title: Cell 29 from tonsillectomy sample 1


title: Cell 23 from tonsillectomy sample 2

status: Public on Apr 15 2021

type: SRA

city: Chicago

first: Yuta

last: Asano

state: IL

address: 924 E 57th Street

department: Medicine

country: USA

institute: The University of Chicago

library_source: transcriptomic

data_processing:
Illumina bcl2fastq2 software was used for basecalling. Sequenced reads were trimmed for adaptor sequence.
Before mapping, reference human transcriptome was masked for low-complexity or low-quality sequence by RepeatMasker with -noint -norna -qq options.
Reads were mapped to masked human transcriptome by kallisto. For single-end reads, -l 200 -s 50 options were used.
High quality cells were selected by detected gene count (> 3,000 for the first, and > 1,000 for the second cohort) and antibody gene expression (sum of log2-cpm values of Ig heavy constant region genes > 5).
Data of the first cohort was normalized by RUVSeq using ERCC-mapped reads as negative controls, and normalized by log2-cpm. The second cohort data were also log2-cpm-normalized and combined with the first cohort data by ComBat and SCTransform in Seurat to generate the integrated data.
Genome_build: GRCh38
Supplementary_files_format_and_content: Csv files of the normalized first cohort and integrated data

molecule: total RNA

organism: Homo sapiens

source_name: Tonsil

extract_protocol:
Tissues were minced and digested by Liberase TL, stained and sorted by FACS Fusion at -80 ˚C and frozen until library preparation.
Smart-Seq 2
single-cell RNA-seq

tag: patient

value: Tonsil 2

tag: plate

tag: well

tag: batch

value: Batch 3

tag: cohort

value: First


title: Cell 26 from tonsillectomy sample 1

value: Tonsil 1


title: Cell 20 from tonsillectomy sample 2


title: Cell 22 from tonsillectomy sample 1


title: Cell 27 from tonsillectomy sample 2


title: Cell 24 from tonsillectomy sample 1


title: Cell 23 from tonsillectomy sample 1


title: Cell 21 from tonsillectomy sample 1


title: Cell 20 from tonsillectomy sample 1


title: Cell 25 from tonsillectomy sample 1


title: Cell 27 from tonsillectomy sample 1


title: Cell 18 from tonsillectomy sample 2


title: Cell 19 from tonsillectomy sample 1


title: Cell 17 from tonsillectomy sample 2


title: Cell 16 from tonsillectomy sample 2


title: Cell 19 from tonsillectomy sample 2


title: Cell 21 from tonsillectomy sample 2


title: Cell 15 from tonsillectomy sample 2


title: Cell 13 from tonsillectomy sample 2


title: Cell 18 from tonsillectomy sample 1


title: Cell 16 from tonsillectomy sample 1


title: Cell 15 from tonsillectomy sample 1


title: Cell 14 from tonsillectomy sample 1


title: Cell 14 from tonsillectomy sample 2


title: Cell 11 from tonsillectomy sample 2


title: Cell 13 from tonsillectomy sample 1


title: Cell 10 from tonsillectomy sample 2


title: Cell 9 from tonsillectomy sample 2


title: Cell 12 from tonsillectomy sample 2


title: Cell 8 from tonsillectomy sample 2


title: Cell 12 from tonsillectomy sample 1


title: Cell 10 from tonsillectomy sample 1


title: Cell 9 from tonsillectomy sample 1


title: Cell 6 from tonsillectomy sample 2


title: Cell 7 from tonsillectomy sample 1


title: Cell 11 from tonsillectomy sample 1


title: Cell 5 from tonsillectomy sample 2


title: Cell 4 from tonsillectomy sample 2


title: Cell 5 from tonsillectomy sample 1


title: Cell 1 from tonsillectomy sample 2


title: Cell 6 from tonsillectomy sample 1


title: Cell 3 from tonsillectomy sample 2


title: Cell 3 from tonsillectomy sample 1


title: Cell 4 from tonsillectomy sample 1


title: Cell 2 from tonsillectomy sample 2


title: Cell 2 from tonsillectomy sample 1


title: Cell 17 from tonsillectomy sample 1


title: Cell 335 from renal allograft sample 2

source_name: Kidney

value: Kidney 2

value: Batch 2


title: Cell 1 from tonsillectomy sample 1


title: Cell 334 from renal allograft sample 2


title: Cell 333 from renal allograft sample 2


title: Cell 7 from tonsillectomy sample 2


title: Cell 332 from renal allograft sample 2


title: Cell 331 from renal allograft sample 2


title: Cell 329 from renal allograft sample 2


title: Cell 8 from tonsillectomy sample 1


title: Cell 328 from renal allograft sample 2


title: Cell 330 from renal allograft sample 2


title: Cell 326 from renal allograft sample 2


title: Cell 327 from renal allograft sample 2


title: Cell 321 from renal allograft sample 2


title: Cell 323 from renal allograft sample 2


title: Cell 322 from renal allograft sample 2


title: Cell 324 from renal allograft sample 2


title: Cell 319 from renal allograft sample 2


title: Cell 318 from renal allograft sample 2


title: Cell 320 from renal allograft sample 2


title: Cell 316 from renal allograft sample 2


title: Cell 315 from renal allograft sample 2


title: Cell 313 from renal allograft sample 2


title: Cell 311 from renal allograft sample 2


title: Cell 312 from renal allograft sample 2


title: Cell 308 from renal allograft sample 2


title: Cell 336 from renal allograft sample 2


title: Cell 325 from renal allograft sample 2


title: Cell 306 from renal allograft sample 2


title: Cell 307 from renal allograft sample 2


title: Cell 314 from renal allograft sample 2


title: Cell 304 from renal allograft sample 2


title: Cell 310 from renal allograft sample 2


title: Cell 305 from renal allograft sample 2


title: Cell 303 from renal allograft sample 2


title: Cell 317 from renal allograft sample 2


title: Cell 302 from renal allograft sample 2


title: Cell 301 from renal allograft sample 2


title: Cell 300 from renal allograft sample 2


title: Cell 299 from renal allograft sample 2


title: KPC_WES

city: Baltimore

first: Won Jin

last: Ho

state: MD

address: 1650 Orleans St. CRB I Rm 488

department: Oncology

institute: Johns Hopkins University

library_source: genomic

data_processing:
Library strategy: Whole exome sequencing
Raw BCL files generated were converted to fastq using bcl2fastq.
Sequence reads were trimmed to remove possible adapter sequences and nucleotides with poor quality using Trimmomatic v.0.38.
Cleaned reads were then aligned to GRCm38 reference genome using Illumina Dragen Bio-IT Platform generating BAM files.
Variant call files were generated using the Illumina Dragen Bio-IT Platform in somatic mode and the Ensembl Variant Effect Predictor (VEP) v95 annotation tool was used to classify mutation type.
Mutations included passed all quality filters and were not identified by dsSNP ID.
Genome_build: GRCm38
Supplementary_files_format_and_content: VCF files

molecule: genomic DNA

organism: Mus musculus

source_name: Cell line

growth_protocol: Cells were cultured n vitro per standard protocols

extract_protocol:
Cells were trypsinized and washed in PBS x2 and submitted as a pellet
gDNA is fragmented, probes are used to bind exons and pull down, and addapters are added to exon-enriched DNA (Agilent SureSelect XT Mouse All Exon Kit is used)

tag: cell type

value: Cell line from a mouse pancreatic cancer

tag: cell line

value: KPC

tag: strain

tag: Sex

value: female


title: Panc02_WES

value: male


title: Cell 309 from renal allograft sample 2


title: M_LPS_9

city: Shanghai

first: Wei

last: Jiang

address: No.130, Dong`an Road, XuHui District

department: Department of Immunology, School of Basic Medical Sciences

country: China

institute: Fudan University

data_processing:
Illumina Casava 1.8 software was used for basecalling.
clean reads were obtained by removing reads containing adapter, reads containing poly-N and low quality reads from raw data. At the same time, Q20, Q30 and GC content the clean data were calculated
Index of the reference genome was built and paired-end clean reads were aligned to Mus musculus genome (mm10) using Hisat2 v2.0.5.
featureCounts v1.5.0-p3 was used to count the reads numbers mapped to each gene. And then FPKM (expected number of Fragments Per  Kilobase of transcript sequence per Millions base pairs sequenced) of each gene was calculated based on the length of the gene and reads count mapped to this gene.
Genome_build: mm10
Supplementary_files_format_and_content: txt file including FPKM values and raw readcounts for each sample and each gene

source_name: Resident peritoneal macrophages

extract_protocol:
Resident peritoneal macrophages were cultured at pH 6.8 or 7.4, total RNA was isolated using Trizol, Sequencing libraries were generated using Illumina NEBNext® UltraTM RNA  Library Prep Kit.
RNA libraries were constructed for sequencing using Illumina NEBNext UltraTM RNA Library Prep Kit  (NEB, USA) following manufacturer`s protocols.

value: Resident peritoneal macrophages

tag: buffer

value: MOPS

tag: lps treatment

value: LPS treated


title: H_LPS_12

value: HEPES


title: H_LPS_10


title: Cell 298 from renal allograft sample 2


title: M_LPS_7


title: Cell 297 from renal allograft sample 2


title: H_6

value: untreated


title: Cell 296 from renal allograft sample 2


title: Cell 295 from renal allograft sample 2


title: H_5


title: H_4


title: Cell 294 from renal allograft sample 2


title: Cell 293 from renal allograft sample 2


title: M_3


title: H_LPS_11


title: Cell 292 from renal allograft sample 2


title: M_2


title: Cell 290 from renal allograft sample 2


title: Cell 291 from renal allograft sample 2


title: NewL4-cDNA_S78

city: Davis

first: Alexander

middle: Star

last: Nord

state: CA

address: 1544 Newton Court

department: Center for Neuroscience

institute: University of California Davis

data_processing:
Library strategy: MPRA
PE reads were trimmed using Ngmerge (v0.2_dev) in adaptor removal mode.
Reads from were aligned to the human and mouse genomes (GRCh38, GRCm38) using bwa mem v0.7.17.
Aligned reads in SAM format were converted to BAM format, and duplicates were removed using Picard Tools MarkDuplicates, v2.23.3.
Reads per amplicon were counted using samtools view -F 0x0400 v1.10
Genome_build: GRCh38 and GRCm38
Supplementary_files_format_and_content: CSV, read counts per MPRA amplicon

source_name: Mouse cortex

extract_protocol:
Bulk forebrains were dissected from postnatal day (P)7 mice injected with the viral library at P0. Dissection included whole forebrain, separated into left and right hemispheres, after removing surface tissue and skull. Hemispheres were stored in RNAlater Stabilization Solution (Thermo Fisher #AM7020) for downstream dual DNA and RNA collection. Hemispheres were then physically homogenized and processed using the AllPrep DNA/RNA Mini Kit (Qiagen #80204) to collect total RNA and genomic DNA from the same tissue. RNA was treated on-column with 1 µL RNase-Free DNase (Qiagen #79254). First strand cDNA was synthesized from purified total RNA using the SuperScript VILO cDNA Synthesis Kit (Invitrogen #11755050) with random primers.
We amplified the variable regions of the reporter library from cDNA and genomic (g)DNA using PCR with Phusion Hot Start II High Fidelity DNA polymerase (Invitrogen #F549S) using primers flanking the variable region within pscAAV-Hsp68-EGFP (forward primer, Amplicon PCR Primer F: GATCACTCTCGGCATGGAC; reverse primer, Amplicon PCR Primer R: GATGGCTGGCAACTAGAAGG). PCR consisted of 30 cycles (or 35, for technical replicate Sample 4-35) at 60 °C for annealing and 1 min for extension. PCRs were then loaded onto a 1.0% agarose gel, the ~1-1.1 kb fragment excised, and gel fragment purified using the Promega Gel & PCR Cleanup system (#A9282). Purified gel fragments were then re-purified using the Qiagen MinElute PCR Purification Kit (#28004) to remove residual chemical contamination, and concentration and quality assessed with Nanodrop and the Qubit dsDNA High Sensitivity assay kit (Thermo Fisher #Q33230). Purified amplicons were prepared for sequencing using the Nextera XT DNA Library Preparation Kit (Illumina #FC-131-1001) using 1 ng of purified amplicon library per sample. Quality and concentration of sequencing libraries was assessed using an Agilent BioAnalyzer instrument. Each library was quantified and pooled for sequencing on the Illumina HiSeq 4000 using a paired end 150-bp sequencing strategy. The miniMPRA was sequenced on a MiSeq instrument since lower coverage was required due to lower library complexity.

