title: DCDPS_0.5_323

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: DCDPS

tag: chemical long_name

value: Bis (4-chorophenyl) Sulfone

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: GCCGTTACA


title: 4287-7O-plus-8O_S16

status: Public on Aug 18 2022

type: SRA

city: Fukuoka

first: Yasuhiro

last: Nakashima

address: 3-1-1 Maidashi, Higashi-ku

department: Department of Medicine and Bioregulatory Science

country: Japan

institute: Kyushu University

description: processed data file: S6.txt

library_source: transcriptomic

data_processing:
Raw sequence reads were trimmed for adapters using Trim Galore (v.0.6.7).
Sequences were mapped to the GRCh38 reference genome sequence using HISAT2 (v2.2.1) with default parameters.
Read counts per gene were calculated using featureCounts with -M --fraction parameters.
UMI counts per gene were calculated using UMI-Tools (v1.1.1) with count --method=directional --log2stderr --per-gene --per-cell --gene-tag=XT parameters.
Genome_build: GRCh38
Supplementary_files_format_and_content: Tab-delimited text file includes mRNA molecule count value for each sample.

molecule: polyA RNA

organism: Homo sapiens

source_name: Bone marrow aspiration

extract_protocol:
Mononuclear cells were isolated from bone marrow aspirates using density centrifugation media, and stored at -80℃. After staining with CD38, CD45, CD19, and CD138, Single cell sort of MM cells was performed in 384 well plates using FACS.
Libraries were prepared according to the CEL-Seq2 protocol. Briefly, mRNA from cells sorted into 384-well plates was reverse-transcribed into complementary DNA, with which 12-well samples were pooled. The pooled samples were then amplified by T7 in vitro transcription, and the amplified RNA was fragmented and used to construct final libraries by reverse transcription and PCR amplification. Every PCR product is uniquely labeled by random attachment of barcode sequences to both ends. The libraries were sequenced on Illumina HiSeq 1500 sequencers and the reads were mapped to the GRCh38 human reference genome assembly using HISAT2 (v. 2.2.1).

tag: organ

value: Bone marrow

tag: cell type

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC229

city: Guangzhou

first: Sheng

last: Liu

address: State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center

country: China

institute: Sun Yat-sen University

description: Retinal ganglion cells, scRNA-seq

library_source: transcriptomic single cell

data_processing:
Previously published pipeline STAR version 2.7.0
Assembly: mm10
Supplementary files format and content: Comma-Separated Values files and matrix files

molecule: total RNA

organism: Mus musculus

source_name: Retina

extract_protocol:
The retina is isolated and flat-mounted under dim red light (created with BioRender.com). A retinal ganglion cell is patched and its responses to blue and green spotlight stimuli are recorded. The cell content is aspirated. RNA is processed using Smart-seq2 protocol to get transcriptomic data.
the cDNA library was sequenced on the NovaSeq 6000 instrument and 150-bp paired-end reads were set up. Each sample was sequenced to approximately 10 million reads

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BPAP_0.5_321

city: Ottawa

first: Matthew

last: Meier

state: Ontario

address: 251 Sir Frederick Banting Driveway

department: Health Canada

country: Canada

institute: Government of Canada

data_processing:
Base calling was performed by bcl2fastq v 2.20.422
Quality trimming was performed using fastp v0.20.0
Alignment was performed using STAR v2.7.8a
Gene counts were performed with qCount in the QuasR R package v1.30.0
Normalization was performed with DESeq2 v1.30.1
Assembly: Biospyder Human Whole Transcriptome Gene Set
Supplementary files format and content: count_table.csv is a genes by samples count matrix of raw counts from the TempO-Seq data alignments.

source_name: breast cancer

growth_protocol: MCF-7 cells (ATCC, Manassas, VA) were cultured in Dulbecco's modified Eagle's medium (DMEM; Gibco, Thermo Fisher Scientific) supplemented with 10% fetal bovine serum (FBS; Wisent Bioproducts), and 1% penicillin and streptomycin, at 37°C in a humidified atmosphere with 5% CO2.

