155

description: Retinoic-acid induction


title: AB3396 [RNA-Seq]

description: Sample 291


title: AB3397 [RNA-Seq]

description: Sample 292


title: scRNA-seq_RA_D4_154

description: Retinoic-acid induction


title: AB3399 [RNA-Seq]

description: Sample 294


title: AB3395 [RNA-Seq]

description: Sample 290


title: AB3394 [RNA-Seq]

description: Sample 289


title: scRNA-seq_RA_D4_151

description: Retinoic-acid induction


title: AB3393 [RNA-Seq]

description: Sample 288


title: scRNA-seq_RA_D4_152

description: Retinoic-acid induction


title: AB3392 [RNA-Seq]

description: Sample 287


title: scRNA-seq_RA_D4_149

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_150

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_153

description: Retinoic-acid induction


title: AB3391 [RNA-Seq]

description: Sample 286


title: scRNA-seq_RA_D4_163

description: Retinoic-acid induction


title: AB3390 [RNA-Seq]

description: Sample 285


title: scRNA-seq_RA_D4_148

description: Retinoic-acid induction


title: AB3382 [RNA-Seq]

description: Sample 282


title: AB3388 [RNA-Seq]

description: Sample 283


title: scRNA-seq_RA_D4_146

description: Retinoic-acid induction


title: AB3389 [RNA-Seq]

description: Sample 284


title: scRNA-seq_RA_D4_147

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_156

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_145

description: Retinoic-acid induction


title: AB3380 [RNA-Seq]

description: Sample 280


title: AB3381 [RNA-Seq]

description: Sample 281


title: scRNA-seq_RA_D4_143

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_144

description: Retinoic-acid induction


title: AB3379 [RNA-Seq]

description: Sample 279


title: AB3378 [RNA-Seq]

description: Sample 278


title: AB3377 [RNA-Seq]

description: Sample 277


title: scRNA-seq_RA_D4_142

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_140

description: Retinoic-acid induction


title: AB3376 [RNA-Seq]

description: Sample 276


title: AB3375 [RNA-Seq]

description: Sample 275


title: scRNA-seq_RA_D4_137

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_138

description: Retinoic-acid induction


title: AB3373 [RNA-Seq]

description: Sample 273


title: scRNA-seq_RA_D4_139

description: Retinoic-acid induction


title: AB3374 [RNA-Seq]

description: Sample 274


title: AB3372 [RNA-Seq]

description: Sample 272


title: AB3371 [RNA-Seq]

description: Sample 271


title: scRNA-seq_RA_D4_136

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_135

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_133

description: Retinoic-acid induction


title: AB3369 [RNA-Seq]

description: Sample 269


title: scRNA-seq_RA_D4_134

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_131

description: Retinoic-acid induction


title: AB3368 [RNA-Seq]

description: Sample 268


title: AB3367 [RNA-Seq]

description: Sample 267


title: scRNA-seq_RA_D4_141

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_130

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_129

description: Retinoic-acid induction


title: AB3366 [RNA-Seq]

description: Sample 266


title: AB3308 [RNA-Seq]

description: Sample 265


title: scRNA-seq_RA_D4_128

description: Retinoic-acid induction


title: AB3305 [RNA-Seq]

description: Sample 264


title: AB3304 [RNA-Seq]

description: Sample 263


title: scRNA-seq_RA_D4_127

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_126

description: Retinoic-acid induction


title: AB3303 [RNA-Seq]

description: Sample 262


title: scRNA-seq_RA_D4_125

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_124

description: Retinoic-acid induction


title: AB3299 [RNA-Seq]

description: Sample 260


title: AB3298 [RNA-Seq]

description: Sample 259


title: scRNA-seq_RA_D4_123

description: Retinoic-acid induction


title: AB3302 [RNA-Seq]

description: Sample 261


title: scRNA-seq_RA_D4_122

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_132

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_121

description: Retinoic-acid induction


title: AB3295 [RNA-Seq]

description: Sample 257


title: scRNA-seq_RA_D4_120

description: Retinoic-acid induction


title: AB3294 [RNA-Seq]

description: Sample 256


title: AB3297 [RNA-Seq]

description: Sample 258


title: AB3370 [RNA-Seq]

description: Sample 270


title: AB2656 [RNA-Seq]

description: Sample 255


title: scRNA-seq_RA_D4_119

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_117

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_118

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_116

description: Retinoic-acid induction


title: AB2654 [RNA-Seq]

description: Sample 253


title: AB2655 [RNA-Seq]

description: Sample 254


title: AB2652 [RNA-Seq]

description: Sample 251


title: AB2653 [RNA-Seq]

description: Sample 252


title: scRNA-seq_RA_D4_115

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_113

description: Retinoic-acid induction


title: AB2651 [RNA-Seq]

description: Sample 250


title: scRNA-seq_RA_D4_112

description: Retinoic-acid induction


title: AB2649 [RNA-Seq]

description: Sample 248


title: scRNA-seq_RA_D4_111

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_110

description: Retinoic-acid induction


title: AB2648 [RNA-Seq]

description: Sample 247


title: scRNA-seq_RA_D4_109

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_108

description: Retinoic-acid induction


title: AB2646 [RNA-Seq]

description: Sample 245


title: AB2647 [RNA-Seq]

description: Sample 246


title: AB2645 [RNA-Seq]

description: Sample 244


title: scRNA-seq_RA_D4_105

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_107

description: Retinoic-acid induction


title: AB2642 [RNA-Seq]

description: Sample 241


title: AB2643 [RNA-Seq]

description: Sample 242


title: scRNA-seq_RA_D4_106

description: Retinoic-acid induction


title: AB2641 [RNA-Seq]

description: Sample 240


title: AB2640 [RNA-Seq]

description: Sample 239


title: scRNA-seq_RA_D4_102

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_100

description: Retinoic-acid induction


title: AB2638 [RNA-Seq]

description: Sample 237


title: AB2637 [RNA-Seq]

description: Sample 236


title: AB2650 [RNA-Seq]

description: Sample 249


title: scRNA-seq_RA_D4_99

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_114

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_104

description: Retinoic-acid induction


title: AB2598 [RNA-Seq]

description: Sample 235


title: scRNA-seq_RA_D4_97

description: Retinoic-acid induction


title: AB2597 [RNA-Seq]

description: Sample 234


title: scRNA-seq_RA_D4_96

description: Retinoic-acid induction


title: AB2644 [RNA-Seq]

description: Sample 243


title: AB2596 [RNA-Seq]

description: Sample 233


title: scRNA-seq_RA_D4_95

description: Retinoic-acid induction


title: AB2594 [RNA-Seq]

description: Sample 231


title: scRNA-seq_RA_D4_94

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_93

description: Retinoic-acid induction


title: AB2595 [RNA-Seq]

description: Sample 232


title: AB2639 [RNA-Seq]

description: Sample 238


title: AB2593 [RNA-Seq]

description: Sample 230


title: AB2592 [RNA-Seq]

description: Sample 229


title: scRNA-seq_RA_D4_101

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_92

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_103

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_90

description: Retinoic-acid induction


title: AB1086

description: Sample 226


title: AB1087

description: Sample 227


title: scRNA-seq_RA_D4_91

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_89

description: Retinoic-acid induction


title: AB1088

description: Sample 228


title: AB1085

description: Sample 225


title: AB1084

description: Sample 224


title: scRNA-seq_RA_D4_88

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_98

description: Retinoic-acid induction


title: AB1083

description: Sample 223


title: scRNA-seq_RA_D4_87

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_86

description: Retinoic-acid induction


title: AB3400

description:
crispseq_count.txt
polyA+ lentiviral barcode

data_processing:
bcl2fastq/2.15.0.4
Sequences with RMT of low quality (defined as RMT with minimum Phred score of less than 27) were filtered out.
Pool-barcode and well-barcode-RMT were extracted from the first and second end of the read (respectively) and concatenated to the fastq header, delimited by a underscore i.e. POOL_BARCODE_WELL_BARCODE_RMT while "NNNNNN" was used as a place holders if plate barcode was not used.
Note: Second read contained only cell and molecule barcodes. This information was appended to the fastq entry header
Reads were separated by POOL_BARCODE_WELL_BARCODE header data, allowing 1 sequencing error. This process created a single fastq file for each source well.
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text file that includes transcribed lentiviral barcodes, assigned to samples, single cells and infected gRNA

extract_protocol:
Each mouse was euthanized and bone marrow harvested by crushing of the femur, tibia and ilia. Cell suspensions were stained with FACS antibodies and single cells sorted into capture plates (Jaitin et al, Science 2014)
Antibodies used: Lin = Ter119 (TER-119), CD11b (itgam), Gr-1 (RB8/8C5), CD3 (17A2), CD4 (GK1.5), CD8a (53-6.7), B220 (RA3/6B2); and cKit (2B8), Sca1 (D7), CD34 (RAM34), Flt3 (A2F10), FcgR (93), CD150 (TC15-12F12.2), CD24 (M1/69), CD11c (N418), I-A/I-E (M5/114), CD19 (1D3), NK1.1 (PK136), CD71 (R17217), SiglecH(551), CD22 (OX-97)
3' end mRNA libraries were prepared for sequencing using CRISP-seq (Jaitin et al, Cell 2016)
DNA sequencing of guide RNA targeted loci for several CRISPR pools. Libraries were generated using primer flanking the target region for bulk population of cells, and sequenced.