treatment_protocol: C57BL/6 mice from Jackson Laboratories were used for mouse experiments. All procedures were performed in accordance with the ARVO statement for the Use of Animals in Ophthalmic and Vision Research and were approved by the University of California Animal Care and Use Committee (AUP #R200-0913BC). Surgery was performed under anesthesia, and all efforts were made to minimize suffering. Neonatal mice (on a C57BL6/J background) were injected in the prefrontal cortex in 2 separate locations with 0.5 µL of virus. Only the left side of brain was injected. A beveled 34-gauge needle (Hamilton syringes) was used to push through the skull and to inject virus into the brain. Virus was delivered slowly by hand over the course of 1 min. Mice were anesthetized on ice for 3-4 min prior to injection, and after injection mice were heated on a warm pad before being returned to the cage.

tag: genetic material

value: Mouse cortex RNA

tag: developmental stage

tag: vehicle

value: AAV library


title: L4-gDNA_S73

value: Mouse cortex DNA


title: High35-L4-cDNA


title: OldL3-cDNA_S77


title: Cell 288 from renal allograft sample 2


title: Cell 287 from renal allograft sample 2


title: Cell 289 from renal allograft sample 2


title: L3-gDNA_S72


title: Cell 286 from renal allograft sample 2


title: M_LPS_8


title: OldL2-cDNA_S76


title: L2-gDNA_S71


title: Cell 285 from renal allograft sample 2


title: OldL1-cDNA_S75


title: Cell 283 from renal allograft sample 2


title: Cell 282 from renal allograft sample 2


title: Cell 281 from renal allograft sample 2


title: shFoxA1 K295A #2

city: Atlanta

first: Jindan

last: Yu

state: GA

address: E330, 1760 Haygood Dr NE

department: Urology

institute: Emory University

data_processing:
Sequenced reads were mapped to hg38 human genome using STAR
raw counts were calculated by STAR, RPKM/FPKM values were calculated by perl script
Genome_build: hg38
Supplementary_files_format_and_content: txt file of RPKM/FPKM values for each Sample

source_name: shFoxA1 K295A #2

growth_protocol: LNCaP cells were maintained in RPMI supplemented with 10% FBS and 1% penicillin and streptomycin

extract_protocol:
Total RNA was isolated from cells using the nucleospin RNA kit (Takara) according to the manufacturer's recommended protocol.
RNA-seq libraries were prepared from 0.5 μg high-quality DNA-free total RNA by using NEBNext® Ultra RNA Library Prep Kit, according to the manufacturer’s instructions. The libraries passing quality control (equal size distribution between 250-400 bp, no adapter contamination peaks, no degradation peaks) were quantified using the Library Quantification Kit from Illiumina (Kapa Biosystems, KK4603) using the Illumina provided protocol.
RNA-Seq samples were sequenced on an Illumina HiSEQ4000 using Illumina provided reagents and protocols

treatment_protocol: For samples mr301-mr312, LNCaP cells were infected with control shRNA or shRNA targeting USP7, BUB3, or FOXA1 for 5 days. For samples mr157-mr162, LNCaP were transfected with control siRNA or siRNA targeting EZH2 for 4 days. For mr313-mr323, LNCaP were infected with shCtrl or shFOXA1 along with control, HA-FOXA1, or HA-295A for 5 days.

value: LNCaP

tag: tissue

value: prostate

tag: shRNA

value: shFoxA1 K295A #2


title: M_1


title: shFoxA1 K295A #3

source_name: shFoxA1 K295A #3

value: shFoxA1 K295A #3


title: Cell 280 from renal allograft sample 2

value: Kidney 2

value: Batch 2

value: First


title: shFoxA1 K295A #1

source_name: shFoxA1 K295A #1

value: shFoxA1 K295A #1


title: Cell 279 from renal allograft sample 2


title: shFoxA1 WT #3

source_name: shFoxA1 WT #3

value: shFoxA1 WT #3


title: Cell 277 from renal allograft sample 2


title: shFoxA1 #3

source_name: shFoxA1 #3

value: shFoxA1 #3


title: shFoxA1 WT #1

source_name: shFoxA1 WT #1

value: shFoxA1 WT #1


title: Cell 276 from renal allograft sample 2


title: shFoxA1 WT #2

source_name: shFoxA1 WT #2

value: shFoxA1 WT #2


title: shFoxA1 #2

source_name: shFoxA1 #2

value: shFoxA1 #2


title: Cell 275 from renal allograft sample 2


title: Cell 273 from renal allograft sample 2


title: shFoxA1 #1

source_name: shFoxA1 #1

value: shFoxA1 #1


title: Cell 284 from renal allograft sample 2


title: Cell 272 from renal allograft sample 2


title: L1-gDNA_S70


title: Cell 271 from renal allograft sample 2


title: pGIPZ #3

source_name: pGIPZ #3

value: pGIPZ #3


title: pGIPZ #2

source_name: pGIPZ #2

value: pGIPZ #2


title: siEZH2 #3

source_name: siEZH2 #3

value: siEZH2 #3


title: Cell 269 from renal allograft sample 2


title: Cell 270 from renal allograft sample 2


title: pGIPZ #1

source_name: pGIPZ #1

value: LNCaP

value: pGIPZ #1


title: siEZH2 #2

source_name: siEZH2 #2

value: prostate

value: siEZH2 #2


title: Cell 268 from renal allograft sample 2

source_name: Kidney

value: Kidney 2


title: Cell 278 from renal allograft sample 2

value: Batch 2


title: siEZH2 #1

source_name: siEZH2 #1

value: siEZH2 #1


title: Cell 265 from renal allograft sample 2

value: First


title: Cell 267 from renal allograft sample 2


title: Cell 266 from renal allograft sample 2


title: siCtrl #2

source_name: siCtrl #2

value: siCtrl #2


title: siCtrl #3

source_name: siCtrl #3

value: siCtrl #3


title: siCtrl #1

source_name: siCtrl #1

value: siCtrl #1


title: Cell 264 from renal allograft sample 2


title: Cell 262 from renal allograft sample 2


title: Cell 274 from renal allograft sample 2


title: shFOXA1 #3

source_name: shFOXA1 #3

value: shFOXA1 #3


title: Cell 263 from renal allograft sample 2


title: shFOXA1 #2

source_name: shFOXA1 #2

value: shFOXA1 #2


title: Cell 258 from renal allograft sample 2


title: Cell 257 from renal allograft sample 2


title: Cell 256 from renal allograft sample 2


title: Cell 255 from renal allograft sample 2


title: LNCaP-plko #3

source_name: LNCaP-plko #3

value: LNCaP-plko #3


title: shBUB3 #2

source_name: shBUB3 #2

value: shBUB3 #2


title: Cell 261 from renal allograft sample 2


title: shUSP7-1 #3

source_name: shUSP7-1 #3

value: shUSP7-1 #3


title: shFOXA1 #1

source_name: shFOXA1 #1

value: shFOXA1 #1


title: Cell 259 from renal allograft sample 2


title: shBUB3 #1

source_name: shBUB3 #1

value: LNCaP

value: shBUB3 #1


title: shBUB3 #3

source_name: shBUB3 #3

value: prostate

value: shBUB3 #3


title: Cell 260 from renal allograft sample 2

value: Kidney 2


title: Cell 253 from renal allograft sample 2

value: Batch 2


title: shUSP7-1 #1

source_name: shUSP7-1 #1

value: shUSP7-1 #1


title: LNCaP-plko #1

source_name: LNCaP-plko #1

value: LNCaP-plko #1


title: LNCaP-plko #2

source_name: LNCaP-plko #2

value: LNCaP-plko #2


title: Cell 250 from renal allograft sample 2

value: First


title: Cell 252 from renal allograft sample 2


title: Cell 251 from renal allograft sample 2


title: IGF106739

city: London

first: Holger

last: Auner

address: Du Cane Road

department: Department of Immunology and Inflammation

country: United Kingdom

institute: Imperial College london

description:
cDNA
RawCounts.tsv

data_processing:
Kallisto (v0.44.0) count abundance over GENCODE ‘comprehensive gene annotation’ (Release GRCh38 v28) with 50x bootstrap.
tximport (v1.9.8) read count input.
DESeq2 (v1.25.8) read count normalization and differential expression analysis.
R (v3.5.0) for all other analyses.
Genome_build: GRCh38.p12
Supplementary_files_format_and_content: RawCounts.tsv includes raw counts.

growth_protocol: RPMI-8226 cells were routinely expanded by changing media (RPMI-1640 + 20% FBS + 1% penicillin plus streptomycin solution), adjusting the cell concentration to 10e6 cell/ml and re-plating them (typically into T175 flasks) every 48 h.

extract_protocol:
Total mRNA was extracted using ReliaPrepTM RNA Miniprep Systems (Promega).
Libraries were constructed using the NEBNext® Ultra™ II Directional RNA Library Prep Kit for Illumina, according to manufacturer recommendations.

treatment_protocol: RPMI-8226 cells were treated with 750 nM carfilzomib for 1 h. Cells were then washed with PBS and cultured in fresh medium without carfilzomib. Medium was replaced every 48 h till day 10.