extract_protocol:
Cell lysates were used directly for TempO-Seq library building
TempO-Seq gene expression analysis was conducted on exposed and control MCF-7 cell lysates. Libraries were prepared in a 96-well plate format using the TempO-Seq® Human Whole Transcriptome Panel reagent kit (BioSpyder Technologies, Carlsbad, CA, USA), following the manufacturer?s protocol. Human Brain Total RNA and qPCR Human Reference Total RNA (Takara Bio, CA, USA) were included as positive assay controls and a no-lysate control (1X TempO-Seq® R Lysis Buffer only) was included as a negative assay control (two replicates per control). In brief, 2 µl cell lysates were hybridized with the targeted detector oligo (DO) probe mix in 1X TempO-Seq® R Lysis Buffer for 10 min at 70oC followed by a temperature gradient with a ramp rate of 0.5oC/min to 45oC over a 50 min period, followed by a nuclease digestion at 37oC for 90 min to remove excess, unbound, or incorrectly bound DOs enzymatically. Ligation of the DO pairs bound to adjacent target sequences was then completed with a 60 min incubation at 37oC, immediately followed with a 15 min enzyme denaturation at 80oC to generate a pool of amplification templates. All amplification templates (i.e., 10 µl of ligated DOs) were transferred to its corresponding well of the 96-well PCR Pre-Mix and Primers plate. Amplification proceeded with a CFX96 Real-Time PCR Detection System (Bio-Rad, Mississauga, ON, Canada) to attach a unique sequence tag and the sequencing adaptors to each sample using the following PCR program settings: 37oC for 10 min, 95oC for 2 min; 6 cycles of 95oC for 30 sec, 54oC for 30 sec, 72oC for 120 sec; 16 cycles of 95oC for 30 sec; 72oC for 2 min; 72oC for 1 min. The TempO-Seq® libraries were pooled (5 µl of all 96 samples) and purified using the Macherey-Nagel NucleoSpin® Gel and PCR Clean-Up kit (Clontech Laboratories Inc., Bethlehem, PA, USA), according to the manufacturer?s instructions for PCR cleanup with three modifications outlined in the TempO-Seq® Assay User Guide. The pooled, purified TempO-Seq® libraries were sequenced using a NextSeq® 500/550 High Output flow cell (v2 kit, 75 cycles) on an Illumina NextSeq® 500 Sequencing platform (Illumina, San Diego, CA, USA).

treatment_protocol: Cells were maintained for 24 hours in phenol red-free DMEM supplemented with 5% charcoal-dextran stripped FBS (CD-FBS) and seeded  into 96-well plates at a density of 2.5 × 104 cells per well in phenol red-free DMEM supplemented with 5% CD-FBS to eliminate estrogenic components. The next day the medium was removed and replaced with DMEM with 5% CD-FBS containing the chemicals of interest. Cells were exposed in quadruplicate in separate 96-well plates to BPA and 15 alternative chemicals at 10 different concentrations (0.0005, 0.001, 0.01,0.1, 0.5, 1, 5, 10, 50, 100 µM), the positive control 17?-estradiol (E2; 0.0001, 0.001, 0.01, 0.1, 1, 10 nM), dexamethasone (Dex ? a non ER-interacting control; 0.0001, 0.001, 0.01, 0.1, 1 µM) alongside solvent controls (0.1% DMSO; four solvent controls per plate) for 48 hours.

value: breast cancer

value: BPAP

value: BPAP (Bisphenol AP)

tag: dose

tag: batch

value: Plate 2B index H

tag: sequencing pool

tag: technical control

value: F

tag: index

value: TCAGCTAAT

tag: i5 index_id

value: TCTAACCAT

tag: cas-rn

tag: iupac name


title: 4287-7M-plus-8M_S15

description: processed data file: S6.txt


title: BPA_0.1_320

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: BPA

tag: chemical long_name

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: TGCTTATTC

value: GGTCTAGCT


title: BPS-MPE_0.1_319

tag: tissue

tag: cell type

value: BPS-MPE

value: CGTAACTTA


title: 4287-9I-plus-10I_S21

description: processed data file: S6.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC231