treatment_protocol: Cas9-GFP LSK cells infected with BFP+ lentiviral guide RNAs and transplanted into irradiated mice. After 9-11 days, mice were sacrified, and GFP+ BFP+ cells were analyzed by CRISP-seq

value: Cebpa_1, Csf1r_1, CTRL_LacOp, CTRL_Oris, Fcgr3_1, Flt3_2, Irf8_C, Klf4_2


title: scRNA-seq_RA_D4_84

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_85

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_82

description: Retinoic-acid induction


title: AB3397


title: AB3395


title: AB3396


title: scRNA-seq_RA_D4_81

description: Retinoic-acid induction


title: AB3394


title: scRNA-seq_RA_D4_80

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_79

description: Retinoic-acid induction


title: AB3393


title: scRNA-seq_RA_D4_78

description: Retinoic-acid induction


title: AB3391


title: AB3392


title: scRNA-seq_RA_D4_76

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_75

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_77

description: Retinoic-acid induction


title: AB3389


title: AB3390


title: scRNA-seq_RA_D4_74

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_72

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_73

description: Retinoic-acid induction


title: AB3388


title: AB3399


title: AB3381


title: AB3380


title: scRNA-seq_RA_D4_70

description: Retinoic-acid induction


title: AB3398


title: scRNA-seq_RA_D4_83

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_71

description: Retinoic-acid induction


title: AB3379


title: scRNA-seq_RA_D4_69

description: Retinoic-acid induction


title: AB3376


title: scRNA-seq_RA_D4_67

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_68

description: Retinoic-acid induction


title: AB3378


title: AB3377


title: scRNA-seq_RA_D4_66

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_65

description: Retinoic-acid induction


title: AB3373


title: scRNA-seq_RA_D4_64

description: Retinoic-acid induction


title: AB3375


title: AB3374


title: AB3372


title: AB3382


title: scRNA-seq_RA_D4_62

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_60

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_61

description: Retinoic-acid induction


title: AB3370


title: AB3369


title: AB3368


title: scRNA-seq_RA_D4_59

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_58

description: Retinoic-acid induction


title: AB3366


title: scRNA-seq_RA_D4_57

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_56

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_55

description: Retinoic-acid induction


title: AB3308


title: scRNA-seq_RA_D4_54

description: Retinoic-acid induction


title: AB3305


title: scRNA-seq_RA_D4_63

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_53

description: Retinoic-acid induction


title: AB3303


title: AB3304


title: AB3371


title: AB3367


title: scRNA-seq_RA_D4_52

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_49

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_51

description: Retinoic-acid induction


title: AB3299


title: AB3302


title: scRNA-seq_RA_D4_48

description: Retinoic-acid induction


title: AB3297


title: AB3298


title: scRNA-seq_RA_D4_47

description: Retinoic-acid induction


title: AB3295


title: AB3294


title: scRNA-seq_RA_D4_46

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_45

description: Retinoic-acid induction


title: AB2656

value: Batf3_1, Batf3_2, Cebpa_1, Csf1r_1, Csf1r_2, CTL_LacZ, CTRL_LacOp, CTRL_Oris, Fcgr3_1, Fcgr3_2, Flt3_2, Irf8_C, Klf4_1, Klf4_2, Mta3_1, Mta3_2, Mta3_3, Satb1_3, Satb1_4, Spib_2, Tcf4_1, Tcf4_2, Tcf4_3


title: scRNA-seq_RA_D4_44

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_43

description: Retinoic-acid induction


title: AB2654


title: AB2655


title: AB2652


title: scRNA-seq_RA_D4_41

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_40

description: Retinoic-acid induction


title: AB2650


title: AB2651


title: AB2649


title: scRNA-seq_RA_D4_42

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_39

description: Retinoic-acid induction


title: AB2647


title: scRNA-seq_RA_D4_36

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_50

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_35

description: Retinoic-acid induction


title: AB2648


title: AB2646


title: scRNA-seq_RA_D4_33

description: Retinoic-acid induction


title: AB2643


title: AB2642


title: AB2645


title: scRNA-seq_RA_D4_32

description: Retinoic-acid induction


title: AB2641


title: AB2653


title: scRNA-seq_RA_D4_30

description: Retinoic-acid induction


title: AB2640


title: scATAC-seq_RA_D4_150

description: Retinoic-acid induction


title: AB2639


title: scRNA-seq_RA_D4_28

description: Retinoic-acid induction


title: AB2638


title: scRNA-seq_RA_D4_27

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_37

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_38

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_26

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_25

description: Retinoic-acid induction


title: AB2598


title: AB2637


title: AB2596


title: scRNA-seq_RA_D4_29

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_24

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_22

description: Retinoic-acid induction


title: AB2597


title: AB2644


title: scRNA-seq_RA_D4_31

description: Retinoic-acid induction


title: AB2594


title: AB2595


title: scRNA-seq_RA_D4_20

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_21

description: Retinoic-acid induction


title: AB2593


title: scRNA-seq_RA_D4_34

description: Retinoic-acid induction


title: AB2592


title: scRNA-seq_RA_D4_19

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_18

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_16

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_15

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_14

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_13

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_11

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_12

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_23

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_10

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_7

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_9

description: Retinoic-acid induction


title: AB1005

description: Sample 221

data_processing:
bcl2fastq/2.15.0.4
Sequences with RMT of low quality (defined as RMT with minimum Phred score of less than 27) were filtered out.
Pool-barcode and well-barcode-RMT were extracted from the first and second end of the read (respectively) and concatenated to the fastq header, delimited by a underscore i.e. POOL_BARCODE_WELL_BARCODE_RMT while "NNNNNN" was used as a place holders if plate barcode was not used.
Reads were separated by POOL_BARCODE_WELL_BARCODE header data, allowing 1 sequencing error. This process created a single fastq file for each source well.
Note: Second read contained only cell and molecule barcodes. This information was appended to the fastq entry header
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include mRNA molecule count values for each Sample
metadata.txt  (associates each single cell with its amplification batch and index sorting readouts)

source_name: Bone marrow hematopoietic progenitor single cells, CD150+ LT HSC

extract_protocol:
Each mouse was euthanized and bone marrow harvested by crushing of the femur, tibia and ilia. Cell suspensions were stained with FACS antibodies and single cells sorted into capture plates (Jaitin et al, Science 2014)
Antibodies used: Lin = Ter119 (TER-119), CD11b (itgam), Gr-1 (RB8/8C5), CD3 (17A2), CD4 (GK1.5), CD8a (53-6.7), B220 (RA3/6B2); and cKit (2B8), Sca1 (D7), CD34 (RAM34), Flt3 (A2F10), FcgR (93), CD150 (TC15-12F12.2), CD24 (M1/69), CD11c (N418), I-A/I-E (M5/114), CD19 (1D3), NK1.1 (PK136), CD71 (R17217), SiglecH(551), CD22 (OX-97)
3' end mRNA libraries were prepared for sequencing using MARS-seq (Jaitin et al, Science 2014)
single cell RNA-seq for gene expression quantitation

treatment_protocol: For samples 122-133, 217-220 & samples 140-151, 221-222 mice were injected twice with 150 IU human erythropoietin (Recormon / Epoitin beta) or 4.8 µg human G-CSF (Neupogen) respectively and sacrificed on the third day

tag: tissue

value: Lin- cKit+ Sca1+ CD34- Flt3- CD150+

value: G-CSF


title: AB1006

description: Sample 222


title: AB1333

description: Sample 219

value: Epo


title: scRNA-seq_RA_D4_8

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_6

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_5

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_4

description: Retinoic-acid induction


title: AB1009

description: Sample 217


title: scRNA-seq_RA_D4_2

description: Retinoic-acid induction


title: scRNA-seq_RA_D4_3

description: Retinoic-acid induction


title: AB623

description: Sample 213


title: AB625

description: Sample 215


title: AB624

description: Sample 214


title: AB673

description: Sample 216


title: scRNA-seq_RA_D4_17

description: Retinoic-acid induction


title: AB622

description: Sample 212


title: scRNA-seq_RA_D4_1

description: Retinoic-acid induction


title: AB1322

description: Sample 211

source_name: Bone marrow hematopoietic progenitor single cells, LSK

value: Lin- cKit+ Sca1+


title: P18_WT_3

city: Tübingen

first: Vikas

last: Bansal

state: BW

address: Otfried Müller Strasse 23

country: Germany

institute: German Center for Neurodegenerative Diseases (DZNE)-Tübingen

data_processing:
Basecalls performed using CASAVA version 1.8.2
RNA-seq reads were aligned to the rat reference genome (rn6) with Bowtie2 (v2.0.2) using RSEM (v1.2.29) with default parameters
Genome_build: rn6
Supplementary_files_format_and_content: The rat reference genome was indexed using the Ensembl annotations (v84.6) with rsem-prepare-reference from RSEM software. Next, rsem-calculate-expression was used to align the reads and quantify the gene abundance. The raw count from rsem-calculate-expression is used.

organism: Rattus norvegicus

source_name: P18_WT_sciatic nerve

growth_protocol: Standard rat housing conditions in individually ventilated cages (IVC).

extract_protocol:
Directly after sciatic nerve dissection, the epineurial compartments were removed and the nerves were snap frozen in liquid nitrogen and stored at -80°C until further usage. Sciatic nerves were lysed in Trizol (Qiagen) using the Precellys homogenizer and the homogenate was mixed with Chloroform.
The RNA was then extracted with RNeasy Kit for lipid-rich tissue (Qiagen) according to the manufacture’s instruction. RNA concentration and quality was determined with the Agilent 2100 Bioanalyser (Agilent Technologies).