value: Multiple myeloma cells

tag: treatment

value: Carfilzomib, 750 nM, 1 h

tag: time point

value: Day 6

tag: replicate


title: Cell 249 from renal allograft sample 2

tag: patient

tag: plate

tag: well


title: IGF106741

description:
cDNA
RawCounts.tsv

tag: cell type

value: Day 10


title: Cell 247 from renal allograft sample 2

tag: batch

tag: cohort


title: IGF106737

description:
cDNA
RawCounts.tsv

tag: cell line

value: Day 2


title: IGF106738

description:
cDNA
RawCounts.tsv

value: Day 4


title: IGF106740

description:
cDNA
RawCounts.tsv

value: Day 8


title: shUSP7-1 #2

source_name: shUSP7-1 #2

value: LNCaP

value: shUSP7-1 #2


title: Cell 246 from renal allograft sample 2

source_name: Kidney


title: IGF106732

description:
cDNA
RawCounts.tsv


title: Cell 245 from renal allograft sample 2


title: Cell 243 from renal allograft sample 2


title: Cell 254 from renal allograft sample 2


title: Cell 244 from renal allograft sample 2


title: IGF106733

description:
cDNA
RawCounts.tsv


title: IGF106730

description:
cDNA
RawCounts.tsv


title: Cell 242 from renal allograft sample 2


title: Cell 240 from renal allograft sample 2


title: IGF106731

description:
cDNA
RawCounts.tsv


title: Cell 239 from renal allograft sample 2


title: IGF106727

description:
cDNA
RawCounts.tsv

value: Day 0


title: Cell 248 from renal allograft sample 2


title: IGF106728

description:
cDNA
RawCounts.tsv

value: Day 1


title: IGF106725

description:
cDNA
RawCounts.tsv


title: IGF106724

description:
cDNA
RawCounts.tsv


title: Cell 241 from renal allograft sample 2

value: Kidney 2


title: Cell 238 from renal allograft sample 2

value: Batch 2


title: Cell 3 from renal allograft sample 7

value: Kidney 7

value: Batch 5

value: Second


title: Cell 237 from renal allograft sample 2

value: First


title: Cell 236 from renal allograft sample 2


title: IGF106722

description:
cDNA
RawCounts.tsv

value: Multiple myeloma cells


title: Cell 2 from renal allograft sample 7


title: IGF106723

description:
cDNA
RawCounts.tsv

value: Carfilzomib, 750 nM, 1 h


title: IGF106721

description:
cDNA
RawCounts.tsv


title: IGF106736

description:
cDNA
RawCounts.tsv


title: IGF106735

description:
cDNA
RawCounts.tsv


title: IGF106729

description:
cDNA
RawCounts.tsv


title: IGF106720

description:
cDNA
RawCounts.tsv


title: Cell 1 from renal allograft sample 7


title: Cell 190 from renal allograft sample 6

value: Kidney 6


title: IGF106717

description:
cDNA
RawCounts.tsv

value: Day 10


title: IGF106716

description:
cDNA
RawCounts.tsv


title: Cell 189 from renal allograft sample 6


title: IGF106715

description:
cDNA
RawCounts.tsv

value: Day 6


title: Cell 191 from renal allograft sample 6


title: IGF106713

description:
cDNA
RawCounts.tsv

value: Day 2


title: Cell 187 from renal allograft sample 6


title: Cell 185 from renal allograft sample 6


title: Cell 184 from renal allograft sample 6


title: IGF106711

description:
cDNA
RawCounts.tsv


title: Cell 186 from renal allograft sample 6


title: Cell 183 from renal allograft sample 6


title: IGF106712

description:
cDNA
RawCounts.tsv


title: IGF106708

description:
cDNA
RawCounts.tsv

value: Day 8


title: Cell 181 from renal allograft sample 6


title: IGF106709

description:
cDNA
RawCounts.tsv


title: IGF106706

description:
cDNA
RawCounts.tsv

value: Day 4


title: Cell 180 from renal allograft sample 6


title: IGF106705

description:
cDNA
RawCounts.tsv


title: IGF106707

description:
cDNA
RawCounts.tsv


title: Cell 179 from renal allograft sample 6


title: IGF106719

description:
cDNA
RawCounts.tsv


title: Cell 178 from renal allograft sample 6


title: Cell 192 from renal allograft sample 6


title: IGF106703

description:
cDNA
RawCounts.tsv


title: Cell 188 from renal allograft sample 6


title: IGF106714

description:
cDNA
RawCounts.tsv


title: IGF106704

description:
cDNA
RawCounts.tsv


title: Cell 174 from renal allograft sample 6


title: Cell 176 from renal allograft sample 6


title: Cell 177 from renal allograft sample 6


title: Cell 171 from renal allograft sample 6


title: Cell 170 from renal allograft sample 6


title: Cell 169 from renal allograft sample 6


title: Cell 182 from renal allograft sample 6


title: Cell 166 from renal allograft sample 6


title: Cell 167 from renal allograft sample 6


title: Cell 165 from renal allograft sample 6


title: Cell 162 from renal allograft sample 6


title: Cell 164 from renal allograft sample 6


title: Cell 161 from renal allograft sample 6


title: Cell 163 from renal allograft sample 6


title: Cell 157 from renal allograft sample 6


title: Cell 158 from renal allograft sample 6


title: Cell 160 from renal allograft sample 6


title: Cell 156 from renal allograft sample 6


title: Cell 155 from renal allograft sample 6


title: Cell 173 from renal allograft sample 6


title: Cell 150 from renal allograft sample 6


title: Cell 154 from renal allograft sample 6


title: Cell 153 from renal allograft sample 6


title: Cell 151 from renal allograft sample 6


title: Cell 152 from renal allograft sample 6


title: Cell 172 from renal allograft sample 6


title: Cell 175 from renal allograft sample 6


title: Cell 149 from renal allograft sample 6


title: Cell 148 from renal allograft sample 6


title: Cell 146 from renal allograft sample 6


title: Cell 168 from renal allograft sample 6


title: Cell 147 from renal allograft sample 6


title: Cell 144 from renal allograft sample 6


title: Cell 145 from renal allograft sample 6


title: Cell 142 from renal allograft sample 6


title: Cell 141 from renal allograft sample 6


title: Cell 159 from renal allograft sample 6


title: Cell 143 from renal allograft sample 6


title: Cell 138 from renal allograft sample 6


title: Cell 137 from renal allograft sample 6


title: Cell 139 from renal allograft sample 6


title: Cell 140 from renal allograft sample 6


title: Cell 136 from renal allograft sample 6


title: Cell 133 from renal allograft sample 6


title: Cell 134 from renal allograft sample 6


title: Cell 132 from renal allograft sample 6


title: Cell 131 from renal allograft sample 6


title: Cell 130 from renal allograft sample 6


title: Cell 124 from renal allograft sample 6


title: Cell 122 from renal allograft sample 6


title: Cell 123 from renal allograft sample 6


title: Cell 129 from renal allograft sample 6


title: Cell 127 from renal allograft sample 6


title: Cell 128 from renal allograft sample 6


title: Cell 126 from renal allograft sample 6


title: Cell 125 from renal allograft sample 6


title: Cell 119 from renal allograft sample 6


title: Cell 121 from renal allograft sample 6


title: Cell 116 from renal allograft sample 6


title: Cell 117 from renal allograft sample 6


title: Cell 118 from renal allograft sample 6


title: Cell 120 from renal allograft sample 6


title: Cell 115 from renal allograft sample 6


title: Cell 113 from renal allograft sample 6


title: Cell 135 from renal allograft sample 6


title: Cell 114 from renal allograft sample 6


title: Cell 110 from renal allograft sample 6


title: Cell 111 from renal allograft sample 6


title: Cell 108 from renal allograft sample 6


title: Cell 107 from renal allograft sample 6


title: Cell 112 from renal allograft sample 6


title: Cell 106 from renal allograft sample 6


title: Cell 105 from renal allograft sample 6


title: Cell 104 from renal allograft sample 6


title: Cell 101 from renal allograft sample 6


title: Cell 103 from renal allograft sample 6


title: Cell 102 from renal allograft sample 6


title: Cell 99 from renal allograft sample 6


title: Cell 100 from renal allograft sample 6


title: Cell 98 from renal allograft sample 6


title: Cell 97 from renal allograft sample 6


title: Cell 94 from tonsillectomy sample 7

source_name: Tonsil

value: Tonsil 7


title: Cell 95 from tonsillectomy sample 7


title: Cell 96 from tonsillectomy sample 7


title: Cell 93 from tonsillectomy sample 7


title: Cell 91 from tonsillectomy sample 7


title: Cell 92 from tonsillectomy sample 7


title: Cell 90 from tonsillectomy sample 7


title: Cell 109 from renal allograft sample 6


title: Cell 88 from tonsillectomy sample 7


title: Cell 86 from tonsillectomy sample 7


title: Cell 87 from tonsillectomy sample 7


title: Cell 85 from tonsillectomy sample 7


title: Cell 89 from tonsillectomy sample 7


title: Cell 84 from tonsillectomy sample 7


title: Cell 83 from tonsillectomy sample 7


title: Cell 78 from tonsillectomy sample 7


title: Cell 81 from tonsillectomy sample 7


title: Cell 77 from tonsillectomy sample 7


title: Cell 76 from tonsillectomy sample 7


title: Cell 82 from tonsillectomy sample 7


title: Cell 72 from tonsillectomy sample 7


title: Cell 73 from tonsillectomy sample 7


title: Cell 71 from tonsillectomy sample 7


title: Cell 69 from tonsillectomy sample 7


title: Cell 74 from tonsillectomy sample 7


title: Cell 70 from tonsillectomy sample 7


title: Cell 67 from tonsillectomy sample 7


title: Cell 68 from tonsillectomy sample 7


title: Cell 66 from tonsillectomy sample 7


title: Cell 65 from tonsillectomy sample 7


title: Cell 62 from tonsillectomy sample 7


title: Cell 63 from tonsillectomy sample 7


title: Cell 64 from tonsillectomy sample 7


title: Cell 60 from tonsillectomy sample 7


title: Cell 59 from tonsillectomy sample 7


title: Cell 80 from tonsillectomy sample 7


title: Cell 57 from tonsillectomy sample 7


title: Cell 55 from tonsillectomy sample 7


title: Cell 79 from tonsillectomy sample 7


title: Cell 56 from tonsillectomy sample 7


title: Cell 58 from tonsillectomy sample 7


title: Cell 53 from tonsillectomy sample 7


title: Cell 75 from tonsillectomy sample 7


title: Cell 54 from tonsillectomy sample 7


title: Cell 52 from tonsillectomy sample 7


title: Cell 50 from tonsillectomy sample 7


title: Cell 49 from tonsillectomy sample 7


title: Cell 48 from tonsillectomy sample 7


title: Cell 51 from tonsillectomy sample 7


title: Cell 43 from tonsillectomy sample 7


title: Cell 44 from tonsillectomy sample 7


title: Cell 41 from tonsillectomy sample 7


title: Cell 61 from tonsillectomy sample 7


title: Cell 42 from tonsillectomy sample 7


title: Cell 45 from tonsillectomy sample 7


title: Cell 47 from tonsillectomy sample 7


title: Cell 40 from tonsillectomy sample 7


title: Cell 39 from tonsillectomy sample 7


title: Cell 38 from tonsillectomy sample 7


title: Cell 35 from tonsillectomy sample 7


title: Cell 34 from tonsillectomy sample 7


title: Cell 36 from tonsillectomy sample 7


title: Cell 37 from tonsillectomy sample 7


title: Cell 31 from tonsillectomy sample 7


title: Cell 32 from tonsillectomy sample 7


title: Cell 27 from tonsillectomy sample 7


title: Cell 28 from tonsillectomy sample 7


title: Cell 29 from tonsillectomy sample 7


title: Cell 30 from tonsillectomy sample 7


title: Cell 33 from tonsillectomy sample 7


title: Cell 23 from tonsillectomy sample 7


title: Cell 24 from tonsillectomy sample 7


title: Cell 26 from tonsillectomy sample 7


title: Cell 21 from tonsillectomy sample 7


title: Cell 25 from tonsillectomy sample 7


title: Cell 20 from tonsillectomy sample 7


title: Cell 46 from tonsillectomy sample 7


title: Cell 19 from tonsillectomy sample 7


title: Cell 17 from tonsillectomy sample 7


title: Cell 15 from tonsillectomy sample 7


title: Cell 18 from tonsillectomy sample 7


title: Cell 14 from tonsillectomy sample 7


title: Cell 16 from tonsillectomy sample 7


title: Cell 13 from tonsillectomy sample 7


title: Cell 96 from renal allograft sample 6


title: Cell 94 from renal allograft sample 6


title: Cell 90 from renal allograft sample 6


title: Cell 91 from renal allograft sample 6


title: Cell 95 from renal allograft sample 6


title: Cell 89 from renal allograft sample 6


title: Cell 92 from renal allograft sample 6


title: Cell 22 from tonsillectomy sample 7


title: Cell 88 from renal allograft sample 6


title: Cell 85 from renal allograft sample 6


title: Cell 87 from renal allograft sample 6


title: Cell 84 from renal allograft sample 6


title: Cell 83 from renal allograft sample 6


title: Cell 86 from renal allograft sample 6


title: Cell 81 from renal allograft sample 6


title: Cell 82 from renal allograft sample 6


title: Cell 80 from renal allograft sample 6


title: Cell 79 from renal allograft sample 6


title: Cell 77 from renal allograft sample 6


title: Cell 78 from renal allograft sample 6


title: Cell 75 from renal allograft sample 6


title: Cell 76 from renal allograft sample 6


title: Cell 73 from renal allograft sample 6