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC228

description: Retinal ganglion cells, scRNA-seq


title: RGC226

description: Retinal ganglion cells, scRNA-seq


title: TGSA_0.1_318

value: breast cancer

value: TGSA

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

tag: index

tag: i5 index_id

value: ATACCGGCA

tag: cas-rn

tag: iupac name


title: 4287-7K-plus-8K_S14

description: processed data file: S6.txt


title: 4287-7I-plus-8I_S13

description: processed data file: S6.txt


title: DCDPS_0.1_315

tag: cell line

tag: chemical

value: DCDPS

tag: chemical long_name

value: Bis (4-chorophenyl) Sulfone

tag: treatment

value: Plate 2B index H

value: F

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: GCCGTTACA


title: BTUM_0.1_317

tag: tissue

tag: cell type

value: adenocarcinoma cell line

value: BTUM

value: TGCTTATTC

value: GATTGTGTT


title: RGC232

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: BPAF_0.1_316

value: BPAF

value: BPAF (Bisphenol AF)

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

value: GCACCTATT


title: RGC238

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina


title: RGC233

description: Retinal ganglion cells, scRNA-seq

value: 7-9 weeks old


title: 4287-7G-plus-8G_S12

description: processed data file: S6.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: BPAP_0.1_313

value: breast cancer

tag: cell line

tag: chemical

value: BPAP

tag: chemical long_name

value: BPAP (Bisphenol AP)

tag: treatment

tag: index

tag: i5 index_id

value: TCTAACCAT

tag: cas-rn

tag: iupac name


title: 4287-7E-plus-8E_S11

description: processed data file: S6.txt

tag: cell type


title: BPC_0.5_322

tag: tissue

value: adenocarcinoma cell line

value: BPC

value: BPC (Bisphenol C)

tag: dose

value: Plate 2B index H

value: F

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: TCAGCTAAT

value: ATACGCAGC


title: BPA_0.01_312

value: BPA

tag: batch

tag: sequencing pool

tag: technical control

value: ATTCGAATC

value: GGTCTAGCT


title: RGC234

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC235

description: Retinal ganglion cells, scRNA-seq


title: 4287-7C-plus-8C_S10

description: processed data file: S6.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: BTUM_0.01_309

value: breast cancer

tag: cell line

tag: chemical

value: BTUM

tag: chemical long_name

tag: treatment

tag: index

tag: i5 index_id

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: BPS-MPE_0.01_311

tag: tissue

tag: cell type

value: adenocarcinoma cell line

value: BPS-MPE

tag: dose

tag: batch

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: CGTAACTTA


title: TGSA_0.01_310

value: TGSA

value: Plate 2B index H

tag: sequencing pool

tag: technical control

value: F

value: ATACCGGCA


title: BPAF_0.01_308

tag: cell line

tag: chemical

value: BPAF

value: BPAF (Bisphenol AF)

value: ATTCGAATC

value: GCACCTATT


title: BPAP_0.01_305

value: BPAP

tag: chemical long_name

value: BPAP (Bisphenol AP)

tag: treatment

value: TCTAACCAT


title: BPC_0.01_306

value: breast cancer

value: BPC

value: BPC (Bisphenol C)

tag: index

tag: i5 index_id

value: ATACGCAGC


title: 4287-1M-plus-2M_S7

description: processed data file: S6.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: DCDPS_0.01_307

tag: tissue

tag: cell type

value: adenocarcinoma cell line

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

tag: dose

tag: batch

value: Plate 2B index H

value: GCCGTTACA

tag: cas-rn

tag: iupac name


title: BPC_0.1_314

tag: sequencing pool

tag: technical control

value: F

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: TGCTTATTC


title: RGC237

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 4287-7A-plus-8A_S9

description: processed data file: S6.txt

tag: organ

tag: selection marker


title: TGSA_0.001_302

value: breast cancer

tag: cell line

tag: chemical

value: TGSA

tag: chemical long_name

tag: treatment

tag: index

value: ATCGCGACT

tag: i5 index_id

value: ATACCGGCA


title: RGC236

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue


title: 4287-1O-plus-2O_S8

description: processed data file: S6.txt

value: Bone marrow

tag: time point

tag: disease stage


title: BTUM_0.001_301

value: BTUM

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: 4287-1K-plus-2K_S6

description: processed data file: S6.txt

tag: organ

value: Myeloma cells

tag: selection marker

value: Relapse


title: BPA_0.001_304

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: BPA

tag: chemical long_name

tag: treatment

tag: well

tag: i7 index_id

value: GGTCTAGCT


title: BPAF_0.001_300

tag: tissue

tag: cell type

value: BPAF

value: BPAF (Bisphenol AF)