tag: genotype/variation

value: Wild-type

tag: time point

value: sciatic nerve


title: P18_WT_2


title: P18_WT_4


title: AB1010

description: Sample 218


title: AB1334

description: Sample 220


title: AB1282

description: Sample 209


title: AB1281

description: Sample 208


title: P18_TG_4

source_name: P18_TG_sciatic nerve

value: Pmp22 transgenic


title: P18_WT_1


title: AB1280

description: Sample 207

value: bone marrow


title: P18_TG_1


title: AB1278

description: Sample 205


title: P18_TG_2


title: P6_WT_4

source_name: P6_WT_sciatic nerve


title: AB1279

description: Sample 206


title: AB1277

description: Sample 204


title: AB1276

description: Sample 203


title: P6_WT_2


title: AB1274

description: Sample 201


title: P6_WT_1


title: P6_TG_3

source_name: P6_TG_sciatic nerve


title: AB1275

description: Sample 202


title: AB1273

description: Sample 200


title: AB1271

description: Sample 198


title: P6_TG_4


title: P6_TG_2


title: P6_WT_3


title: AB1321

description: Sample 210


title: AB1270

description: Sample 197

source_name: Bone marrow hematopoietic progenitor single cells, cKit III

value: Lin- CD19- NK1.1- CD71- CD24- CD11c- I-A/I-E- SiglecH- CD22- FcgR- cKit+


title: E21_WT_4

source_name: E21_WT_sciatic nerve


title: P18_TG_3


title: AB1268

description: Sample 195


title: AB1269

description: Sample 196


title: AB1267

description: Sample 194


title: E21_WT_2


title: E21_WT_3


title: E21_WT_1


title: AB1265

description: Sample 192


title: AB1266

description: Sample 193


title: E21_TG_4

source_name: E21_TG_sciatic nerve


title: AB1191

description: Sample 190


title: E21_TG_3


title: AB1192

description: Sample 191


title: AB1272

description: Sample 199


title: P6_TG_1


title: E21_TG_2


title: AB1187

description: Sample 186


title: AB1190

description: Sample 189


title: AB1188

description: Sample 187


title: AB1163

description: Sample 185


title: E21_TG_1


title: AB1189

description: Sample 188


title: HIM15 HIM15_Human_kidney_tubule_RNA-Seq_DS37924

city: SEATTLE

first: John

middle: A

last: Stamatoyannopoulos

state: WA

address: 2211 Elliott Avenue, 6th Floor

department: Genome Sciences

institute: Altius Institute / University of Washington

data_processing:
Basecalling, RTA v1.13
Alignments to GRCh38, star v2.4.2a
Annotation, cufflinks v2.2.1, GENCODE v25
Subread, featureCounts v1.5.1
Genome_build: hg38
Supplementary_files_format_and_content: Total density tracks, Cufflinks FPKM expression levels per gene as a .txt file

organism: Homo sapiens

source_name: Human kidney cortex tubule cultures

growth_protocol: Human kidney cortex was minced and digested with proteases (trypsin, collagenease) for 20 minutes at 37°C. The softened tissue fragments were mashed through a #60 gauge steel mesh and isolated glomeruli were collected on a #140 gauge steel mesh placed below. This procedure resulted in >95% pure decapsulated glomeruli. These were placed in 10% RPMI + ITS+ for a minimum of 10 days to allow glomeruli to attach and to allow podocytes and mesangial cells to grow out onto the culture dish. Medium was refreshed on day 10-14 and cells were allowed to expand/migrate off glomerular cores up to 21 days at which cells were harvested for DNase-seq or RNA-seq performed per published protocols. Human kidney cortex was minced and digested with proteases (trypsin, collagenease) for 20 minutes at 37°C. The softened tissue fragments were mashed with a sterile syringe plunger and the fragments were placed in 10% RPMI + ITS+. After 3 days, the medium was refreshed after vigorous washing with PBS to remove glomerular cores that were partially attached. Tubular cells had an epithelioid morphology and proliferated rapidly. Medium was refreshed every 3-4 days. When culture dishes were ~80% confluent,  cells were harvested for DNase-seq or RNA-seq which were performed per published protocols.

extract_protocol:
Ambion mirVana RNA isolation kit
Illumina TruSeq Stranded Total RNA Library Prep Kit

treatment_protocol: Accutase disaggregated live single cell suspensions (500,000 - 1,000,000 cells) were stabilized in 1ml of RNALater and stored at 4°C till RNA extraction.

tag: patient age

tag: gender

value: Male

tag: assay

value: RNA-seq


title: Podocytes-37C Podocytes-37C_RNA-Seq_DS34768

source_name: Human kidney immortalized cell line


title: HIM23 HIM23_Human_kidney_tubule_RNA-Seq_DS40494A


title: AB1161

description: Sample 183


title: AB1160

description: Sample 182


title: HIM26 HIM26_Glomeruli_RNA-Seq_DS41161R

source_name: Human kidney glomerular outgrowth cultures


title: Podocytes-33C Podocytes-33C_RNA-Seq_DS34767


title: AB1159

description: Sample 181


title: HIM22 HIM22_Glomeruli_RNA-Seq_DS39392R


title: HIM13 HIM13_Human_kidney_tubule_RNA-Seq_DS33394

value: Female


title: HIM23 HIM23_Glomeruli_RNA-Seq_DS40495B


title: AB1157

description: Sample 179


title: AB1158

description: Sample 180


title: Podocytes-37C Human_kidney_podocytes_DNase-seq_DS26687

data_processing:
Basecalling, RTA v1.13
Alignments to GRCh38, BWA v0.7.12
Read processing, Samtools v1.2
Read density, Bedops v2.4.15
Peak calling, Hotspot2 v2.1.1
Genome_build: hg38
Supplementary_files_format_and_content: Normalized density tracks, DHS peak calls as a .bed file

extract_protocol:
PEG precipitation and size fractionation of DNA
Low-input single-stranded library construction protocol as per PMIDs 23493070 & 26771485
DNase-seq

treatment_protocol: Accutase disaggregated live single cell suspensions were permeabilized with NP40 and subjected to DNaseI treatment. The reaction was stopped by addition of EDTA and SDS. The cell extract was deproteinized (proteinase K) and RNA was digested (Rnase).

value: DNase-seq


title: AB1155

description: Sample 177


title: HIM23 Human_kidney_tubule_DNase-seq_DS41396


title: AB1154

description: Sample 176


title: AB1156

description: Sample 178


title: Podocytes-33C Human_kidney_podocytes_DNase-seq_DS26685

description: Reanalyis of GSM2400462


title: AB1513

description: Sample 169

source_name: Bone marrow hematopoietic progenitor single cells, cKit II

value: Lin- CD19- NK1.1- CD71- cKit+


title: AB1511

description: Sample 167


title: AB1509

description: Sample 165


title: HIM18 Human_glomeruli_DNase-seq_DS35973


title: HIM26 Human_glomeruli_DNase-seq_DS41157


title: AB1162

description: Sample 184


title: HIM13 Human_kidney_tubule_DNase-seq_DS27824


title: AB1507

description: Sample 163


title: AB1515

description: Sample 171


title: AB1089

description: Sample 172


title: AB1514

description: Sample 170


title: AB1510

description: Sample 166


title: AB1512

description: Sample 168


title: AB1091

description: Sample 174


title: AB1090

description: Sample 173


title: HIM22 Human_glomeruli_DNase-seq_DS39386


title: AB1504

description: Sample 160


title: AB1503

description: Sample 159


title: AB1502

description: Sample 158


title: AB1501

description: Sample 157


title: AB1500

description: Sample 156


title: AB1508

description: Sample 164


title: AB1505

description: Sample 161


title: AB930

description: Sample 155

source_name: Bone marrow hematopoietic progenitor single cells, cKit+

value: Lin- cKit+

value: PBS SC


title: AB1506

description: Sample 162


title: HIM18 HIM18_Glomeruli_RNA-Seq_DS37391


title: AB929

description: Sample 154


title: HIM15 Human_kidney_tubule_DNase-seq_DS37969


title: AB1092

description: Sample 175


title: AB1004

description: Sample 153


title: AB1003

description: Sample 152


title: AB992

description: Sample 151


title: AB988

description: Sample 147


title: AB986

description: Sample 145


title: AB991

description: Sample 150


title: AB990

description: Sample 149


title: AB926

description: Sample 143


title: AB925

description: Sample 142


title: AB924

description: Sample 141


title: AB987

description: Sample 146


title: AB923

description: Sample 140


title: Biopsy tube2

city: St. Louis

first: Haojia

last: Wu

state: Missouri

address: 600 S Euclid Ave

department: Renal Division/Internal Medicine

institute: Washington University in St. Louis

description:
single cell RNA-seq
Renal biopsy was minced into small pieces and incubated in freshly prepared dissociation buffer containing 0.25% trypsin and 40U/ml DNase I. Dissociated cells were harvested every 10 min by filtering the cell suspension through a 70 µm cell strainer (pluriSelect) into 10% FBS buffer on ice. The residual biopsy tissue trapped on the cell strainer was dissociated once again with 1 mL dissociation buffer for 10 min, passed through cell strainer into the same FBS buffer from the first collection. We repeated this dissociation procedure three times until most of the tissue had been dissociated into single cells (total dissociation time was 30 min). Finally, cells were collected by centrifugation at 400 g for 5 min, resuspended in inDrop cell suspension buffer (9% Optiprep) and strained by a 40 µm cell mesh (pluriSelect) to further remove cell clumps and large fragments.
InDrop was performed as previous described. In brief, cells were diluted into 60,000 cells/mL in 9% Optiprep buffer. Single cell encapsulation was carried out using an inDrop instrument and microfluidic chip manufactured by 1CellBio. In total, four tubes of cells with an estimate of 1,000 cells/tube were collected. Library preparation was performed according to the protocol provided by the manufacturer. We used low PCR cycles (8-9 cycles) to amplify the libraries from this sample. Libraries were sequenced by HiSeq 2500 and NextSeq with a sequencing depth of 50K reads/cell.

data_processing:
Pair-end reads were processed by a newly developed inDrop computational pipeline (https://github.com/hms-dbmi/dropEst). In brief, cell barcodes and UMIs from the library were extracted from read1 by the dropTag program and added to the names of the transcript reads, resulting in a new fastq file for read alignment. We used STAR (version 2.5.3a) to map the high quality reads to the human genome (GRCh38). Only reads that were uniquely mapped to the genome (~70% of the total reads) were used for UMIs counts. We next ran the dropEst program to estimate the accurate molecular counts, which generated a UMI count matrix for each gene in each cell.
Supplementary_files_format_and_content: counts

source_name: Transplant kidney

extract_protocol:
RNA libraries were prepared for sequencing using standard inDrops procedure
Single cell RNA-seq

tag: protocol

value: inDrop

tag: age

value: 21 yrs


title: Biopsy tube4 part1


title: Biopsy tube1


title: AB927

description: Sample 138

value: PBS IP


title: AB1336

description: Sample 137


title: MSCs on PLGA, biological rep3

type: RNA

city: Beijing

first: Jing

last: Li

address: 28 Fuxing Road

country: China

institute: Chinese PLA General Hospital

hyb_protocol: Array hybridization and washing was performed using the GeneChip Hybridization.

scan_protocol: The slides were scanned with GeneChip Scanner 3000(Affymetrix) and Command Console Software 3.1 (Santa Clara) using the default settings.

data_processing: Ray data were normalized with the MAS 5.0 algorithm, Gene Spring Software 11.0.