title: Cell 72 from renal allograft sample 6


title: Cell 71 from renal allograft sample 6


title: Cell 70 from renal allograft sample 6


title: Cell 93 from renal allograft sample 6


title: Cell 67 from renal allograft sample 6


title: Cell 69 from renal allograft sample 6


title: Cell 68 from renal allograft sample 6


title: Cell 63 from renal allograft sample 6


title: Cell 64 from renal allograft sample 6


title: Cell 65 from renal allograft sample 6


title: Cell 66 from renal allograft sample 6


title: Cell 61 from renal allograft sample 6


title: Cell 58 from renal allograft sample 6


title: Cell 60 from renal allograft sample 6


title: Cell 56 from renal allograft sample 6


title: Cell 55 from renal allograft sample 6


title: Cell 53 from renal allograft sample 6


title: Cell 52 from renal allograft sample 6


title: Cell 51 from renal allograft sample 6


title: Cell 57 from renal allograft sample 6


title: Cell 50 from renal allograft sample 6


title: Cell 49 from renal allograft sample 6


title: Cell 74 from renal allograft sample 6


title: Cell 47 from renal allograft sample 6


title: Cell 48 from renal allograft sample 6


title: Cell 44 from renal allograft sample 6


title: Cell 42 from renal allograft sample 6


title: Cell 41 from renal allograft sample 6


title: Cell 43 from renal allograft sample 6


title: Cell 38 from renal allograft sample 6


title: Cell 45 from renal allograft sample 6


title: Cell 40 from renal allograft sample 6


title: Cell 62 from renal allograft sample 6


title: Cell 39 from renal allograft sample 6


title: Cell 36 from renal allograft sample 6


title: Cell 35 from renal allograft sample 6


title: Cell 59 from renal allograft sample 6


title: Cell 37 from renal allograft sample 6


title: Cell 34 from renal allograft sample 6


title: Cell 54 from renal allograft sample 6


title: Cell 33 from renal allograft sample 6


title: Cell 32 from renal allograft sample 6


title: Cell 29 from renal allograft sample 6


title: Cell 31 from renal allograft sample 6


title: Cell 27 from renal allograft sample 6


title: Cell 30 from renal allograft sample 6


title: Cell 28 from renal allograft sample 6


title: Cell 46 from renal allograft sample 6


title: Cell 26 from renal allograft sample 6


title: Cell 24 from renal allograft sample 6


title: Cell 23 from renal allograft sample 6


title: Cell 25 from renal allograft sample 6


title: Cell 20 from renal allograft sample 6


title: Cell 21 from renal allograft sample 6


title: Cell 22 from renal allograft sample 6


title: Cell 19 from renal allograft sample 6


title: Cell 17 from renal allograft sample 6


title: Cell 16 from renal allograft sample 6


title: Cell 14 from renal allograft sample 6


title: Cell 15 from renal allograft sample 6


title: Cell 12 from renal allograft sample 6


title: Cell 13 from renal allograft sample 6


title: Cell 11 from renal allograft sample 6


title: Cell 10 from renal allograft sample 6


title: Cell 9 from renal allograft sample 6


title: Cell 7 from renal allograft sample 6


title: Cell 6 from renal allograft sample 6


title: Cell 8 from renal allograft sample 6


title: Cell 5 from renal allograft sample 6


title: Cell 4 from renal allograft sample 6


title: Cell 12 from tonsillectomy sample 7


title: Cell 1 from renal allograft sample 6


title: Cell 11 from tonsillectomy sample 7


title: Cell 10 from tonsillectomy sample 7


title: Cell 9 from tonsillectomy sample 7


title: Cell 8 from tonsillectomy sample 7


title: Cell 7 from tonsillectomy sample 7


title: Cell 6 from tonsillectomy sample 7


title: Cell 5 from tonsillectomy sample 7


title: Cell 2 from tonsillectomy sample 7


title: Cell 3 from tonsillectomy sample 7


title: Cell 18 from renal allograft sample 6


title: Cell 1 from tonsillectomy sample 7


title: Cell 95 from renal allograft sample 8

value: Kidney 8


title: Cell 96 from renal allograft sample 8


title: Cell 90 from renal allograft sample 8


title: Cell 94 from renal allograft sample 8


title: Cell 92 from renal allograft sample 8


title: Cell 93 from renal allograft sample 8


title: Cell 3 from renal allograft sample 6


title: Cell 87 from renal allograft sample 8


title: Cell 84 from renal allograft sample 8


title: Cell 89 from renal allograft sample 8


title: Cell 2 from renal allograft sample 6


title: Cell 86 from renal allograft sample 8


title: Cell 85 from renal allograft sample 8


title: Cell 83 from renal allograft sample 8


title: Cell 4 from tonsillectomy sample 7


title: Cell 81 from renal allograft sample 8


title: Cell 82 from renal allograft sample 8


title: Cell 79 from renal allograft sample 8


title: Cell 80 from renal allograft sample 8


title: Cell 78 from renal allograft sample 8


title: Cell 75 from renal allograft sample 8


title: Cell 77 from renal allograft sample 8


title: Cell 73 from renal allograft sample 8


title: Cell 76 from renal allograft sample 8


title: Cell 74 from renal allograft sample 8


title: Cell 71 from renal allograft sample 8


title: Cell 72 from renal allograft sample 8


title: Cell 91 from renal allograft sample 8


title: Cell 70 from renal allograft sample 8


title: Cell 88 from renal allograft sample 8


title: Cell 68 from renal allograft sample 8


title: Cell 65 from renal allograft sample 8


title: Cell 64 from renal allograft sample 8


title: Cell 66 from renal allograft sample 8


title: Cell 63 from renal allograft sample 8


title: Cell 62 from renal allograft sample 8


title: Cell 59 from renal allograft sample 8


title: Cell 60 from renal allograft sample 8


title: Cell 61 from renal allograft sample 8


title: Cell 55 from renal allograft sample 8


title: Cell 54 from renal allograft sample 8


title: Cell 57 from renal allograft sample 8


title: Cell 53 from renal allograft sample 8


title: Cell 52 from renal allograft sample 8


title: Cell 48 from renal allograft sample 8


title: Cell 51 from renal allograft sample 8


title: Cell 50 from renal allograft sample 8


title: Cell 47 from renal allograft sample 8


title: Cell 49 from renal allograft sample 8


title: Cell 45 from renal allograft sample 8


title: Cell 44 from renal allograft sample 8


title: Cell 69 from renal allograft sample 8


title: Cell 43 from renal allograft sample 8


title: Cell 67 from renal allograft sample 8


title: Cell 41 from renal allograft sample 8


title: Cell 42 from renal allograft sample 8


title: Cell 40 from renal allograft sample 8


title: Cell 58 from renal allograft sample 8


title: Cell 56 from renal allograft sample 8


title: Cell 33 from renal allograft sample 8


title: Cell 31 from renal allograft sample 8


title: Cell 35 from renal allograft sample 8


title: Cell 39 from renal allograft sample 8


title: Cell 32 from renal allograft sample 8


title: Cell 38 from renal allograft sample 8


title: Cell 29 from renal allograft sample 8


title: Cell 28 from renal allograft sample 8


title: Cell 46 from renal allograft sample 8


title: Cell 30 from renal allograft sample 8


title: Cell 23 from renal allograft sample 8


title: Cell 25 from renal allograft sample 8


title: Cell 24 from renal allograft sample 8


title: Cell 22 from renal allograft sample 8


title: Cell 18 from renal allograft sample 8


title: Cell 19 from renal allograft sample 8


title: Cell 20 from renal allograft sample 8


title: Cell 21 from renal allograft sample 8


title: Cell 16 from renal allograft sample 8


title: Cell 36 from renal allograft sample 8


title: Cell 37 from renal allograft sample 8


title: Cell 17 from renal allograft sample 8


title: Cell 15 from renal allograft sample 8


title: Cell 14 from renal allograft sample 8


title: Cell 13 from renal allograft sample 8


title: Cell 34 from renal allograft sample 8


title: Cell 12 from renal allograft sample 8


title: Cell 11 from renal allograft sample 8


title: Cell 27 from renal allograft sample 8


title: Cell 26 from renal allograft sample 8


title: Cell 9 from renal allograft sample 8


title: Cell 4 from renal allograft sample 8


title: Cell 6 from renal allograft sample 8


title: Cell 5 from renal allograft sample 8


title: Cell 7 from renal allograft sample 8


title: Cell 3 from renal allograft sample 8


title: Cell 2 from renal allograft sample 8


title: Cell 10 from renal allograft sample 8


title: Cell 94 from tonsillectomy sample 6

value: Tonsil 6


title: Cell 96 from tonsillectomy sample 6


title: Cell 8 from renal allograft sample 8


title: Cell 93 from tonsillectomy sample 6


title: Cell 92 from tonsillectomy sample 6


title: Cell 1 from renal allograft sample 8


title: Cell 91 from tonsillectomy sample 6


title: Cell 89 from tonsillectomy sample 6


title: Cell 88 from tonsillectomy sample 6


title: Cell 90 from tonsillectomy sample 6


title: Cell 86 from tonsillectomy sample 6


title: Cell 85 from tonsillectomy sample 6


title: Cell 84 from tonsillectomy sample 6


title: Cell 87 from tonsillectomy sample 6


title: Cell 81 from tonsillectomy sample 6


title: Cell 82 from tonsillectomy sample 6


title: Cell 83 from tonsillectomy sample 6


title: Cell 80 from tonsillectomy sample 6


title: Cell 79 from tonsillectomy sample 6


title: Cell 78 from tonsillectomy sample 6


title: Cell 95 from tonsillectomy sample 6


title: Cell 76 from tonsillectomy sample 6


title: Cell 75 from tonsillectomy sample 6


title: Cell 71 from tonsillectomy sample 6


title: Cell 73 from tonsillectomy sample 6


title: Cell 70 from tonsillectomy sample 6


title: Cell 72 from tonsillectomy sample 6


title: Cell 77 from tonsillectomy sample 6


title: Cell 65 from tonsillectomy sample 6


title: Cell 67 from tonsillectomy sample 6


title: Cell 68 from tonsillectomy sample 6


title: Cell 69 from tonsillectomy sample 6


title: Cell 64 from tonsillectomy sample 6


title: Cell 66 from tonsillectomy sample 6


title: Cell 63 from tonsillectomy sample 6


title: Cell 62 from tonsillectomy sample 6


title: Cell 60 from tonsillectomy sample 6


title: Cell 59 from tonsillectomy sample 6


title: Cell 61 from tonsillectomy sample 6


title: Cell 58 from tonsillectomy sample 6


title: Cell 56 from tonsillectomy sample 6


title: Cell 53 from tonsillectomy sample 6


title: Cell 54 from tonsillectomy sample 6


title: Cell 57 from tonsillectomy sample 6


title: Cell 55 from tonsillectomy sample 6


title: Cell 52 from tonsillectomy sample 6


title: Cell 51 from tonsillectomy sample 6


title: Cell 74 from tonsillectomy sample 6


title: Cell 49 from tonsillectomy sample 6


title: Cell 50 from tonsillectomy sample 6


title: Cell 47 from tonsillectomy sample 6


title: Cell 46 from tonsillectomy sample 6


title: Cell 48 from tonsillectomy sample 6


title: Cell 44 from tonsillectomy sample 6


title: Cell 43 from tonsillectomy sample 6


title: Cell 45 from tonsillectomy sample 6


title: Cell 42 from tonsillectomy sample 6


title: Cell 41 from tonsillectomy sample 6


title: Cell 37 from tonsillectomy sample 6


title: Cell 39 from tonsillectomy sample 6


title: Cell 40 from tonsillectomy sample 6


title: Cell 35 from tonsillectomy sample 6


title: Cell 34 from tonsillectomy sample 6


title: Cell 36 from tonsillectomy sample 6


title: Cell 33 from tonsillectomy sample 6


title: Cell 32 from tonsillectomy sample 6


title: Cell 29 from tonsillectomy sample 6


title: Cell 27 from tonsillectomy sample 6


title: Cell 26 from tonsillectomy sample 6


title: Cell 25 from tonsillectomy sample 6


title: Cell 24 from tonsillectomy sample 6


title: Cell 23 from tonsillectomy sample 6


title: Cell 21 from tonsillectomy sample 6


title: Cell 38 from tonsillectomy sample 6


title: Cell 22 from tonsillectomy sample 6


title: Cell 17 from tonsillectomy sample 6


title: Cell 15 from tonsillectomy sample 6


title: Cell 18 from tonsillectomy sample 6


title: Cell 16 from tonsillectomy sample 6


title: Cell 19 from tonsillectomy sample 6


title: Cell 14 from tonsillectomy sample 6


title: Cell 12 from tonsillectomy sample 6


title: Cell 13 from tonsillectomy sample 6


title: Cell 11 from tonsillectomy sample 6


title: Cell 10 from tonsillectomy sample 6


title: Cell 31 from tonsillectomy sample 6


title: Cell 7 from tonsillectomy sample 6


title: Cell 9 from tonsillectomy sample 6


title: Cell 20 from tonsillectomy sample 6


title: Cell 8 from tonsillectomy sample 6


title: Cell 6 from tonsillectomy sample 6


title: Cell 30 from tonsillectomy sample 6


title: Cell 28 from tonsillectomy sample 6


title: Cell 4 from tonsillectomy sample 6


title: Cell 3 from tonsillectomy sample 6