value: Plate 2B index H

value: F

tag: index

tag: i5 index_id

value: GCACCTATT


title: BPS-MPE_0.001_303

value: breast cancer

value: BPS-MPE

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

value: CGTAACTTA


title: 4287-1I-plus-2I_S5

description: processed data file: S6.txt

tag: time point

tag: disease stage


title: RGC247

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC239

description: Retinal ganglion cells, scRNA-seq


title: RGC246

description: Retinal ganglion cells, scRNA-seq


title: 4287-1G-plus-2G_S4

description: processed data file: S6.txt

tag: organ

value: Bone marrow

tag: selection marker


title: DCDPS_0.001_299

tag: cell line

tag: chemical

value: DCDPS

tag: chemical long_name

value: Bis (4-chorophenyl) Sulfone

tag: treatment

tag: reference rna

tag: solvent control

value: ATCGCGACT

value: GCCGTTACA

tag: cas-rn

tag: iupac name


title: RGC240

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue


title: BPC_0.001_298

value: adenocarcinoma cell line

value: BPC

value: BPC (Bisphenol C)

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

tag: index

tag: i5 index_id

value: ATACGCAGC


title: 4287-1E-plus-2E_S3

description: processed data file: S6.txt

tag: organ

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC241

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: BPA_0.0005_296

value: breast cancer

tag: cell line

tag: chemical

value: BPA

tag: chemical long_name

tag: treatment

value: Plate 2B index H

value: F

tag: reference rna

tag: solvent control

value: TGGAACGCT

value: GGTCTAGCT

tag: cas-rn

tag: iupac name


title: TGSA_0.0005_294

tag: tissue

tag: cell type

value: TGSA

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

value: ATACCGGCA


title: 4287-1C-plus-2C_S2

description: processed data file: S6.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: RGC243

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BTUM_0.0005_293

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: BTUM

tag: chemical long_name

tag: treatment

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: GATTGTGTT


title: BPC_0.0005_290

tag: tissue

tag: cell type

value: BPC

value: BPC (Bisphenol C)

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

value: ATACGCAGC

tag: cas-rn

tag: iupac name


title: RGC244

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: BPAF_0.0005_292

value: breast cancer

tag: cell line

tag: chemical

value: BPAF

value: BPAF (Bisphenol AF)

tag: well

tag: i7 index_id

value: GCACCTATT


title: 4287-1A-plus-2A_S1

description: processed data file: S6.txt

tag: organ

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 3077_6M_S6

description: processed data file: S5.txt

tag: cell type

value: Baseline


title: DCDPS_0.0005_291

tag: tissue

value: DCDPS

tag: chemical long_name

value: Bis (4-chorophenyl) Sulfone

tag: dose

tag: treatment

value: Plate 2B index H

value: F

tag: reference rna

tag: solvent control

tag: index

value: TGGAACGCT

tag: i5 index_id

value: GCCGTTACA


title: 3077_6K_S5

description: processed data file: S5.txt

value: Bone marrow


title: RGC251

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: No cells; Brain +ve control_0_286

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: No cells; Brain +ve control

value: No cells; Brain +ve control_0

tag: batch

value: Plate 1B index G

tag: sequencing pool

tag: technical control

value: T

tag: well

value: TAGCTCTTC

value: ATACCGGCA

tag: cas-rn

tag: iupac name


title: BPAP_0.0005_289

tag: tissue

tag: cell type

value: BPAP

tag: chemical long_name

value: BPAP (Bisphenol AP)

tag: i7 index_id

value: TCTAACCAT


title: 3077_6I_S4

description: processed data file: S5.txt

tag: organ

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Baseline


title: RGC245

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: No cells; Universal human +ve control_0_285