label: Biotin

source_name: MSCs cultured on PLGA

label_protocol: The total RNA was labeled using GeneChip 30IVT Express Kit(Affymetrix) following the manufacture's instructions.

growth_protocol: MSCs were cultured in MSC medium for 5 days, and medium was changed every three days

extract_protocol: Total RNA was extracted using TRIZOL reagent and verified for a RIN number to determine the RNA integrity using an Agilent Bioanalyzer 2100.

treatment_protocol: MSCs were plated on traditional 2D culture plates or 3D matrixes including collagen, chitosan and PLGA

tag: cells

value: mesenchymal stem cells

tag: cultured condition

value: PLGA


title: MSCs on PLGA, biological rep1


title: MSCs on chitosan,biological rep2

source_name: MSCs cultured on chitosan

value: chitosan


title: HIM23 Human_glomeruli_DNase-seq_DS40507


title: AB1335

description: Sample 136


title: MSCs on chitosan,biological rep1


title: AB1002

description: Sample 135


title: AB985

description: Sample 144

value: G-CSF


title: Biopsy tube3


title: MSCs on collagen, biological rep3

source_name: MSCs cultured on collagen

value: collagen


title: AB928

description: Sample 139

value: bone marrow


title: AB998

description: Sample 132

value: Epo


title: AB997

description: Sample 131


title: MSCs on collagen, biological rep2


title: DGM-11111_M6_sm (demographics_pollution)

city: New York

first: Yael

last: Strulovici-Barel

state: NY

address: 1300 York Avenue

department: Department of Genetic Medicine

institute: Weill Cornell Medical College

description:
DGM-11111
307SAE-S_PM2.5_resid.csv

hyb_protocol: Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.

scan_protocol: GeneChips were scanned using the GeneChip Scanner 3000 7G.

data_processing: Gene expression was normalized using the Single-channel array normalization (SCAN)/Universal exPression Codes (UPC) method and University of Michigan HG-U133 Plus 2.0 microarray probeset definitions (version 21) . Genes with a UPC value of <0.2 in all samples were excluded.  SAE gene expression was modeled as a linear function of 30-day mean PM2.5 level. P values were calculated by two-sided Wald test, reflecting the probability that the regression coefficient for the pollution variable is non-zero.

label: biotin

source_name: small airway epithelium brushing

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1-2 microg total RNA (Expression Analysis Technical Manual, 701022 Rev.2, Affymetrix).

extract_protocol: Trizol extraction and RNAeasy clean-up of total RNA was performed according to the manufacturer's instructions.

tag: smoking status

value: smoker

tag: 30-day mean pm2.5 exposure level

tag: time of serial bronchoscopy (month)

tag: cell type

value: small airway epithelium brushing


title: DGM-11111_M12_sm (demographics_pollution)

description:
DGM-11111
307SAE-S_PM2.5_resid.csv


title: MSCs on 2D, biological rep2

source_name: MSCs cultured on traditional 2-D condition


title: DGM-11066_M6_sm (demographics_pollution)

description:
DGM-11066
307SAE-S_PM2.5_resid.csv


title: AB995

description: Sample 129

tag: strain

tag: treatment


title: AB996

description: Sample 130

tag: selection marker


title: Human_kidney_sNucInDrop

description: single nucleus RNA-seq

data_processing:
We used a newly developed pipeline, dropEst, to process the sNuc-inDrop data. In brief, we first filtered out the bad quality reads and extract the cell barcodes and UMIs from the library using the dropTag program (./droptag -c configs/indrop_v1_2.xml Barcode.reads.fastq.gz cDNA.reads.fastq.gz). We then mapped the filtered reads to human reference genome (GRCh38) using STAR 2.5.3a with the parameters: --genomeDir genome_index_dir --runThreadN 30 --readFilesCommand zcat --sjdbGTFfile path_to_gtf_file --outSAMtype BAM Unsorted --outSAMmultNmax 1 --outFilterMultimapNmax 50 --outSAMunmapped Within --sjdbOverhang 44 --twopassMode Basic --readFilesIn filtered.reads.fastq.gz). Finally, we quantified the reads uniquely mapped to exonic or intronic reads with the dropEst program (./dropest -m -g path_to_gtf -L ie -c configs/indrop_v1_2.xml STAR.Aligned.out.bam), and build a UMI counts matrix for each gene using both exonic and intronic reads.

Raw data format and content: In the GEO/SRA submission, R2 is the cell barcode and UMI reads. R1 is the transcript reads (biological reads). For inDrop single cell RNA-seq data processing, the cell barcode and UMI were extracted from read 2, and then appended to read 1 so we can quantify the transcripts for each gene in each cell.
Supplementary_files_format_and_content: UMI counts matrix for each gene using both exonic and intronic reads

source_name: Human kidney

extract_protocol:
Nuclei were isolated with Nuclei EZ Lysis buffer (Sigma #NUC-101) supplemented with protease inhibitor (Roche #5892791001) and RNase inhibitor (Promega #N2615, Life Technologies #AM2696). Samples were cut into <2 mm pieces and homogenized using a Dounce homogenizer (Kimble Chase #885302-0002) in 2ml of ice-cold Nuclei EZ Lysis buffer and incubated on ice for 5 min with an additional 2ml of lysis buffer. The homogenate was filtered through a 40-µm cell strainer (pluriSelect #43-50040-51) and then centrifuged at 500 x for 5 min at 4 ºC. The pellet was resuspended and washed with 4 ml of the buffer and incubated on ice for 5 min. After another centrifugation, the pellet was resuspended with Nuclei Suspension Buffer (1x PBS, 0.07% BSA, 0.1% RNase inhibitor), filtered through a 20-µm cell strainer (pluriSelect 43-50020-50) and counted. We used the inDrops protocol developed by Klein et al to generate single nucleus transcriptome.
RNA libraries were prepared for sequencing using standard inDrops procedure

tag: tissue

value: Human kidney

value: 70 years

tag: platform

value: inDrops


title: MSCs on 2D, biological rep1


title: MSCs on chitosan,biological rep3


title: MSCs on collagen, biological rep1


title: DGM-11066_M3_sm (demographics_pollution)

description:
DGM-11066
307SAE-S_PM2.5_resid.csv


title: AB994

description: Sample 128

value: Lin- cKit+


title: AB922

description: Sample 126


title: DGM-11066_M12_sm (demographics_pollution)

description:
DGM-11066
307SAE-S_PM2.5_resid.csv


title: AB993

description: Sample 127


title: DGM-11038_M6_sm (demographics_pollution)

description:
DGM-11038
307SAE-S_PM2.5_resid.csv


title: AB921

description: Sample 125


title: DGM-11038_M3_sm (demographics_pollution)

description:
DGM-11038
307SAE-S_PM2.5_resid.csv


title: AB999

description: Sample 133


title: DGM-11016_M6_sm (demographics_pollution)

description:
DGM-11016
307SAE-S_PM2.5_resid.csv


title: AB920

description: Sample 124


title: DGM-11038_M12_sm (demographics_pollution)

description:
DGM-11038
307SAE-S_PM2.5_resid.csv


title: AB1001

description: Sample 134


title: AB919

description: Sample 123


title: DGM-11016_M3_sm (demographics_pollution)

description:
DGM-11016
307SAE-S_PM2.5_resid.csv


title: MSCs on 2D, biological rep3


title: DGM-11016_M12_sm (demographics_pollution)

description:
DGM-11016
307SAE-S_PM2.5_resid.csv


title: AB1000

description: Sample 122


title: AB789

description: Sample 121


title: DGM-10986_M6_sm (demographics_pollution)

description:
DGM-10986
307SAE-S_PM2.5_resid.csv


title: AB787

description: Sample 119


title: AB785

description: Sample 117


title: AB786

description: Sample 118


title: AB783

description: Sample 115


title: DGM-10907_M6_sm (demographics_pollution)

description:
DGM-10907
307SAE-S_PM2.5_resid.csv


title: DGM-10922_M3_sm (demographics_pollution)

description:
DGM-10922
307SAE-S_PM2.5_resid.csv


title: DGM-10922_M6_sm (demographics_pollution)

description:
DGM-10922
307SAE-S_PM2.5_resid.csv


title: AB782

description: Sample 114


title: DGM-10906_M6_sm (demographics_pollution)

description:
DGM-10906
307SAE-S_PM2.5_resid.csv


title: AB784

description: Sample 116


title: AB781

description: Sample 113


title: DGM-10906_M3_sm (demographics_pollution)

description:
DGM-10906
307SAE-S_PM2.5_resid.csv


title: DGM-10906_M12_sm (demographics_pollution)

description:
DGM-10906
307SAE-S_PM2.5_resid.csv


title: AB780

description: Sample 112


title: DGM-10901_M6_sm (demographics_pollution)

description:
DGM-10901
307SAE-S_PM2.5_resid.csv


title: DGM-10986_M12_sm (demographics_pollution)

description:
DGM-10986
307SAE-S_PM2.5_resid.csv


title: AB778

description: Sample 110


title: AB777

description: Sample 109


title: DGM-10880_M3_sm (demographics_pollution)

description:
DGM-10880
307SAE-S_PM2.5_resid.csv


title: AB788

description: Sample 120


title: DGM-10880_M6_sm (demographics_pollution)

description:
DGM-10880
307SAE-S_PM2.5_resid.csv


title: AB776

description: Sample 108


title: DGM-10986_M3_sm (demographics_pollution)

description:
DGM-10986
307SAE-S_PM2.5_resid.csv


title: DGM-10869_M6_sm (demographics_pollution)

description:
DGM-10869
307SAE-S_PM2.5_resid.csv


title: AB779

description: Sample 111


title: AB773

description: Sample 106


title: DGM-10869_M3_sm (demographics_pollution)

description:
DGM-10869
307SAE-S_PM2.5_resid.csv


title: AB772

description: Sample 105


title: DGM-10851_M6_sm (demographics_pollution)

description:
DGM-10851
307SAE-S_PM2.5_resid.csv


title: AB770

description: Sample 103


title: DGM-10869_M12_sm (demographics_pollution)

description:
DGM-10869
307SAE-S_PM2.5_resid.csv


title: AB771

description: Sample 104


title: AB769

description: Sample 102


title: DGM-10851_M3_sm (demographics_pollution)