title: Cell 2 from tonsillectomy sample 6


title: Cell 5 from tonsillectomy sample 6


title: Cell 192 from renal allograft sample 5

value: Kidney 5

value: Batch 4


title: Cell 1 from tonsillectomy sample 6


title: Cell 189 from renal allograft sample 5


title: Cell 190 from renal allograft sample 5


title: Cell 188 from renal allograft sample 5


title: Cell 187 from renal allograft sample 5


title: Cell 186 from renal allograft sample 5


title: Cell 184 from renal allograft sample 5


title: Cell 182 from renal allograft sample 5


title: Cell 183 from renal allograft sample 5


title: Cell 179 from renal allograft sample 5


title: Cell 181 from renal allograft sample 5


title: Cell 180 from renal allograft sample 5


title: Cell 178 from renal allograft sample 5


title: Cell 174 from renal allograft sample 5


title: Cell 177 from renal allograft sample 5


title: Cell 170 from renal allograft sample 5


title: Cell 173 from renal allograft sample 5


title: Cell 168 from renal allograft sample 5


title: Cell 167 from renal allograft sample 5


title: Cell 169 from renal allograft sample 5


title: Cell 171 from renal allograft sample 5


title: Cell 176 from renal allograft sample 5


title: Cell 175 from renal allograft sample 5


title: Cell 172 from renal allograft sample 5


title: Cell 166 from renal allograft sample 5


title: Cell 191 from renal allograft sample 5


title: Cell 164 from renal allograft sample 5


title: Cell 162 from renal allograft sample 5


title: Cell 163 from renal allograft sample 5


title: Cell 165 from renal allograft sample 5


title: Cell 161 from renal allograft sample 5


title: Cell 159 from renal allograft sample 5


title: Cell 160 from renal allograft sample 5


title: Cell 158 from renal allograft sample 5


title: Cell 157 from renal allograft sample 5


title: Cell 185 from renal allograft sample 5


title: Cell 154 from renal allograft sample 5


title: Cell 152 from renal allograft sample 5


title: Cell 155 from renal allograft sample 5


title: Cell 150 from renal allograft sample 5


title: Cell 151 from renal allograft sample 5


title: Cell 156 from renal allograft sample 5


title: Cell 149 from renal allograft sample 5


title: Cell 145 from renal allograft sample 5


title: Cell 147 from renal allograft sample 5


title: Cell 140 from renal allograft sample 5


title: Cell 141 from renal allograft sample 5


title: Cell 144 from renal allograft sample 5


title: Cell 143 from renal allograft sample 5


title: Cell 148 from renal allograft sample 5


title: Cell 146 from renal allograft sample 5


title: Cell 134 from renal allograft sample 5


title: Cell 138 from renal allograft sample 5


title: Cell 133 from renal allograft sample 5


title: Cell 139 from renal allograft sample 5


title: Cell 135 from renal allograft sample 5


title: Cell 132 from renal allograft sample 5


title: Cell 137 from renal allograft sample 5


title: Cell 136 from renal allograft sample 5


title: Cell 153 from renal allograft sample 5


title: Cell 130 from renal allograft sample 5


title: Cell 128 from renal allograft sample 5


title: Cell 127 from renal allograft sample 5


title: Cell 131 from renal allograft sample 5


title: Cell 129 from renal allograft sample 5


title: Cell 125 from renal allograft sample 5


title: Cell 142 from renal allograft sample 5


title: Cell 124 from renal allograft sample 5


title: Cell 122 from renal allograft sample 5


title: Cell 120 from renal allograft sample 5


title: Cell 119 from renal allograft sample 5


title: Cell 116 from renal allograft sample 5


title: Cell 117 from renal allograft sample 5


title: Cell 115 from renal allograft sample 5


title: Cell 114 from renal allograft sample 5


title: Cell 113 from renal allograft sample 5


title: Cell 118 from renal allograft sample 5


title: Cell 110 from renal allograft sample 5


title: Cell 109 from renal allograft sample 5


title: Cell 126 from renal allograft sample 5


title: Cell 106 from renal allograft sample 5


title: Cell 108 from renal allograft sample 5


title: Cell 104 from renal allograft sample 5


title: Cell 111 from renal allograft sample 5


title: Cell 105 from renal allograft sample 5


title: Cell 101 from renal allograft sample 5


title: Cell 107 from renal allograft sample 5


title: Cell 102 from renal allograft sample 5


title: Cell 99 from renal allograft sample 5


title: Cell 100 from renal allograft sample 5


title: Cell 103 from renal allograft sample 5


title: Cell 98 from renal allograft sample 5


title: Cell 123 from renal allograft sample 5


title: Cell 97 from renal allograft sample 5


title: Cell 96 from renal allograft sample 5


title: Cell 95 from renal allograft sample 5


title: Cell 121 from renal allograft sample 5


title: Cell 94 from renal allograft sample 5


title: Cell 112 from renal allograft sample 5


title: Cell 93 from renal allograft sample 5


title: Cell 91 from renal allograft sample 5


title: Cell 90 from renal allograft sample 5


title: Cell 92 from renal allograft sample 5


title: Cell 87 from renal allograft sample 5


title: Cell 88 from renal allograft sample 5


title: Cell 86 from renal allograft sample 5


title: Cell 85 from renal allograft sample 5


title: Cell 81 from renal allograft sample 5


title: Cell 83 from renal allograft sample 5


title: Cell 84 from renal allograft sample 5


title: Cell 82 from renal allograft sample 5


title: Cell 80 from renal allograft sample 5


title: Cell 78 from renal allograft sample 5


title: Cell 74 from renal allograft sample 5


title: Cell 79 from renal allograft sample 5


title: Cell 77 from renal allograft sample 5


title: Cell 72 from renal allograft sample 5


title: Cell 76 from renal allograft sample 5


title: Cell 75 from renal allograft sample 5


title: Cell 73 from renal allograft sample 5


title: Cell 68 from renal allograft sample 5


title: Cell 67 from renal allograft sample 5


title: Cell 69 from renal allograft sample 5


title: Cell 70 from renal allograft sample 5


title: Cell 66 from renal allograft sample 5


title: Cell 71 from renal allograft sample 5


title: Cell 89 from renal allograft sample 5


title: Cell 65 from renal allograft sample 5


title: WAGO-1::FLAG P3G, WAGO-3 P2G A3E. Replicate C. IP

city: Basel

first: Foivos

last: Gypas

address: Maulbeerstrasse 66

country: Switzerland

institute: FMI

description:
The worm extract is made from staged L4 animals grown at 15C. Total protein extract was used  prior to IP to purify the total RNA  by phenol-chloroform extraction.
HW3135_Replicate_C_IP

data_processing:
With the aid of custom scripts that rely on HTSeq (version 0.11.2), pandas (version 1.0.1) and BioPython (version 1.7) we keep the reads that contain at least 12 bases after the 3’adapter (AACTGTAGGCACCATCAAT)
The 3’ adapters were removed with cutadapt (version 2.3) (--error-rate 0.1, --minimum-length 15, --overlap 3)
Low quality reads were filtered with fastq_quality_filter from FASTX-Toolkit (http://hannonlab.cshl.edu/fastx_toolkit/) (version 0.0.14) (-q 20, -p 100, -Q 33)
Reads were mapped to the genome with bowtie (version 1.2.3) (-v 0, --all, --best, --strata) and converted to bam files with samtools (version 1.9).
A custom script was used to filter reads that fall in transcripts annotated (transcript_biotype) as rRNA, rRNA_pseudogene, tRNA, tRNA_pseudogene. Reads from MtDNA were also filtered.
Filtered reads were converted back to fastq files with a custom script and reads were mapped again to the genome with bowtie (-v 0, --all, -M 1, --best, --strata)
htseq-count from HTSeq was used to count reads that fall in the opposite strand of reads/repeats (--stranded reverse, --type exon, --idattr gene_id, --mode union, -a 0, --nonunique none, --secondary-alignments ignore, --supplementary-alignments ignore)
Genome_build: ce11
Supplementary_files_format_and_content: tsv file with counts

organism: Caenorhabditis elegans

source_name: whole worms

growth_protocol: The animals were grown on peptone rich plates with NA22 bacteria as a food source at 15C

extract_protocol:
After the animals were collecetd, the worms were transferred to 2 ml tubes (Sarstedt, Ref: 72.693.005) with Zirconia/Silica beads (Biospec, Cat. No. 110791052) in in lysis buffer (50mM Tris-HCl ,pH 7.5, 150 mM NaCl, 1% TRITON X-100, 1 mM EDTA) supplemented with 1mM PMSF and 1 tablet of cOmplete Protease inhibitor (Roche, cat. No. 11 873 580 001) per 50 ml. The worms were lysed using MP Biomedicals Fast Prep-24 5G bead beater for 16 cycles at 8m/Sec. The lysate was centrifuged at 16100g for 10 minutes at 4°C and the supernatant was transferred to a fresh tube and the concentration was measured using standard bradford assay.
Briefly, for the Input samples, Small RNA fraction was enriched using a microRNA purification kit (Norgen biotek) with 500ng total RNA as input and for IP samples, this step was excluded. The small RNA fraction was treated with 20U of RNA 5’ Polyphosphatase (TAP, Lucigen), in a 50µl reaction at 37°C for 1h. TAP-treated RNA was purified using the Norgen Biotek Single Cell RNA Purification kit and eluted in 10µl. 5µl was used as input for small RNA library preparation using the QIAseq miRNA library kit (Qiagen) according to the manufacturer recommendations. Libraries were sequenced on the Illumina HiSeq 2500 (50cycles single-end run).

tag: age

value: L4 staged animals

tag: rip antibody

value: anti-FLAG (Sigma, M8823)

tag: genotype

value: WAGO-1::FLAG P3G, WAGO-3 P2G A3E


title: Cell 63 from renal allograft sample 5

value: First


title: Cell 62 from renal allograft sample 5


title: WAGO-1::FLAG P3G, WAGO-3 P2G A3E. Replicate A. IP

description:
The worm extract is made from staged L4 animals grown at 15C. Total protein extract was used  prior to IP to purify the total RNA  by phenol-chloroform extraction.
HW3135_Replicate_A_IP


title: 1xFLAG::CSR-1. Replicate C. IP

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3115_Replicate_C_IP


title: Cell 61 from renal allograft sample 5


title: Cell 60 from renal allograft sample 5


title: 1xFLAG::CSR-1. Replicate A. IP

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3115_Replicate_A_IP


title: Cell 58 from renal allograft sample 5


title: Cell 57 from renal allograft sample 5


title: WAGO-1::FLAG P3G, WAGO-3 P2G A3E. Replicate A. Input

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3135_Replicate_A_INPUT

value: none (input)


title: Cell 54 from renal allograft sample 5


title: Cell 55 from renal allograft sample 5


title: WAGO-1::FLAG P3G, WAGO-3 P2G A3E. Replicate B. Input

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3135_Replicate_B_INPUT


title: Cell 53 from renal allograft sample 5


title: Cell 56 from renal allograft sample 5


title: WAGO-1::FLAG P3G, WAGO-3 P2G A3E. Replicate C. Input

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3135_Replicate_C_INPUT


title: 1xFLAG::CSR-1. Replicate C. Input

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3115_Replicate_C_INPUT


title: 1xFLAG::CSR-1. Replicate A. Input

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3115_Replicate_A_INPUT


title: Cell 52 from renal allograft sample 5


title: 1xFLAG::WAGO-3 C Input

extract_protocol:
The worm extract is made from staged L4 animals grown at 15C. Total protein extract was used  prior to IP to purify the total RNA  by phenol-chloroform extraction.
After the animals were collecetd, the worms were transferred to 2 ml tubes (Sarstedt, Ref: 72.693.005) with Zirconia/Silica beads (Biospec, Cat. No. 110791052) in in lysis buffer (50mM Tris-HCl ,pH 7.5, 150 mM NaCl, 1% TRITON X-100, 1 mM EDTA) supplemented with 1mM PMSF and 1 tablet of cOmplete Protease inhibitor (Roche, cat. No. 11 873 580 001) per 50 ml. The worms were lysed using MP Biomedicals Fast Prep-24 5G bead beater for 16 cycles at 8m/Sec. The lysate was centrifuged at 16100g for 10 minutes at 4°C and the supernatant was transferred to a fresh tube and the concentration was measured using standard bradford assay.
Briefly, for the Input samples, Small RNA fraction was enriched using a microRNA purification kit (Norgen biotek) with 500ng total RNA as input and for IP samples, this step was excluded. The small RNA fraction was treated with 20U of RNA 5’ Polyphosphatase (TAP, Lucigen), in a 50µl reaction at 37°C for 1h. TAP-treated RNA was purified using the Norgen Biotek Single Cell RNA Purification kit and eluted in 10µl. 5µl was used as input for small RNA library preparation using the QIAseq miRNA library kit (Qiagen) according to the manufacturer recommendations. Libraries were sequenced on the Illumina HiSeq 2500 (50cycles single-end run).