tag: cell line

tag: chemical

value: No cells; Universal human +ve control

tag: dose

tag: treatment

value: No cells; Universal human +ve control_0

tag: reference rna

tag: solvent control

value: F

tag: index

tag: i5 index_id

value: GATTGTGTT


title: BPAP_0.001_297

tag: tissue

value: breast cancer

tag: cell type

tag: batch

value: Plate 2B index H

tag: sequencing pool

tag: technical control

tag: well

value: ATCGCGACT

tag: cas-rn

tag: iupac name


title: No cells; 1X Lysis buffer_0_287

value: adenocarcinoma cell line

value: No cells; 1X Lysis buffer

tag: chemical long_name

value: No cells; 1X Lysis buffer_0

tag: i7 index_id

value: CGTAACTTA


title: DMSO_283

tag: cell line

tag: chemical

value: DMSO Pool 1

value: DMSO 0.1%

value: DMSO

value: Plate 1B index G

value: T

value: TAGCTCTTC

value: GCCGTTACA


title: 3077_6E_S3

description: processed data file: S5.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Baseline


title: RGC252

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BPS-MPE_0.0005_295

tag: tissue

value: breast cancer

tag: cell type

value: adenocarcinoma cell line

value: BPS-MPE

tag: dose

tag: treatment

value: Plate 2B index H

value: F

tag: reference rna

tag: solvent control

tag: index

value: TGGAACGCT

tag: i5 index_id


title: RGC253

description: Retinal ganglion cells, scRNA-seq


title: 3077_6C_S2

description: processed data file: S5.txt


title: RGC242

description: Retinal ganglion cells, scRNA-seq


title: DMSO_282

value: DMSO Pool 1

tag: chemical long_name

value: DMSO 0.1%

value: DMSO

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

value: ATACGCAGC

tag: cas-rn

tag: iupac name


title: DMSO_281

tag: cell line

tag: chemical

value: Plate 1B index G

value: T

value: TAGCTCTTC

value: TCTAACCAT


title: Cells, no treatment_0_280

tag: tissue

tag: cell type

value: Cells, no treatment

value: cells, no treatment

value: Cells, no treatment_0

value: GACTTCATT

value: GGTCTAGCT


title: 3077_6A_S1

description: processed data file: S5.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Baseline


title: 17B-estradiol_10000_278

value: breast cancer

value: adenocarcinoma cell line

tag: dose

tag: treatment

value: F

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: ATACCGGCA


title: No cells; media only_0_288

value: No cells; media only

tag: chemical long_name

value: No cells; media only_0

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id


title: Cells, no treatment_0_279

tag: tissue

tag: cell line

tag: cell type

tag: chemical

value: Plate 1B index G

value: T

value: CGTAACTTA

tag: cas-rn

tag: iupac name


title: 17B-estradiol_100_276

tag: dose

tag: treatment

value: GCACCTATT


title: DMSO_284

value: DMSO Pool 1

value: DMSO 0.1%

value: DMSO

tag: reference rna

tag: solvent control

value: TAGCTCTTC


title: 3077_3O_plus_4O_S24

description: processed data file: S4.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: 17B-estradiol_1000_277

tag: chemical long_name

tag: batch

tag: sequencing pool

tag: technical control

tag: index

value: GACTTCATT

tag: i5 index_id

value: GATTGTGTT


title: 3077_3M_plus_4M_S23

description: processed data file: S4.txt

tag: cell type

value: Myeloma cells

value: Baseline


title: RGC249

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 17B-estradiol_10_275

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

tag: dose

tag: treatment

value: F

tag: well

tag: i7 index_id

value: GCCGTTACA

tag: cas-rn

tag: iupac name


title: 3077_3I_plus_4I_S21

description: processed data file: S4.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: RGC250

description: Retinal ganglion cells, scRNA-seq


title: 17B-estradiol_0.1_273

tag: chemical long_name

tag: batch

value: Plate 1B index G

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: TCTAACCAT


title: 2,4-BPS_100_271

tag: tissue

tag: cell line

tag: cell type

tag: chemical

tag: dose

tag: treatment

value: TGCATGACA

value: CGTAACTTA


title: RGC264

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: 3077_3G_plus_4G_S20

description: processed data file: S4.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: BADGE_100_268