description:
DGM-10851
307SAE-S_PM2.5_resid.csv


title: DGM-10901_M12_sm (demographics_pollution)

description:
DGM-10901
307SAE-S_PM2.5_resid.csv


title: DGM-10851_M12_sm (demographics_pollution)

description:
DGM-10851
307SAE-S_PM2.5_resid.csv


title: DGM-10901_M3_sm (demographics_pollution)

description:
DGM-10901
307SAE-S_PM2.5_resid.csv


title: DGM-10844_M6_sm (demographics_pollution)

description:
DGM-10844
307SAE-S_PM2.5_resid.csv


title: AB766

description: Sample 100


title: AB767

description: Sample 101


title: AB765

description: Sample 99


title: AB774

description: Sample 107


title: DGM-10844_M3_sm (demographics_pollution)

description:
DGM-10844
307SAE-S_PM2.5_resid.csv


title: AB764

description: Sample 98


title: DGM-10844_M12_sm (demographics_pollution)

description:
DGM-10844
307SAE-S_PM2.5_resid.csv


title: DGM-10808_M12_sm (demographics_pollution)

description:
DGM-10808
307SAE-S_PM2.5_resid.csv


title: DGM-10768_M12_sm (demographics_pollution)

description:
DGM-10768
307SAE-S_PM2.5_resid.csv


title: AB761

description: Sample 96


title: DGM-10768_M6_sm (demographics_pollution)

description:
DGM-10768
307SAE-S_PM2.5_resid.csv


title: AB763

description: Sample 97


title: AB760

description: Sample 95


title: DGM-10757_M6_sm (demographics_pollution)

description:
DGM-10757
307SAE-S_PM2.5_resid.csv


title: DGM-10768_M3_sm (demographics_pollution)

description:
DGM-10768
307SAE-S_PM2.5_resid.csv


title: AB759

description: Sample 94


title: DGM-10757_M3_sm (demographics_pollution)

description:
DGM-10757
307SAE-S_PM2.5_resid.csv


title: AB756

description: Sample 91


title: AB751

description: Sample 90


title: DGM-10732_M3_sm (demographics_pollution)

description:
DGM-10732
307SAE-S_PM2.5_resid.csv


title: DGM-10732_M12_sm (demographics_pollution)

description:
DGM-10732
307SAE-S_PM2.5_resid.csv


title: AB750

description: Sample 89


title: DGM-10731_M6_sm (demographics_pollution)

description:
DGM-10731
307SAE-S_PM2.5_resid.csv


title: AB747

description: Sample 86


title: AB746

description: Sample 85


title: DGM-10704_M3_sm (demographics_pollution)

description:
DGM-10704
307SAE-S_PM2.5_resid.csv


title: DGM-10704_M12_sm (demographics_pollution)

description:
DGM-10704
307SAE-S_PM2.5_resid.csv


title: DGM-10698_M12_sm (demographics_pollution)

description:
DGM-10698
307SAE-S_PM2.5_resid.csv


title: AB745

description: Sample 84


title: DGM-10661_M3_sm (demographics_pollution)

description:
DGM-10661
307SAE-S_PM2.5_resid.csv


title: AB758

description: Sample 93


title: AB744

description: Sample 83


title: DGM-10661_M12_sm (demographics_pollution)

description:
DGM-10661
307SAE-S_PM2.5_resid.csv


title: AB741

description: Sample 80


title: DGM-10661_M6_sm (demographics_pollution)

description:
DGM-10661
307SAE-S_PM2.5_resid.csv


title: AB743

description: Sample 82


title: AB742

description: Sample 81


title: DGM-10625_M6_sm (demographics_pollution)

description:
DGM-10625
307SAE-S_PM2.5_resid.csv


title: AB740

description: Sample 79


title: DGM-10625_M3_sm (demographics_pollution)

description:
DGM-10625
307SAE-S_PM2.5_resid.csv


title: DGM-10731_M3_sm (demographics_pollution)

description:
DGM-10731
307SAE-S_PM2.5_resid.csv


title: AB749

description: Sample 88


title: DGM-10625_M12_sm (demographics_pollution)

description:
DGM-10625
307SAE-S_PM2.5_resid.csv


title: DGM-10731_M12_sm (demographics_pollution)

description:
DGM-10731
307SAE-S_PM2.5_resid.csv


title: AB757

description: Sample 92


title: AB738

description: Sample 77


title: DGM-10595_M6_sm (demographics_pollution)

description:
DGM-10595
307SAE-S_PM2.5_resid.csv


title: AB736

description: Sample 75


title: DGM-10595_M3_sm (demographics_pollution)

description:
DGM-10595
307SAE-S_PM2.5_resid.csv


title: AB734

description: Sample 73


title: AB735

description: Sample 74


title: DGM-10573_M6_sm (demographics_pollution)

description:
DGM-10573
307SAE-S_PM2.5_resid.csv


title: DGM-10573_M3_sm (demographics_pollution)

description:
DGM-10573
307SAE-S_PM2.5_resid.csv


title: AB733

description: Sample 72


title: DGM-10573_M12_sm (demographics_pollution)

description:
DGM-10573
307SAE-S_PM2.5_resid.csv


title: AB732

description: Sample 71


title: AB706

description: Sample 68


title: AB708

description: Sample 70


title: AB707

description: Sample 69


title: AB739

description: Sample 78


title: DGM-10569_M12_sm (demographics_pollution)

description:
DGM-10569
307SAE-S_PM2.5_resid.csv


title: DGM-10569_M6_sm (demographics_pollution)

description:
DGM-10569
307SAE-S_PM2.5_resid.csv


title: DGM-10522_M6_sm (demographics_pollution)

description:
DGM-10522
307SAE-S_PM2.5_resid.csv


title: AB737

description: Sample 76


title: AB691

description: Sample 67


title: DGM-10522_M3_sm (demographics_pollution)

description:
DGM-10522
307SAE-S_PM2.5_resid.csv


title: AB690

description: Sample 66


title: AB689

description: Sample 65


title: DGM-10595_M12_sm (demographics_pollution)

description:
DGM-10595
307SAE-S_PM2.5_resid.csv


title: AB688

description: Sample 64


title: DGM-10519_M6_sm (demographics_pollution)

description:
DGM-10519
307SAE-S_PM2.5_resid.csv


title: DGM-10519_M3_sm (demographics_pollution)

description:
DGM-10519
307SAE-S_PM2.5_resid.csv


title: AB687

description: Sample 63


title: DGM-10519_M12_sm (demographics_pollution)

description:
DGM-10519
307SAE-S_PM2.5_resid.csv


title: AB686

description: Sample 62


title: DGM-10571_M3_sm (demographics_pollution)

description:
DGM-10571
307SAE-S_PM2.5_resid.csv


title: AB685

description: Sample 61


title: AB667

description: Sample 60


title: DGM-10518_M3_sm (demographics_pollution)

description:
DGM-10518
307SAE-S_PM2.5_resid.csv


title: AB989

description: Sample 148


title: DGM-10395_M6_sm (demographics_pollution)

description:
DGM-10395
307SAE-S_PM2.5_resid.csv


title: DGM-10395_M3_sm (demographics_pollution)

description:
DGM-10395
307SAE-S_PM2.5_resid.csv


title: DGM-10374_M6_sm (demographics_pollution)

description:
DGM-10374
307SAE-S_PM2.5_resid.csv


title: AB665

description: Sample 58


title: DGM-10374_M12_sm (demographics_pollution)

description:
DGM-10374
307SAE-S_PM2.5_resid.csv


title: AB663

description: Sample 56


title: DGM-10522_M12_sm (demographics_pollution)

description:
DGM-10522
307SAE-S_PM2.5_resid.csv


title: DGM-10374_M3_sm (demographics_pollution)

description:
DGM-10374
307SAE-S_PM2.5_resid.csv


title: AB662

description: Sample 55


title: DGM-10369_M6_sm (demographics_pollution)

description:
DGM-10369
307SAE-S_PM2.5_resid.csv


title: DGM-10369_M3_sm (demographics_pollution)

description:
DGM-10369
307SAE-S_PM2.5_resid.csv


title: DGM-10369_M12_sm (demographics_pollution)

description:
DGM-10369
307SAE-S_PM2.5_resid.csv


title: AB660

description: Sample 53


title: AB658

description: Sample 51


title: DGM-10518_M6_sm (demographics_pollution)

description:
DGM-10518
307SAE-S_PM2.5_resid.csv


title: DGM-10358_M12_sm (demographics_pollution)

description:
DGM-10358
307SAE-S_PM2.5_resid.csv


title: DGM-10368_M6_sm (demographics_pollution)

description:
DGM-10368
307SAE-S_PM2.5_resid.csv


title: DGM-10351_M3_sm (demographics_pollution)

description:
DGM-10351
307SAE-S_PM2.5_resid.csv


title: DGM-10351_M6_sm (demographics_pollution)

description:
DGM-10351
307SAE-S_PM2.5_resid.csv


title: AB632

description: Sample 49


title: AB666

description: Sample 59


title: AB617

description: Sample 48


title: AB616

description: Sample 47


title: AB615

description: Sample 46


title: DGM-10282_M6_sm (demographics_pollution)

description:
DGM-10282
307SAE-S_PM2.5_resid.csv


title: DGM-10351_M12_sm (demographics_pollution)

description:
DGM-10351
307SAE-S_PM2.5_resid.csv


title: DGM-10316_M6_sm (demographics_pollution)

description:
DGM-10316
307SAE-S_PM2.5_resid.csv


title: AB664

description: Sample 57


title: AB613

description: Sample 44


title: AB612

description: Sample 43


title: DGM-10282_M3_sm (demographics_pollution)

description:
DGM-10282
307SAE-S_PM2.5_resid.csv


title: AB659

description: Sample 52


title: AB611

description: Sample 42

source_name: Bone marrow hematopoietic progenitor single cells, Lin- cKit+


title: AB633

description: Sample 50


title: DGM-10225_M6_sm (demographics_pollution)

description:
DGM-10225
307SAE-S_PM2.5_resid.csv


title: DGM-10282_M12_sm (demographics_pollution)