tag: developmental stage

tag: experiment

value: input


title: Cell 64 from renal allograft sample 5


title: Cell 51 from renal allograft sample 5


title: 1xFLAG::WAGO-3 B Input


title: 1xFLAG::WAGO-1 dpf-3{delta} C Input

value: 1xFLAG::WAGO-1 dpf-3{delta}


title: WAGO-1::FLAG P3G, WAGO-3 P2G A3E. Replicate B. IP

description:
The worm extract is made from staged L4 animals grown at 15C. Total protein extract was used  prior to IP to purify the total RNA  by phenol-chloroform extraction.
HW3135_Replicate_B_IP


title: 1xFLAG::WAGO-3 A Input


title: 1xFLAG::CSR-1. Replicate B. IP

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3115_Replicate_B_IP


title: Cell 50 from renal allograft sample 5


title: 1xFLAG::WAGO-1 dpf-3{delta} B Input


title: 1xFLAG::WAGO-1 dpf-3{delta} A Input


title: Cell 48 from renal allograft sample 5


title: Cell 59 from renal allograft sample 5


title: Cell 49 from renal allograft sample 5


title: Cell 47 from renal allograft sample 5


title: Cell 46 from renal allograft sample 5


title: Cell 45 from renal allograft sample 5


title: 1xFLAG::WAGO-1 B Input


title: 1xFLAG::WAGO-3 C IP

extract_protocol:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
After the animals were collecetd, the worms were transferred to 2 ml tubes (Sarstedt, Ref: 72.693.005) with Zirconia/Silica beads (Biospec, Cat. No. 110791052) in in lysis buffer (50mM Tris-HCl ,pH 7.5, 150 mM NaCl, 1% TRITON X-100, 1 mM EDTA) supplemented with 1mM PMSF and 1 tablet of cOmplete Protease inhibitor (Roche, cat. No. 11 873 580 001) per 50 ml. The worms were lysed using MP Biomedicals Fast Prep-24 5G bead beater for 16 cycles at 8m/Sec. The lysate was centrifuged at 16100g for 10 minutes at 4°C and the supernatant was transferred to a fresh tube and the concentration was measured using standard bradford assay.
Briefly, for the Input samples, Small RNA fraction was enriched using a microRNA purification kit (Norgen biotek) with 500ng total RNA as input and for IP samples, this step was excluded. The small RNA fraction was treated with 20U of RNA 5’ Polyphosphatase (TAP, Lucigen), in a 50µl reaction at 37°C for 1h. TAP-treated RNA was purified using the Norgen Biotek Single Cell RNA Purification kit and eluted in 10µl. 5µl was used as input for small RNA library preparation using the QIAseq miRNA library kit (Qiagen) according to the manufacturer recommendations. Libraries were sequenced on the Illumina HiSeq 2500 (50cycles single-end run).

value: IP


title: 1xFLAG::WAGO-1 A Input


title: Cell 44 from renal allograft sample 5


title: Cell 42 from renal allograft sample 5


title: 1xFLAG::WAGO-3 A IP


title: Cell 41 from renal allograft sample 5


title: 1xFLAG::WAGO-1 dpf-3{delta} B IP


title: Cell 39 from renal allograft sample 5


title: Cell 40 from renal allograft sample 5


title: Cell 38 from renal allograft sample 5


title: 1xFLAG::WAGO-1 C IP


title: 1xFLAG::WAGO-1 dpf-3{delta} A IP


title: 1xFLAG::WAGO-1 B IP


title: Cell 37 from renal allograft sample 5


title: 1xFLAG::WAGO-1 A IP


title: mut_7_C

description: small RNAs were purified from total RNA were used for sequencing.

data_processing:
With the aid of custom scripts that rely on HTSeq (version 0.11.2), pandas (version 1.0.1) and BioPython (version 1.7) we keep the reads that contain at least 8 bases after the 3’adapter (AACTGTAGGCACCATCAAT)
The 3’ adapters were removed with cutadapt (version 2.3) (--error-rate 0.1, --minimum-length 15, --overlap 3)
Low quality reads were filtered with fastq_quality_filter from FASTX-Toolkit (http://hannonlab.cshl.edu/fastx_toolkit/) (version 0.0.14) (-q 20, -p 100, -Q 33)
Reads were mapped to the genome with bowtie (version 1.2.3) (-v 0, --all, --best, --strata) and converted to bam files with samtools (version 1.9).
A custom script was used to filter reads that fall in transcripts annotated (transcript_biotype) as rRNA, rRNA_pseudogene, tRNA, tRNA_pseudogene. Reads from MtDNA were also filtered.
Filtered reads were converted back to fastq files with a custom script and reads were mapped again to the genome with bowtie (-v 0, --all, -M 1, --best, --strata)
htseq-count from HTSeq was used to count reads that fall in the opposite strand of reads/repeats (--stranded reverse, --type exon, --idattr gene_id, --mode union, -a 0, --nonunique none, --secondary-alignments ignore, --supplementary-alignments ignore)
Genome_build: ce11
Supplementary_files_format_and_content: tsv file with counts

extract_protocol:
After the animals were collecetd, the worms were transferred to 2 ml tubes (Sarstedt, Ref: 72.693.005) with Zirconia/Silica beads (Biospec, Cat. No. 110791052) in 1 ml of tri-reagent and snap frozen on dry ice. The worms were lysed using MP Biomedicals Fast Prep-24 5G bead beater for 16 cycles at 8m/Sec. Total RNA was then extracted.
Briefly, Small RNA fraction was enriched using a microRNA purification kit (Norgen biotek) with 500ng total RNA as input. The small RNA fraction was treated with 20U of RNA 5’ Polyphosphatase (TAP, Lucigen), in a 50µl reaction at 37°C for 1h. TAP-treated RNA was purified using the Norgen Biotek Single Cell RNA Purification kit and eluted in 10µl. 5µl was used as input for small RNA library preparation using the QIAseq miRNA library kit (Qiagen) according to the manufacturer recommendations. Libraries were sequenced on the Illumina HiSeq 2500 (50cycles single-end run).


title: Cell 35 from renal allograft sample 5


title: 1xFLAG::WAGO-1 C Input


title: Cell 34 from renal allograft sample 5


title: mut_7_B


title: 1xFLAG::CSR-1. Replicate B. Input

description:
The worm extract is made from staged L4 animals grown at 15C. The protein indicated in the "title" was immunoprecipitated using anti-FLAG magnetic beads and the small RNAs bound to the protein were purified by phenol-chloroform extraction.
HW3115_Replicate_B_INPUT


title: mut_7_A


title: Cell 33 from renal allograft sample 5


title: Cell 43 from renal allograft sample 5


title: 1xFLAG::WAGO-3 B IP


title: 1xFLAG::WAGO-1 dpf-3{delta} C IP


title: Cell 31 from renal allograft sample 5


title: Cell 32 from renal allograft sample 5


title: mut_2_C


title: mut_2_B


title: Cell 29 from renal allograft sample 5


title: wild_type_H

value: wild type


title: Cell 36 from renal allograft sample 5


title: Cell 27 from renal allograft sample 5


title: Cell 28 from renal allograft sample 5


title: Dpf_3_S784A_C

value: DPF-3 S784A mutant


title: wild_type_G


title: Cell 25 from renal allograft sample 5


title: Cell 24 from renal allograft sample 5


title: Dpf_3_S784A_B


title: Cell 26 from renal allograft sample 5


title: Dpf_3_null_C

value: dpf-3 null


title: Cell 23 from renal allograft sample 5


title: Dpf_3_S784A_A


title: Dpf_3_null_B


title: Cell 21 from renal allograft sample 5


title: Cell 22 from renal allograft sample 5


title: Cell 19 from renal allograft sample 5


title: wild_type_E


title: mut_2_A


title: wild_type_D


title: Cell 20 from renal allograft sample 5


title: wild_type_F


title: Cell 18 from renal allograft sample 5


title: wild_type_C


title: Cell 17 from renal allograft sample 5


title: Cell 30 from renal allograft sample 5


title: Cell 16 from renal allograft sample 5


title: wild_type_I


title: wild_type_A


title: Cell 15 from renal allograft sample 5


title: Cell 14 from renal allograft sample 5


title: Dpf_3_null_A


title: Cell 13 from renal allograft sample 5


title: Cell 12 from renal allograft sample 5


title: Cell 11 from renal allograft sample 5


title: Cell 10 from renal allograft sample 5


title: Cell 9 from renal allograft sample 5


title: Cell 8 from renal allograft sample 5


title: wild_type_B


title: Cell 7 from renal allograft sample 5


title: Cell 6 from renal allograft sample 5


title: Cell 5 from renal allograft sample 5


title: Cell 3 from renal allograft sample 5


title: Cell 2 from renal allograft sample 5


title: Cell 1 from renal allograft sample 5


title: S39_B3

city: Lund

first: Petter

last: Storm

address: Sölvegatan 19, BMC A11

department: Developmental and Regenerative Neurobiology

country: Sweden

institute: Lund University

data_processing:
Basecalling using bcl2fastq 2.19
RSEM (1.3) was used for abundance estimation directly from FASTQ using the human genome release 37/Ensemble 75
Genome_build: hg37
Supplementary_files_format_and_content: Count matrix

source_name: Tumour biopsy

extract_protocol:
RNA was extracted from tissues stabilized in RNAlater using the AllPrep DNA/RNA/miRNA Universal Kit.
Libraries were prepared by Illumina TruSeq Stranded mRNA Library Prep Kit (20020594)

treatment_protocol: Tissue biopsies were taken by TURB according to EAU Guideline recommendations

tag: tissue

value: Urinary bladder tumor

tag: patient number

value: placebo


title: Cell 96 from tonsillectomy sample 4

value: Tonsil 4


title: S40_B1

tag: treatment


title: S40_B2


title: S38_B1


title: S38_B2


title: S39_B2


title: S39_B1


title: S37_B2


title: Cell 95 from tonsillectomy sample 4


title: Cell 94 from tonsillectomy sample 4


title: S37_B1


title: control sample_3

type: RNA

city: Zagreb

first: Kristina

last: Gotovac Jerčić

address: Šalata 2

department: Department for functional genomics

country: Croatia

institute: Center for translational and clinical research

hyb_protocol: Hybridization (16h x 45C) was processed according to the standard Affymetrix PROTOCOL

scan_protocol: Affymetrix GeneArray Scanner 3000

data_processing: The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 100.

label: biotin

source_name: Control

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol

extract_protocol: Total RNA was isolated from patients and controls using PAXgene Blood RNA kit (Qiagen) according to the manufactures` protocol.