value: BADGE

tag: chemical long_name

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

value: GCACCTATT

tag: cas-rn

tag: iupac name


title: RGC254

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue


title: RGC265

description: Retinal ganglion cells, scRNA-seq


title: 3077_3E_plus_4E_S19

description: processed data file: S4.txt

value: Bone marrow


title: Pergafast201_100_270

tag: cell line

tag: chemical

value: Pergafast 201

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: ATACCGGCA


title: RGC248

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: RGC266

description: Retinal ganglion cells, scRNA-seq


title: 3077_3K_plus_4K_S22

description: processed data file: S4.txt

tag: organ

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Baseline


title: BPS-MAE_100_272

value: BPS-MAE

tag: chemical long_name

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

value: GGTCTAGCT

tag: cas-rn

tag: iupac name


title: 3077_3C_plus_4C_S18

description: processed data file: S4.txt

tag: cell type


title: D-8_100_266

tag: tissue

value: breast cancer

tag: cell line

tag: chemical

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

tag: index

value: ATACGCAGC


title: 17B-estradiol_1_274

value: adenocarcinoma cell line

tag: chemical long_name

value: F

value: GACTTCATT

tag: i5 index_id


title: BPS_100_267

value: BPS

value: Bisphenol S

tag: batch

value: Plate 1B index G

tag: sequencing pool

value: GCCGTTACA


title: RGC256

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 3077_3A_plus_4A_S17

description: processed data file: S4.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: 2,4-BPF_100_269

tag: tissue

tag: cell line

tag: cell type

value: 2,4-BPF (BPF Analog)

tag: technical control

tag: well

tag: i7 index_id

value: TGCATGACA

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: 3077_1O_plus_2O_S16

description: processed data file: S4.txt

value: Myeloma cells

value: Baseline


title: 2,4-BPS_50_263

value: breast cancer

tag: chemical

tag: chemical long_name

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

tag: index

value: TAAGGTAGC

tag: i5 index_id

value: CGTAACTTA


title: 4,4-BPF_100_265

value: adenocarcinoma cell line

value: 4,4-BPF (Bisphenol F)

tag: batch

tag: sequencing pool

value: F

value: TCTAACCAT


title: 2,4-BPF_50_261

tag: tissue

tag: cell line

value: Plate 1B index G


title: BADGE_50_260

tag: cell type

value: BADGE

tag: technical control

value: GCACCTATT


title: Pergafast201_50_262

value: Pergafast 201

tag: well

tag: i7 index_id

value: ATACCGGCA


title: RGC257

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BPS-MAE_50_264

tag: chemical

value: BPS-MAE

tag: chemical long_name

value: GGTCTAGCT

tag: cas-rn

tag: iupac name


title: RGC258

description: Retinal ganglion cells, scRNA-seq


title: 3077_1M_plus_2M_S15

description: processed data file: S4.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Baseline


title: RGC255

description: Retinal ganglion cells, scRNA-seq


title: BPS_50_259

value: breast cancer

value: adenocarcinoma cell line

value: BPS

value: Bisphenol S

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

tag: reference rna

tag: solvent control

tag: index

value: TAAGGTAGC

tag: i5 index_id

value: GCCGTTACA


title: 3077_1K_plus_2K_S14

description: processed data file: S4.txt

tag: cell type


title: RGC259

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain

tag: age


title: 3077_1I_plus_2I_S13

description: processed data file: S4.txt


title: D-8_50_258

tag: cell line

tag: chemical

tag: chemical long_name

value: Plate 1B index G

tag: technical control

value: F

tag: well

tag: i7 index_id

value: ATACGCAGC

tag: cas-rn

tag: iupac name


title: BPS-MAE_10_256

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

value: TCAGTACAT


title: 4,4-BPF_50_257

value: 4,4-BPF (Bisphenol F)

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: TCTAACCAT


title: RGC260

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 2,4-BPS_10_255

tag: cell line

tag: chemical

tag: chemical long_name

tag: technical control

value: CGTAACTTA


title: 3077_1G_plus_2G_S12

description: processed data file: S4.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Baseline


title: RGC261

description: Retinal ganglion cells, scRNA-seq


title: 2,4-BPF_10_253

value: breast cancer

value: adenocarcinoma cell line

value: 2,4-BPF (BPF Analog)