description:
DGM-10282
307SAE-S_PM2.5_resid.csv


title: AB609

description: Sample 40


title: DGM-10225_M3_sm (demographics_pollution)

description:
DGM-10225
307SAE-S_PM2.5_resid.csv


title: AB608

description: Sample 39


title: DGM-10217_M3_sm (demographics_pollution)

description:
DGM-10217
307SAE-S_PM2.5_resid.csv


title: AB606

description: Sample 37


title: AB614

description: Sample 45


title: DGM-10217_M12_sm (demographics_pollution)

description:
DGM-10217
307SAE-S_PM2.5_resid.csv


title: AB542

description: Sample 36


title: AB607

description: Sample 38


title: DGM-10316_M3_sm (demographics_pollution)

description:
DGM-10316
307SAE-S_PM2.5_resid.csv


title: DGM-10213_M12_sm (demographics_pollution)

description:
DGM-10213
307SAE-S_PM2.5_resid.csv


title: AB541

description: Sample 35


title: AB540

description: Sample 34


title: AB661

description: Sample 54


title: DGM-10201_M12_sm (demographics_pollution)

description:
DGM-10201
307SAE-S_PM2.5_resid.csv


title: DGM-10213_M3_sm (demographics_pollution)

description:
DGM-10213
307SAE-S_PM2.5_resid.csv


title: AB538

description: Sample 32


title: DGM-10213_M6_sm (demographics_pollution)

description:
DGM-10213
307SAE-S_PM2.5_resid.csv


title: DGM-10201_M3_sm (demographics_pollution)

description:
DGM-10201
307SAE-S_PM2.5_resid.csv


title: DGM-10201_M6_sm (demographics_pollution)

description:
DGM-10201
307SAE-S_PM2.5_resid.csv


title: AB536

description: Sample 30


title: AB537

description: Sample 31


title: DGM-10180_M6_sm (demographics_pollution)

description:
DGM-10180
307SAE-S_PM2.5_resid.csv


title: DGM-10217_M6_sm (demographics_pollution)

description:
DGM-10217
307SAE-S_PM2.5_resid.csv


title: MSCs on PLGA, biological rep2


title: DGM-10180_M3_sm (demographics_pollution)

description:
DGM-10180
307SAE-S_PM2.5_resid.csv


title: AB535

description: Sample 29


title: AB534

description: Sample 28


title: DGM-10163_M6_sm (demographics_pollution)

description:
DGM-10163
307SAE-S_PM2.5_resid.csv


title: AB533

description: Sample 27


title: AB532

description: Sample 26


title: DGM-10163_M3_sm (demographics_pollution)

description:
DGM-10163
307SAE-S_PM2.5_resid.csv


title: DGM-10163_M12_sm (demographics_pollution)

description:
DGM-10163
307SAE-S_PM2.5_resid.csv


title: AB531

description: Sample 25


title: DGM-00127_M0_sm (demographics_pollution)

description:
DGM-00127
307SAE-S_PM2.5_resid.csv


title: AB491

description: Sample 23


title: DGM-10170_M0_sm (demographics_pollution)

description:
DGM-10170
307SAE-S_PM2.5_resid.csv


title: DGM-00127_M12_sm (demographics_pollution)

description:
DGM-00127
307SAE-S_PM2.5_resid.csv


title: AB539

description: Sample 33


title: AB550

description: Sample 22

source_name: Bone marrow hematopoietic progenitor single cells, Lin-


title: AB549

description: Sample 21

value: Lin-


title: AB492

description: Sample 24


title: DGM-11111_M0_sm (demographics_pollution)

description:
DGM-11111
307SAE-S_PM2.5_resid.csv


title: AB548

description: Sample 20


title: AB547

description: Sample 19


title: DGM-10963_M0_sm (demographics_pollution)

description:
DGM-10963
307SAE-S_PM2.5_resid.csv


title: DGM-11062_M0_sm (demographics_pollution)

description:
DGM-11062
307SAE-S_PM2.5_resid.csv


title: DGM-11047_M0_sm (demographics_pollution)

description:
DGM-11047
307SAE-S_PM2.5_resid.csv


title: DGM-11008_M0_sm (demographics_pollution)

description:
DGM-11008
307SAE-S_PM2.5_resid.csv


title: DGM-11038_M0_sm (demographics_pollution)

description:
DGM-11038
307SAE-S_PM2.5_resid.csv


title: AB544

description: Sample 16


title: AB545

description: Sample 17


title: AB543

description: Sample 15


title: DGM-11066_M0_sm (demographics_pollution)

description:
DGM-11066
307SAE-S_PM2.5_resid.csv


title: DGM-10808_M0_sm (demographics_pollution)

description:
DGM-10808
307SAE-S_PM2.5_resid.csv


title: AB490

description: Sample 14


title: DGM-10948_M0_sm (demographics_pollution)

description:
DGM-10948
307SAE-S_PM2.5_resid.csv


title: DGM-10891_M0_sm (demographics_pollution)

description:
DGM-10891
307SAE-S_PM2.5_resid.csv


title: AB489

description: Sample 13


title: AB546

description: Sample 18


title: DGM-10625_M0_sm (demographics_pollution)

description:
DGM-10625
307SAE-S_PM2.5_resid.csv


title: AB487

description: Sample 11


title: DGM-10757_M0_sm (demographics_pollution)

description:
DGM-10757
307SAE-S_PM2.5_resid.csv


title: DGM-10721_M0_sm (demographics_pollution)

description:
DGM-10721
307SAE-S_PM2.5_resid.csv


title: DGM-10907_M0_sm (demographics_pollution)

description:
DGM-10907
307SAE-S_PM2.5_resid.csv


title: AB488

description: Sample 12


title: DGM-10361_M0_sm (demographics_pollution)

description:
DGM-10361
307SAE-S_PM2.5_resid.csv


title: AB670

description: Sample 9

source_name: Bone marrow hematopoietic progenitor single cells, total bone marrow


title: AB671

description: Sample 10


title: AB669

description: Sample 8


title: AB668

description: Sample 7


title: AB610

description: Sample 41


title: DGM-10732_M6_sm (demographics_pollution)

description:
DGM-10732
307SAE-S_PM2.5_resid.csv


title: AB635

description: Sample 6


title: AB634

description: Sample 5


title: DGM-10880_M0_sm (demographics_pollution)

description:
DGM-10880
307SAE-S_PM2.5_resid.csv


title: AB620

description: Sample 3


title: AB621

description: Sample 4


title: DGM-10640_M0_sm (demographics_pollution)

description:
DGM-10640
307SAE-S_PM2.5_resid.csv


title: DGM-10672_M0_sm (demographics_pollution)

description:
DGM-10672
307SAE-S_PM2.5_resid.csv


title: AB748

description: Sample 87


title: DGM-10538_M0_sm (demographics_pollution)

description:
DGM-10538
307SAE-S_PM2.5_resid.csv


title: AB618

description: Sample 1


title: DGM-10844_M0_sm (demographics_pollution)

description:
DGM-10844
307SAE-S_PM2.5_resid.csv


title: DGM-10774_M0_sm (demographics_pollution)

description:
DGM-10774
307SAE-S_PM2.5_resid.csv


title: DGM-10638_M0_sm (demographics_pollution)

description:
DGM-10638
307SAE-S_PM2.5_resid.csv


title: DGM-10571_M0_sm (demographics_pollution)

description:
DGM-10571
307SAE-S_PM2.5_resid.csv


title: DGM-10698_M0_sm (demographics_pollution)

description:
DGM-10698
307SAE-S_PM2.5_resid.csv


title: DGM-10519_M0_sm (demographics_pollution)

description:
DGM-10519
307SAE-S_PM2.5_resid.csv


title: DGM-10919_M0_sm (demographics_pollution)

description:
DGM-10919
307SAE-S_PM2.5_resid.csv


title: DGM-10569_M0_sm (demographics_pollution)

description:
DGM-10569
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00053732-batch1-rep1

city: Boston

first: Xianjun

last: Dong

state: MA

address: 60 Fenwood Rd

department: Neurology

institute: Brigham and Women's Hospital

description:
Nanostring miRNA measurement for blood sample
NB00000230

hyb_protocol: 250 ng of total RNA was obtained from 233 samples, and hybridized to the nCounter Human miRNA sample probes (Seattle, WA).

scan_protocol: Each sample was scanned for 600 FOV on the nCounter Digital Analyzer

data_processing: We first loaded raw RCC files for 233 samples into nSolver (v2.5) and extracted the raw counts, then substracted background noise based on mean of negative controls, normalized to positive controls, finally performed global normalization using all miRNAs.

label: miRNA-specific probes

label_protocol: Not applicable

extract_protocol: Using PAXgene Blood RNA Kit(PreAnalytiX Cat#:762164) for RNA extraction following the manufaturer's protocol.