tag: disease

value: healthy


title: control sample_4


title: CCH patient sample_3

source_name: Patient

value: clavicular cortical hyperostosis


title: Cell 93 from tonsillectomy sample 4

value: Batch 4


title: S36_B2


title: CCH patient sample_2


title: Cell 4 from renal allograft sample 5

value: Kidney 5


title: control sample_2


title: CCH patient sample_1


title: CCH patient sample_5


title: control sample_1


title: CCH patient sample_4


title: S36_B1


title: Cell 92 from tonsillectomy sample 4


title: Cell 91 from tonsillectomy sample 4


title: S35_B2


title: Cell 90 from tonsillectomy sample 4


title: S35_B1


title: S33_B1


title: Cell 235 from renal allograft sample 2

value: Kidney 2

value: Batch 2


title: S33_B2


title: S34_B1


title: S32_B2


title: Cell 234 from renal allograft sample 2

value: First


title: S32_B1


title: Cell 232 from renal allograft sample 2


title: Cell 233 from renal allograft sample 2


title: Cell 231 from renal allograft sample 2


title: S31_B4


title: S31_B3


title: Cell 229 from renal allograft sample 2


title: Cell 228 from renal allograft sample 2


title: S31_B2


title: Cell 227 from renal allograft sample 2


title: Cell 225 from renal allograft sample 2


title: Cell 223 from renal allograft sample 2


title: S29_B1


title: S31_B1


title: S30_B1


title: Cell 224 from renal allograft sample 2


title: Cell 226 from renal allograft sample 2


title: S27_B2


title: S27_B1


title: S26_B2


title: S26_B3


title: Cell 221 from renal allograft sample 2


title: Cell 230 from renal allograft sample 2


title: S25_B1


title: S26_B1


title: Cell 220 from renal allograft sample 2


title: Cell 219 from renal allograft sample 2


title: Cell 217 from renal allograft sample 2


title: Cell 216 from renal allograft sample 2


title: S24_B1


title: S23_B3


title: Cell 218 from renal allograft sample 2


title: S24_B2


title: Cell 215 from renal allograft sample 2


title: S23_B1


title: Cell 214 from renal allograft sample 2


title: S22_B2


title: Cell 213 from renal allograft sample 2


title: Cell 222 from renal allograft sample 2


title: S22_B1


title: Cell 211 from renal allograft sample 2


title: S21_B1


title: S20_B5


title: Cell 210 from renal allograft sample 2


title: Cell 209 from renal allograft sample 2


title: S20_B4


title: Cell 208 from renal allograft sample 2


title: S20_B3


title: Cell 207 from renal allograft sample 2


title: Cell 206 from renal allograft sample 2


title: S20_B1


title: S17_B1


title: S18_B1


title: S20_B2


title: S23_B2


title: Cell 204 from renal allograft sample 2


title: Cell 203 from renal allograft sample 2


title: Cell 202 from renal allograft sample 2


title: Cell 201 from renal allograft sample 2


title: Cell 200 from renal allograft sample 2


title: Cell 212 from renal allograft sample 2


title: S16_B1


title: S15_B1


title: S15_B2


title: S14_B4


title: Cell 199 from renal allograft sample 2


title: S14_B3


title: S14_B2


title: S14_B1


title: Cell 195 from renal allograft sample 2


title: S12_B3


title: Cell 196 from renal allograft sample 2


title: Cell 205 from renal allograft sample 2


title: S12_B2


title: S12_B1


title: Cell 194 from renal allograft sample 2


title: Cell 197 from renal allograft sample 2


title: Cell 193 from renal allograft sample 2


title: S15_B3


title: S11_B1


title: Cell 191 from renal allograft sample 2


title: Cell 192 from renal allograft sample 2


title: Cell 189 from renal allograft sample 2


title: S10_B2


title: S09_B1


title: S10_B1


title: Cell 190 from renal allograft sample 2


title: Cell 198 from renal allograft sample 2


title: S08_B2


title: S08_B4


title: Cell 187 from renal allograft sample 2


title: Cell 186 from renal allograft sample 2


title: Cell 185 from renal allograft sample 2


title: S08_B1


title: Cell 184 from renal allograft sample 2


title: S07_B1


title: S06_B4


title: Cell 183 from renal allograft sample 2


title: Cell 182 from renal allograft sample 2


title: Cell 181 from renal allograft sample 2


title: Cell 180 from renal allograft sample 2


title: S06_B1


title: S04_B1


title: Cell 178 from renal allograft sample 2


title: S06_B3


title: Cell 188 from renal allograft sample 2


title: S06_B2


title: S05_B2


title: Cell 179 from renal allograft sample 2


title: S03_B4


title: Cell 176 from renal allograft sample 2


title: S05_B1


title: S08_B3


title: S03_B2


title: Cell 174 from renal allograft sample 2


title: Cell 172 from renal allograft sample 2


title: S03_B1


title: S02_B1


title: S02_B2


title: Cell 173 from renal allograft sample 2


title: Cell 171 from renal allograft sample 2


title: S01_B3


title: Cell 170 from renal allograft sample 2


title: S01_B2


title: Cell 169 from renal allograft sample 2


title: Cell 168 from renal allograft sample 2


title: Cell 177 from renal allograft sample 2


title: Cell 167 from renal allograft sample 2


title: Cell 175 from renal allograft sample 2


title: S03_B3


title: S01_B1


title: Cell 166 from renal allograft sample 2


title: Cell 165 from renal allograft sample 2


title: Cell 163 from renal allograft sample 2


title: Cell 164 from renal allograft sample 2


title: 3xKO dox melanocytes_IgG_rep_2

city: New York

first: Richard

middle: Mark

last: White

state: NY

address: 1275 York Avenue MB 424

department: Cancer Biology & Genetics

institute: Memorial Sloan Kettering Cancer Center

data_processing:
Library strategy: Cut&Run
Sequencing reads were trimmed and filtered using version 0.4.5 of TrimGalore
Reads were aligned to human assembly hg38 with version 2.3.4.1 of bowtie2
Normalized read density profiles were made using BEDTools
Global peak atlas was made using version 1.6.1 of featureCounts
DESeq2 was used to normalize read density (median ratio method) and to calculate differential enrichment for all pairwise contrasts
Genome_build: hg38
Supplementary_files_format_and_content: bigwig

source_name: melanocytes

growth_protocol: hPSC-derived melanoblasts were replated at Day 11 of differentiation, after FACS sorting. At day 40, melanocytes were infected with either lenti-ATAD2 or lenti-Tomato and selected for 1 week with blastocidin.

extract_protocol:
Samples were treated as recommended in Skene et al., 2018
Libraries were prepared for sequencing using standard Illumina protocols

treatment_protocol: 72h doxycycline treatment

value: hPSC-derived melanocytes

tag: cut&run antibody

value: IgG (Abcam, ab6709)

value: doxycycline


title: 3xKO dox melanocytes_SOX10_rep_3


title: 3xKO dox melanocytes_SOX10_rep_1


title: 3xKO dox melanocytes_SOX10_rep_2


title: Cell 160 from renal allograft sample 2

tag: patient


title: 3xKO dox melanocytes_MYC_rep_3

value: MYC (Abcam, ab56)


title: Cell 159 from renal allograft sample 2

tag: plate


title: Cell 161 from renal allograft sample 2

tag: well


title: 3xKO dox melanocytes_IgG_rep_3

tag: cell type


title: 3xKO dox melanocytes_MYC_rep_2


title: 3xKO dox melanocytes_IgG_rep_1


title: Cell 156 from renal allograft sample 2

tag: batch


title: Cell 157 from renal allograft sample 2

tag: cohort


title: 3xKO dox melanocytes_MYC_rep_1


title: 3xKO dox melanocytes_ATAD2_rep_2


title: 3xKO ATAD2 dox melanocytes_SOX10_rep_3


title: Cell 158 from renal allograft sample 2


title: Cell 154 from renal allograft sample 2


title: Cell 155 from renal allograft sample 2


title: 3xKO dox melanocytes_ATAD2_rep_1


title: 3xKO ATAD2 dox melanocytes_IgG_rep_2


title: Cell 151 from renal allograft sample 2


title: Cell 162 from renal allograft sample 2


title: Cell 153 from renal allograft sample 2


title: 3xKO ATAD2 dox melanocytes_SOX10_rep_1


title: Cell 150 from renal allograft sample 2


title: Cell 152 from renal allograft sample 2


title: 3xKO ATAD2 dox melanocytes_IgG_rep_1


title: 3xKO ATAD2 dox melanocytes_MYC_rep_2


title: 3xKO ATAD2 dox melanocytes_ATAD2_rep_2


title: Cell 147 from renal allograft sample 2


title: Cell 146 from renal allograft sample 2


title: 3xKO ATAD2 dox melanocytes_ATAD2_rep_3


title: 3xKO ATAD2 dox melanocytes_ATAD2_rep_1


title: Cell 145 from renal allograft sample 2


title: 3xKO ATAD2 dox melanocytes_MYC_rep_3


title: Cell 149 from renal allograft sample 2


title: 3xKO ATAD2 dox melanocytes_MYC_rep_1


title: Cell 148 from renal allograft sample 2


title: 3xKO ATAD2 dox melanocytes_SOX10_rep_2


title: Cell 142 from renal allograft sample 2


title: Cell 143 from renal allograft sample 2


title: Cell 144 from renal allograft sample 2


title: Cell 140 from renal allograft sample 2


title: Cell 141 from renal allograft sample 2


title: Cell 139 from renal allograft sample 2


title: 3xKO_ATAD2_MC_dox_1

data_processing:
Reads were trimmed using version 0.4.5 of TrimGalore
Alignment was made to hg38 using STAR v2.4
Data quality and transcript coverage were assessed using the Picard tool CollectRNAseqMetrics
Read count table was generated with HTSeq v0.9.1
Normalization and expression dynamics were evaluated with DESeq2
Genome_build: hg38
Supplementary_files_format_and_content: Table of the nomalized counts among samples

extract_protocol:
~500'000 cells were collected in Trizol and RNA was isolated using the Qiagen kit (74104)
RNA libraries were prepared for sequencing using standard Illumina protocols

tag: line

value: melanocytes

tag: lentivirus


title: 3xKO_MC_dox_1

value: Tomato


title: KO_MB_CONTROL_rep_3

description:
ES cell derived melanoblasts with3xKO for p53/p16/RB1
hPSC processed counts table update 2.csv

data_processing:
quality control with FASTQC (Babraham Bioinformatics)
trimming with TRIMMOMATIC
reads were aligned to GRCh38 (Ensembl version 90) using STAR with --quantMode GeneCounts
quality control via SeQC
Differential expression was calculated with DESeq2
Genome_build: GRCh38, Ensembl version 90
Supplementary_files_format_and_content: CSV file with raw counts from STAR

source_name: Melanoblasts

value: Melanoblasts

value: control


title: 3xKO_MC_dox_3


title: KO_MB_CONTROL_rep_2


title: 3xKO_MC_dox_2


title: KO_MB_DOX_rep_3

description:
ES cell derived melanoblasts with3xKO for p53/p16/RB1 and dox-induced BRAFV600E activation
hPSC processed counts table update 2.csv


title: Cell 137 from renal allograft sample 2


title: Cell 138 from renal allograft sample 2


title: KO_MEL_CONTROL_rep_3

description:
ES cell derived melanocytes with3xKO for p53/p16/RB1
hPSC processed counts table update 2.csv

source_name: Melanocytes

value: Melanocytes


title: Cell 132 from renal allograft sample 2


title: 3xKO_ATAD2_MC_dox_3


title: KO_MB_CONTROL_rep_1


title: KO_MEL_CONTROL_rep_1


title: Cell 133 from renal allograft sample 2


title: KO_MB_DOX_rep_2


title: KO_MB_DOX_rep_1


title: Cell 134 from renal allograft sample 2


title: KO_MEL_CONTROL_rep_2


title: 3xKO_ATAD2_MC_dox_2


title: KO_MEL_DOX_rep_3

description:
ES cell derived melanocytes with3xKO for p53/p16/RB1 and dox-induced BRAFV600E activation
hPSC processed counts table update 2.csv