tag: diagnosis

value: HD

value: male

tag: cap score

value: high

value: blood


title: blood-control-NS00062345-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000232

value: control

tag: gender

value: famale

value: cont


title: blood-control-NS00070672-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000233


title: blood-HD-NS00061672-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000231


title: blood-HD-NS00052636-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000229

value: med


title: AB619

description: Sample 2

value: bone marrow


title: DGM-10685_M0_sm (demographics_pollution)

description:
DGM-10685
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00036160-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000227


title: DGM-10537_M0_sm (demographics_pollution)

description:
DGM-10537
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00027066-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000225


title: blood-HD-NS00036755-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000228


title: blood-HD-NS00027074-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000226


title: DGM-10412_M0_sm (demographics_pollution)

description:
DGM-10412
307SAE-S_PM2.5_resid.csv


title: DGM-00221_M0_sm (demographics_pollution)

description:
DGM-00221
307SAE-S_PM2.5_resid.csv


title: DGM-10595_M0_sm (demographics_pollution)

description:
DGM-10595
307SAE-S_PM2.5_resid.csv


title: DGM-10423_M0_sm (demographics_pollution)

description:
DGM-10423
307SAE-S_PM2.5_resid.csv


title: DGM-10395_M0_sm (demographics_pollution)

description:
DGM-10395
307SAE-S_PM2.5_resid.csv


title: DGM-10732_M0_sm (demographics_pollution)

description:
DGM-10732
307SAE-S_PM2.5_resid.csv


title: DGM-10846_M0_sm (demographics_pollution)

description:
DGM-10846
307SAE-S_PM2.5_resid.csv


title: DGM-10518_M0_sm (demographics_pollution)

description:
DGM-10518
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00027007-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000222


title: blood-HD-NS00026761-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000220


title: blood-HD-NS00027004-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000221


title: DGM-10257_M0_sm (demographics_pollution)

description:
DGM-10257
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00026760-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000219


title: blood-control-NS00026757-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000218


title: DGM-10368_M0_sm (demographics_pollution)

description:
DGM-10368
307SAE-S_PM2.5_resid.csv


title: DGM-10369_M0_sm (demographics_pollution)

description:
DGM-10369
307SAE-S_PM2.5_resid.csv


title: DGM-10374_M0_sm (demographics_pollution)

description:
DGM-10374
307SAE-S_PM2.5_resid.csv


title: DGM-10201_M0_sm (demographics_pollution)

description:
DGM-10201
307SAE-S_PM2.5_resid.csv


title: DGM-10351_M0_sm (demographics_pollution)

description:
DGM-10351
307SAE-S_PM2.5_resid.csv


title: DGM-10282_M0_sm (demographics_pollution)

description:
DGM-10282
307SAE-S_PM2.5_resid.csv


title: DGM-10358_M0_sm (demographics_pollution)

description:
DGM-10358
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00027025-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000224


title: blood-control-NS00026755-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000216


title: DGM-10316_M0_sm (demographics_pollution)

description:
DGM-10316
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00026756-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000217


title: blood-HD-NS00027014-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000223


title: DGM-10217_M0_sm (demographics_pollution)

description:
DGM-10217
307SAE-S_PM2.5_resid.csv


title: DGM-10163_M0_sm (demographics_pollution)

description:
DGM-10163
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00026751-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000213


title: blood-HD-NS00026750-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000212


title: blood-HD-NS00026753-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000215


title: blood-HD-NS00026746-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000211


title: blood-control-NS00026743-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000208


title: blood-control-NS00026743-batch1-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000209


title: blood-control-NS00026745-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000210


title: blood-control-NS00026720-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000206


title: blood-HD-NS00026674-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000205


title: DGM-10180_M0_sm (demographics_pollution)

description:
DGM-10180
307SAE-S_PM2.5_resid.csv


title: DGM-10986_M0_sm (demographics_pollution)

description:
DGM-10986
307SAE-S_PM2.5_resid.csv


title: DGM-11021_M0_sm (demographics_pollution)

description:
DGM-11021
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00026645-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000204


title: DGM-11068_M0_sm (demographics_pollution)

description:
DGM-11068
307SAE-S_PM2.5_resid.csv


title: DGM-10225_M0_sm (demographics_pollution)

description:
DGM-10225
307SAE-S_PM2.5_resid.csv


title: DGM-10704_M0_sm (demographics_pollution)

description:
DGM-10704
307SAE-S_PM2.5_resid.csv


title: DGM-10906_M0_sm (demographics_pollution)

description:
DGM-10906
307SAE-S_PM2.5_resid.csv


title: DGM-10731_M0_sm (demographics_pollution)

description:
DGM-10731
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00026752-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000214


title: blood-control-NS00026642-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000203


title: blood-control-NS00026636-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000202


title: blood-HD-NS00026633-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000201


title: blood-HD-NS00026607-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000199


title: blood-HD-NS00026604-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000198


title: DGM-11113_M0_sm (demographics_pollution)

description:
DGM-11113
307SAE-S_PM2.5_resid.csv


title: DGM-10886_M0_sm (demographics_pollution)

description:
DGM-10886
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00026742-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000207


title: DGM-10922_M0_sm (demographics_pollution)

description:
DGM-10922
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00026563-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000196


title: DGM-10851_M0_sm (demographics_pollution)

description:
DGM-10851
307SAE-S_PM2.5_resid.csv


title: DGM-10768_M0_sm (demographics_pollution)

description:
DGM-10768
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00026561-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000195


title: blood-HD-NS00026573-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000197


title: DGM-10869_M0_sm (demographics_pollution)

description:
DGM-10869
307SAE-S_PM2.5_resid.csv


title: DGM-10901_M0_sm (demographics_pollution)

description:
DGM-10901
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00026557-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000193


title: DGM-10573_M0_sm (demographics_pollution)

description:
DGM-10573
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00026560-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000194


title: DGM-10706_M12_sm (demographics_pollution)

description:
DGM-10706
98SAE-NS_PM2.5_resid.csv

value: nonsmoker


title: DGM-10661_M0_sm (demographics_pollution)

description:
DGM-10661
307SAE-S_PM2.5_resid.csv

value: smoker


title: blood-HD-NS00026632-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000200


title: DGM-10213_M0_sm (demographics_pollution)

description:
DGM-10213
307SAE-S_PM2.5_resid.csv

value: small airway epithelium brushing


title: DGM-10435_M0_sm (demographics_pollution)

description:
DGM-10435
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00026555-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000192


title: DGM-10662_M12_sm (demographics_pollution)

description:
DGM-10662
98SAE-NS_PM2.5_resid.csv


title: DGM-10632_M3_sm (demographics_pollution)

description:
DGM-10632
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026524-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000189


title: DGM-10707_M12_sm (demographics_pollution)

description:
DGM-10707
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026530-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000190


title: blood-HD-NS00026554-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000191


title: blood-control-NS00026504-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000188


title: DGM-10662_M3_sm (demographics_pollution)

description:
DGM-10662
98SAE-NS_PM2.5_resid.csv


title: DGM-10568_M6_sm (demographics_pollution)

description:
DGM-10568
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026500-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000184


title: blood-HD-NS00026477-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000183


title: DGM-10568_M12_sm (demographics_pollution)

description:
DGM-10568
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026503-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000187


title: DGM-10565_M6_sm (demographics_pollution)

description:
DGM-10565
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026501-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000185


title: DGM-10565_M3_sm (demographics_pollution)

description:
DGM-10565
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026475-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000182


title: blood-control-NS00026502-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000186


title: blood-HD-NS00026471-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000181


title: DGM-10503_M6_sm (demographics_pollution)

description:
DGM-10503
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026463-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000179


title: blood-HD-NS00026461-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000178


title: DGM-10500_M3_sm (demographics_pollution)

description:
DGM-10500
98SAE-NS_PM2.5_resid.csv


title: DGM-10503_M3_sm (demographics_pollution)

description:
DGM-10503
98SAE-NS_PM2.5_resid.csv


title: DGM-10500_M12_sm (demographics_pollution)

description:
DGM-10500
98SAE-NS_PM2.5_resid.csv


title: DGM-10475_M6_sm (demographics_pollution)

description:
DGM-10475
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026457-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000177


title: DGM-10568_M3_sm (demographics_pollution)

description:
DGM-10568
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026454-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000176


title: blood-HD-NS00026440-batch1-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000175


title: DGM-10447_M6_sm (demographics_pollution)

description:
DGM-10447
98SAE-NS_PM2.5_resid.csv


title: DGM-10475_M12_sm (demographics_pollution)

description:
DGM-10475
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026440-batch0-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000174


title: DGM-10447_M3_sm (demographics_pollution)

description:
DGM-10447
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026424-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000173


title: DGM-10447_M12_sm (demographics_pollution)

description:
DGM-10447
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026470-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000180


title: DGM-10383_M3_sm (demographics_pollution)

description:
DGM-10383
98SAE-NS_PM2.5_resid.csv


title: DGM-10383_M6_sm (demographics_pollution)

description:
DGM-10383
98SAE-NS_PM2.5_resid.csv


title: DGM-10383_M12_sm (demographics_pollution)

description:
DGM-10383
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026420-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000171


title: DGM-10380_M6_sm (demographics_pollution)

description:
DGM-10380
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026410-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000170


title: DGM-10380_M3_sm (demographics_pollution)

description:
DGM-10380
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026405-batch1-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000167


title: blood-control-NS00026407-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000169


title: blood-control-NS00026406-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000168


title: DGM-10380_M12_sm (demographics_pollution)

description:
DGM-10380
98SAE-NS_PM2.5_resid.csv


title: DGM-10378_M6_sm (demographics_pollution)

description:
DGM-10378
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026404-batch1-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000165


title: DGM-10343_M3_sm (demographics_pollution)

description:
DGM-10343
98SAE-NS_PM2.5_resid.csv


title: DGM-10343_M6_sm (demographics_pollution)

description:
DGM-10343
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026423-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000172


title: blood-control-NS00026402-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000162


title: DGM-10322_M3_sm (demographics_pollution)

description:
DGM-10322
98SAE-NS_PM2.5_resid.csv


title: DGM-10330_M3_sm (demographics_pollution)

description:
DGM-10330
98SAE-NS_PM2.5_resid.csv


title: DGM-10322_M12_sm (demographics_pollution)

description:
DGM-10322
98SAE-NS_PM2.5_resid.csv


title: DGM-10288_M6_sm (demographics_pollution)

description:
DGM-10288
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026403-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000163


title: blood-control-NS00026405-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000166


title: DGM-10288_M3_sm (demographics_pollution)

description:
DGM-10288
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026357-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000158


title: blood-HD-NS00026365-batch1-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000160


title: blood-HD-NS00026365-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000159


title: blood-control-NS00026351-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000156


title: DGM-10288_M12_sm (demographics_pollution)

description:
DGM-10288
98SAE-NS_PM2.5_resid.csv


title: DGM-10284_M6_sm (demographics_pollution)

description:
DGM-10284
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026337-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000155


title: blood-control-NS00026354-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000157


title: blood-control-NS00026331-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000153


title: DGM-10284_M12_sm (demographics_pollution)

description:
DGM-10284
98SAE-NS_PM2.5_resid.csv


title: DGM-10343_M12_sm (demographics_pollution)

description:
DGM-10343
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026330-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000152


title: blood-control-NS00026400-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000161


title: blood-HD-NS00026334-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000154


title: blood-HD-NS00026326-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000151


title: DGM-10270_M6_sm (demographics_pollution)

description:
DGM-10270
98SAE-NS_PM2.5_resid.csv


title: DGM-10322_M6_sm (demographics_pollution)

description:
DGM-10322
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026325-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000150


title: blood-control-NS00026404-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000164


title: DGM-10270_M3_sm (demographics_pollution)

description:
DGM-10270
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026324-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000149


title: DGM-10270_M12_sm (demographics_pollution)

description:
DGM-10270
98SAE-NS_PM2.5_resid.csv


title: DGM-10261_M6_sm (demographics_pollution)

description:
DGM-10261
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026316-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000147


title: blood-HD-NS00026323-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000148


title: DGM-10261_M3_sm (demographics_pollution)

description:
DGM-10261
98SAE-NS_PM2.5_resid.csv


title: DGM-10284_M3_sm (demographics_pollution)

description:
DGM-10284
98SAE-NS_PM2.5_resid.csv


title: DGM-10261_M0_sm (demographics_pollution)

description:
DGM-10261
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026315-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000146


title: DGM-10254_M12_sm (demographics_pollution)

description:
DGM-10254
98SAE-NS_PM2.5_resid.csv


title: DGM-10254_M3_sm (demographics_pollution)

description:
DGM-10254
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026311-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000145


title: blood-control-NS00026261-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000143


title: blood-control-NS00026262-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000144


title: blood-control-NS00026260-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000142


title: DGM-10194_M6_sm (demographics_pollution)

description:
DGM-10194
98SAE-NS_PM2.5_resid.csv


title: DGM-10226_M3_sm (demographics_pollution)

description:
DGM-10226
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026255-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000140


title: DGM-10194_M12_sm (demographics_pollution)

description:
DGM-10194
98SAE-NS_PM2.5_resid.csv


title: DGM-10226_M6_sm (demographics_pollution)

description:
DGM-10226
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026252-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000139


title: blood-control-NS00026257-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000141


title: DGM-10161_M6_sm (demographics_pollution)

description:
DGM-10161
98SAE-NS_PM2.5_resid.csv


title: DGM-10161_M3_sm (demographics_pollution)

description:
DGM-10161
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026211-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000137


title: DGM-10254_M6_sm (demographics_pollution)

description:
DGM-10254
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026203-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000135


title: blood-control-NS00026200-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000133


title: DGM-10159_M6_sm (demographics_pollution)

description:
DGM-10159
98SAE-NS_PM2.5_resid.csv


title: DGM-10159_M3_sm (demographics_pollution)

description:
DGM-10159
98SAE-NS_PM2.5_resid.csv


title: DGM-10123_M6_sm (demographics_pollution)

description:
DGM-10123
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026173-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000130


title: blood-control-NS00026176-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000132


title: blood-control-NS00026222-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000138


title: DGM-01774_M6_sm (demographics_pollution)

description:
DGM-01774
98SAE-NS_PM2.5_resid.csv


title: DGM-10123_M12_sm (demographics_pollution)

description:
DGM-10123
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026174-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000131


title: blood-control-NS00026204-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000136


title: DGM-00342_M3_sm (demographics_pollution)

description:
DGM-00342
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026202-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000134


title: blood-control-NS00026164-batch1-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000129


title: DGM-00342_M6_sm (demographics_pollution)

description:
DGM-00342
98SAE-NS_PM2.5_resid.csv


title: DGM-01774_M3_sm (demographics_pollution)

description:
DGM-01774
98SAE-NS_PM2.5_resid.csv


title: DGM-10161_M12_sm (demographics_pollution)

description:
DGM-10161
98SAE-NS_PM2.5_resid.csv


title: DGM-00342_M12_sm (demographics_pollution)

description:
DGM-00342
98SAE-NS_PM2.5_resid.csv


title: DGM-10261_M12_sm (demographics_pollution)

description:
DGM-10261
98SAE-NS_PM2.5_resid.csv


title: DGM-10565_M12_sm (demographics_pollution)

description:
DGM-10565
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026122-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000123


title: blood-control-NS00026163-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000127


title: blood-HD-NS00026123-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000124


title: blood-HD-NS00026123-batch2-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000125


title: blood-control-NS00026127-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000126


title: DGM-10500_M6_sm (demographics_pollution)

description:
DGM-10500
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00026120-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000122


title: DGM-10123_M3_sm (demographics_pollution)

description:
DGM-10123
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026114-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000121


title: blood-control-NS00026113-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000120


title: DGM-10159_M12_sm (demographics_pollution)

description:
DGM-10159
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026110-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000119


title: DGM-00342_M0_sm (demographics_pollution)

description:
DGM-00342
98SAE-NS_PM2.5_resid.csv


title: DGM-01774_M12_sm (demographics_pollution)

description:
DGM-01774
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026164-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000128


title: DGM-10330_M0_sm (demographics_pollution)

description:
DGM-10330
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026100-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000118


title: DGM-10707_M0_sm (demographics_pollution)

description:
DGM-10707
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026066-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000117


title: DGM-10447_M0_sm (demographics_pollution)

description:
DGM-10447
98SAE-NS_PM2.5_resid.csv


title: DGM-10706_M0_sm (demographics_pollution)

description:
DGM-10706
98SAE-NS_PM2.5_resid.csv


title: DGM-10503_M12_sm (demographics_pollution)

description:
DGM-10503
98SAE-NS_PM2.5_resid.csv


title: DGM-10378_M0_sm (demographics_pollution)

description:
DGM-10378
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026046-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000116


title: blood-control-NS00026037-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000115


title: blood-control-NS00026011-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000112


title: blood-control-NS00026016-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000113


title: blood-control-NS00026035-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000114


title: DGM-10383_M0_sm (demographics_pollution)

description:
DGM-10383
98SAE-NS_PM2.5_resid.csv


title: DGM-10322_M0_sm (demographics_pollution)

description:
DGM-10322
98SAE-NS_PM2.5_resid.csv


title: DGM-10418_M0_sm (demographics_pollution)

description:
DGM-10418
98SAE-NS_PM2.5_resid.csv


title: DGM-10475_M3_sm (demographics_pollution)

description:
DGM-10475
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00026004-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000111


title: DGM-10284_M0_sm (demographics_pollution)

description:
DGM-10284
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00025776-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000109


title: blood-control-NS00025771-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000108


title: blood-control-NS00026000-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000110


title: blood-control-NS00025737-batch0-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000107


title: DGM-10226_M0_sm (demographics_pollution)

description:
DGM-10226
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00025727-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000106


title: DGM-01774_M0_sm (demographics_pollution)

description:
DGM-01774
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00025725-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000105


title: DGM-10475_M0_sm (demographics_pollution)

description:
DGM-10475
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00025714-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000103


title: blood-control-NS00025722-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000104


title: blood-control-NS00025665-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000101


title: DGM-10503_M0_sm (demographics_pollution)

description:
DGM-10503
98SAE-NS_PM2.5_resid.csv


title: DGM-10632_M0_sm (demographics_pollution)

description:
DGM-10632
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00025662-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000100


title: blood-HD-NS00025670-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000102


title: DGM-10565_M0_sm (demographics_pollution)

description:
DGM-10565
98SAE-NS_PM2.5_resid.csv


title: DGM-10270_M0_sm (demographics_pollution)

description:
DGM-10270
98SAE-NS_PM2.5_resid.csv


title: DGM-10194_M0_sm (demographics_pollution)

description:
DGM-10194
98SAE-NS_PM2.5_resid.csv


title: DGM-10343_M0_sm (demographics_pollution)

description:
DGM-10343
98SAE-NS_PM2.5_resid.csv


title: DGM-10500_M0_sm (demographics_pollution)

description:
DGM-10500
98SAE-NS_PM2.5_resid.csv


title: blood-control-NS00025661-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000099


title: blood-HD-NS00025626-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000097


title: DGM-10288_M0_sm (demographics_pollution)

description:
DGM-10288
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00025636-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000098


title: DGM-10380_M0_sm (demographics_pollution)

description:
DGM-10380
98SAE-NS_PM2.5_resid.csv


title: DGM-10254_M0_sm (demographics_pollution)

description:
DGM-10254
98SAE-NS_PM2.5_resid.csv


title: DGM-10662_M0_sm (demographics_pollution)

description:
DGM-10662
98SAE-NS_PM2.5_resid.csv


title: DGM-10159_M0_sm (demographics_pollution)

description:
DGM-10159
98SAE-NS_PM2.5_resid.csv


title: DGM-10123_M0_sm (demographics_pollution)

description:
DGM-10123
98SAE-NS_PM2.5_resid.csv


title: blood-HD-NS00025614-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000096


title: blood-HD-NS00025507-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000093


title: blood-HD-NS00025477-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000092


title: blood-HD-NS00025523-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000095


title: blood-control-NS00025511-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000094


title: DGM-11779_M0_sm (demographics_pollution)

description:
DGM-11779
307SAE-S_PM2.5_resid.csv

value: COPD smoker


title: DGM-11738_M0_sm (demographics_pollution)

description:
DGM-11738
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00025476-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000091


title: blood-control-NS00025472-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000090


title: DGM-11613_M6_sm (demographics_pollution)

description:
DGM-11613
307SAE-S_PM2.5_resid.csv


title: DGM-11613_M3_sm (demographics_pollution)

description:
DGM-11613
307SAE-S_PM2.5_resid.csv


title: DGM-11613_M0_sm (demographics_pollution)

description:
DGM-11613
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00025466-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000088


title: blood-control-NS00025471-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000089


title: DGM-11465_M3_sm (demographics_pollution)

description:
DGM-11465
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00025440-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000087


title: DGM-11465_M6_sm (demographics_pollution)

description:
DGM-11465
307SAE-S_PM2.5_resid.csv


title: blood-control-NS00025435-batch1-rep2

description:
Nanostring miRNA measurement for blood sample
NB00000085


title: DGM-11465_M12_sm (demographics_pollution)

description:
DGM-11465
307SAE-S_PM2.5_resid.csv


title: blood-HD-NS00025437-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000086


title: blood-control-NS00025435-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000084


title: blood-HD-NS00025423-batch1-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000083


title: blood-HD-NS00025420-batch2-rep1

description:
Nanostring miRNA measurement for blood sample
NB00000082


title: DGM-11463_M0_sm (demographics_pollution)

description:
DGM-11463
307SAE-S_PM2.5_resid.csv