title: Cell 136 from renal allograft sample 2


title: Cell 130 from renal allograft sample 2


title: Cell 131 from renal allograft sample 2


title: KO_MEL_DOX_rep_1


title: Cell 129 from renal allograft sample 2


title: Cell 127 from renal allograft sample 2


title: Cell 126 from renal allograft sample 2


title: KO_NC_CONTROL_rep_2

description:
ES cell derived neural crest cells with3xKO for p53/p16/RB1
hPSC processed counts table update 2.csv

source_name: Neural crest

value: Neural crest


title: KO_NC_CONTROL_rep_1


title: KO_NC_DOX_rep_3

description:
ES cell derived neural crest cells with3xKO for p53/p16/RB1 and dox-induced BRAFV600E activation
hPSC processed counts table update 2.csv


title: Cell 135 from renal allograft sample 2


title: Cell 125 from renal allograft sample 2


title: Cell 124 from renal allograft sample 2


title: Cell 122 from renal allograft sample 2


title: KO_NC_DOX_rep_1


title: KO_NC_DOX_rep_2


title: WT_MB_CONTROL_rep_3

description:
ES cell derived melanoblasts
hPSC processed counts table update 2.csv


title: Cell 120 from renal allograft sample 2


title: WT_MB_CONTROL_rep_2


title: WT_MB_CONTROL_rep_1


title: Cell 119 from renal allograft sample 2


title: Cell 128 from renal allograft sample 2


title: KO_MEL_DOX_rep_2


title: Cell 117 from renal allograft sample 2


title: Cell 116 from renal allograft sample 2


title: KO_NC_CONTROL_rep_3


title: Cell 118 from renal allograft sample 2


title: WT_MEL_CONTROL_rep_3

description:
ES cell derived melanocytes
hPSC processed counts table update 2.csv


title: WT_MB_DOX_rep_1

description:
ES cell derived melanoblasts with dox-induced BRAFV600E activation
hPSC processed counts table update 2.csv


title: Cell 115 from renal allograft sample 2


title: Cell 114 from renal allograft sample 2


title: Cell 123 from renal allograft sample 2


title: Cell 113 from renal allograft sample 2


title: WT_MEL_CONTROL_rep_1


title: WT_MEL_CONTROL_rep_2


title: Cell 112 from renal allograft sample 2


title: Cell 111 from renal allograft sample 2


title: Cell 110 from renal allograft sample 2


title: Cell 121 from renal allograft sample 2


title: WT_MEL_DOX_rep_1

description:
ES cell derived melanocytes with dox-induced BRAFV600E activation
hPSC processed counts table update 2.csv


title: WT_NC_CONTROL_rep_2

description:
ES cell derived neural crest cells
hPSC processed counts table update 2.csv


title: Cell 108 from renal allograft sample 2


title: WT_MB_DOX_rep_3


title: Cell 109 from renal allograft sample 2


title: WT_NC_CONTROL_rep_1


title: WT_MB_DOX_rep_2


title: Cell 106 from renal allograft sample 2


title: WT_NC_DOX_rep_4

description:
ES cell derived neural crest cells with dox-induced BRAFV600E activation
hPSC processed counts table update 2.csv


title: WT_NC_DOX_rep_2


title: WT_NC_DOX_rep_3


title: Cell 105 from renal allograft sample 2


title: Cell 102 from renal allograft sample 2


title: WT_NC_DOX_rep_1


title: Cell 103 from renal allograft sample 2


title: Sample_MEL_WT_rep2

data_processing:
ATAC-seq reads were filtered for quality and 3' trimmed for adapter sequences.
Reads were aligned to human assembly hg38 using bowtie2 (v2.3.4) with default parameters.
To create density files, read overlap density was calculated with an extension of 0 bp, the signal was then normalized to the peak-based size factor from the raw counts table (DESeq2) and converted to BigWig using BEDTools.
Genome_build: hg38
Supplementary_files_format_and_content: BigWig files containing read densities normalized to the size factor from the raw count matrix

source_name: hPSC-derived melanocytes

growth_protocol: Human pluripotent stem cell (hPSC) lines employed for this study were derived from H9 and cultured in Essential 8 (E8, Thermo Fisher Scientific) and expanded by dissociation with 0.5mM EDTA (Thermo Fisher Scientific) and plating on Vitronectin (Thermo Fisher Scientific) coated dishes. Neural induction was completed using the dual SMAD inhibition protocol.

extract_protocol:
50,000 freshly harvested cells were lysed in 50 μl ATAC lysis buffer (Tris 10 mM pH 7.4, 10 mM NaCl, 3 mM MgCl2, 0.1% NP-40) and incubated with Illumina Tn5 transposase at 37°C for 30 min. Samples were purified using Agencourt AMPure XP beads.
Barcoding and library generation were performed using the NEBNext Q5 Hot Start HiFi PCR Master Mix with PCR amplification for 12 cycles.

value: WT


title: Sample_MEL_WT_rep1


title: Sample_MEL_WT_dox_rep2

value: BRAFV600E expression


title: Cell 100 from renal allograft sample 2


title: WT_MEL_DOX_rep_2


title: WT_MEL_DOX_rep_3


title: Cell 98 from renal allograft sample 2


title: Sample_MEL_3xKO_Ctrl_rep2

value: KO of RB1, TP53 and P16


title: Sample_MEL_WT_dox_rep1


title: Cell 96 from renal allograft sample 2


title: Sample_MEL_3xKO_Ctrl_dox_rep2

value: KO of RB1, TP53 and P16; BRAFV600E expression


title: Sample_MEL_3xKO_Ctrl_rep1


title: Cell 97 from renal allograft sample 2

value: Kidney 2


title: Cell 95 from renal allograft sample 2

value: Batch 2


title: Cell 107 from renal allograft sample 2

value: First


title: Sample_MEL_3xKO_Ctrl_dox_rep1


title: Sample_MEL_3xKO_ATAD2_rep2

value: KO of RB1, TP53 and P16; ATAD2 expression


title: Cell 94 from renal allograft sample 2


title: Sample_MEL_3xKO_ATAD2_rep1


title: Cell 93 from renal allograft sample 2


title: Cell 104 from renal allograft sample 2


title: Cell 91 from renal allograft sample 2


title: Cell 92 from renal allograft sample 2


title: Sample_MEL_3xKO_ATAD2_dox_rep2

value: KO of RB1, TP53 and P16; BRAFV600E and ATAD2 expression


title: Sample_MEL_3xKO_ATAD2_dox_rep1

value: doxycycline


title: Cell 90 from renal allograft sample 2


title: Sample_MB_WT_rep2

source_name: hPSC-derived melanoblasts

value: melanoblasts


title: Cell 101 from renal allograft sample 2


title: Sample_MB_WT_rep1


title: Cell 89 from renal allograft sample 2


title: Cell 99 from renal allograft sample 2


title: Sample_MB_WT_dox_rep2


title: Cell 88 from renal allograft sample 2


title: Sample_MB_3xKO_rep2


title: Sample_MB_WT_dox_rep1


title: Cell 87 from renal allograft sample 2


title: Cell 86 from renal allograft sample 2


title: Cell 85 from renal allograft sample 2


title: Sample_MB_3xKO_rep1


title: Sample_MB_3xKO_dox_rep2


title: Cell 84 from renal allograft sample 2


title: Cell 82 from renal allograft sample 2


title: Cell 83 from renal allograft sample 2


title: Cell 80 from renal allograft sample 2


title: Cell 77 from renal allograft sample 2


title: Cell 74 from renal allograft sample 2


title: H4 (scRRBS)

city: Cambridge

first: Ayush

middle: T

last: Raman

state: MA

address: 75 Ames St

department: Epigenomics Program

institute: Broad Institute of MIT and Harvard

description: day 0 dox+ DNMT1 KO

data_processing:
The quality of raw reads was assessed using FastQC (Andrews, 2010).
RRBS-seq libraries were aligned to the bisulfite converted GRCh38.p2 genome using Bismark5 (v.0.18.2) with bowtie2 (Langmead et al 2012)  as the aligner. The reads were trimmed using the Trim galore wrapper tool.
Bismark methylation extractor (-bedgraph --buffer_size 50%) was used to determine the methylation state of each individual CpG across both the strands. Duplicated reads were removed, followed by estimating the number of CpGs.
Genome_build: hg38
Supplementary_files_format_and_content: tab delimited file; bismark coverage output file

source_name: embryonic stem cell

extract_protocol:
SPRI clean-up of poly(A)+ mRNA-depleted cell lysate
RRBS of MspI+HaeIII double-digested DNA
single cell Bisulfite-Seq (reduced representation)

tag: cell line

tag: time point

value: day 0

value: inducible DNMT1 KO

tag: dox induction

value: No


title: H9 (scRRBS)

description: day 0 dox+ DNMT1 KO

tag: genotype


title: H5 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: H6 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 78 from renal allograft sample 2


title: H8 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 79 from renal allograft sample 2


title: H2 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: H11 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: H1 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: H3 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: H12 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 73 from renal allograft sample 2


title: H10 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 72 from renal allograft sample 2


title: H7 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 75 from renal allograft sample 2


title: Cell 71 from renal allograft sample 2


title: Cell 76 from renal allograft sample 2


title: G9 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 81 from renal allograft sample 2


title: Sample_MB_3xKO_dox_rep1


title: Cell 69 from renal allograft sample 2


title: G8 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 68 from renal allograft sample 2


title: G7 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: G6 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 67 from renal allograft sample 2


title: G5 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 65 from renal allograft sample 2


title: Cell 66 from renal allograft sample 2


title: Cell 63 from renal allograft sample 2


title: G12 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 61 from renal allograft sample 2


title: Cell 62 from renal allograft sample 2


title: G3 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 59 from renal allograft sample 2


title: G10 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 64 from renal allograft sample 2


title: F9 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: G4 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 58 from renal allograft sample 2


title: Cell 57 from renal allograft sample 2


title: G2 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: G1 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 60 from renal allograft sample 2


title: F7 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 70 from renal allograft sample 2


title: F6 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 56 from renal allograft sample 2


title: G11 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: F5 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: F8 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: F4 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 54 from renal allograft sample 2


title: Cell 53 from renal allograft sample 2


title: F3 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 52 from renal allograft sample 2


title: F2 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 49 from renal allograft sample 2


title: Cell 50 from renal allograft sample 2


title: F12 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: F1 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 94 from renal allograft sample 1

value: Kidney 1


title: Cell 93 from renal allograft sample 1


title: Cell 96 from renal allograft sample 1


title: E8 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: E9 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 95 from renal allograft sample 1


title: Cell 55 from renal allograft sample 2


title: Cell 91 from renal allograft sample 1


title: E7 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 47 from renal allograft sample 2


title: F10 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 92 from renal allograft sample 1


title: Cell 48 from renal allograft sample 2


title: E6 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: E5 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: E3 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: E4 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: E2 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 44 from renal allograft sample 2


title: E12 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 46 from renal allograft sample 2


title: Cell 45 from renal allograft sample 2


title: Cell 51 from renal allograft sample 2


title: E1 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: F11 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 43 from renal allograft sample 2


title: Cell 89 from renal allograft sample 1


title: E11 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: E10 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 90 from renal allograft sample 1


title: D9 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 88 from renal allograft sample 1


title: Cell 87 from renal allograft sample 1


title: D8 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 85 from renal allograft sample 1


title: Cell 42 from renal allograft sample 2


title: Cell 41 from renal allograft sample 2


title: D4 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: D6 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 86 from renal allograft sample 1


title: D3 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 40 from renal allograft sample 2


title: Cell 39 from renal allograft sample 2


title: D12 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 38 from renal allograft sample 2


title: D2 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: D1 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 37 from renal allograft sample 2


title: D11 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: D7 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 84 from renal allograft sample 1


title: D10 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 82 from renal allograft sample 1


title: C8 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: D5 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: C7 (scRRBS)

description: day 0 dox+ DNMT1 KO


title: Cell 81 from renal allograft sample 1