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

tag: well

tag: i7 index_id

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: RGC262

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue

tag: strain

tag: age


title: Pergafast201_10_254

tag: cell line

tag: chemical

tag: chemical long_name

value: Pergafast 201

value: Plate 1B index G

tag: technical control

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: ATACCGGCA


title: BADGE_10_252

value: BADGE

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

value: F

value: TCAGTACAT

value: GCACCTATT


title: 3077_1C_plus_2C_S10

description: processed data file: S4.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: BPS_10_251

tag: tissue

tag: cell type

value: BPS

value: Bisphenol S

tag: well

tag: i7 index_id

value: GCCGTTACA

tag: cas-rn

tag: iupac name


title: RGC263

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 3077_1E_plus_2E_S11

description: processed data file: S4.txt

value: Bone marrow

value: Myeloma cells

value: Baseline


title: D-8_10_250

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

tag: chemical long_name

tag: technical control

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: ATACGCAGC


title: 3964_9O_plus_10O_S8

description: processed data file: S4.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC271

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue


title: 3077_1A_plus_2A_S9

description: processed data file: S4.txt


title: 2,4-BPF_5_245

value: 2,4-BPF (BPF Analog)

tag: dose

tag: treatment

tag: batch

value: Plate 1B index G

tag: sequencing pool

tag: well

tag: i7 index_id

value: ATTCGCTCT

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: 3964_9M_plus_10M_S7

description: processed data file: S4.txt


title: RGC272

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: 2,4-BPS_5_247

tag: cell line

tag: chemical

tag: chemical long_name

tag: technical control

value: F

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: CGTAACTTA


title: RGC273

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue


title: BADGE_5_244

value: BADGE

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

value: GCACCTATT


title: Pergafast201_5_246

value: Pergafast 201

tag: well

tag: i7 index_id

value: ATACCGGCA

tag: cas-rn

tag: iupac name


title: BPS_5_243

tag: cell line

tag: chemical

value: BPS

value: Bisphenol S

value: GCCGTTACA


title: 3964_9K_plus_10K_S6

description: processed data file: S4.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage


title: D-8_5_242

value: breast cancer

value: adenocarcinoma cell line

tag: chemical long_name

tag: technical control

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: ATACGCAGC


title: 4,4-BPF_5_241

tag: tissue

tag: cell type

value: 4,4-BPF (Bisphenol F)

tag: dose

tag: treatment

tag: batch

value: Plate 1B index G

tag: sequencing pool

value: TCTAACCAT


title: RGC274

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BPS-MAE_1_240

tag: cell line

tag: chemical

value: BPS-MAE

value: F

tag: well

tag: i7 index_id

value: ACTCATGTA

value: GGTCTAGCT

tag: cas-rn

tag: iupac name


title: BPS-MAE_5_248

tag: chemical long_name

tag: technical control

tag: reference rna

tag: solvent control

value: ATTCGCTCT


title: 2,4-BPS_1_239

tag: tissue

tag: cell type

tag: index

tag: i5 index_id

value: CGTAACTTA


title: 4,4-BPF_10_249

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

value: TCAGTACAT


title: RGC267

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: RGC275

description: Retinal ganglion cells, scRNA-seq


title: 3964_9I_plus_10I_S5

description: processed data file: S4.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: Pergafast201_1_238

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

tag: chemical long_name

value: Pergafast 201

tag: technical control

tag: well

tag: i7 index_id

value: ATACCGGCA

tag: cas-rn

tag: iupac name


title: 3964_9E_plus_10E_S3

description: processed data file: S4.txt

tag: cell type


title: 3964_9G_plus_10G_S4

description: processed data file: S4.txt


title: BADGE_1_236

tag: tissue

value: BADGE

tag: dose

tag: treatment

tag: batch

value: Plate 1B index G

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: GCACCTATT


title: RGC268

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BPS_1_235

tag: cell line

tag: chemical

value: BPS

tag: chemical long_name

value: Bisphenol S

tag: sequencing pool

value: F

value: ACTCATGTA

value: GCCGTTACA


title: 3964_9C_plus_10C_S2

description: processed data file: S4.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage


title: 2,4-BPF_1_237

tag: tissue

value: breast cancer

tag: cell type

value: 2,4-BPF (BPF Analog)

tag: dose

tag: technical control

tag: well

tag: i7 index_id

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: RGC269

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: 2,4-BPS_0.5_231

tag: cell line

value: adenocarcinoma cell line

tag: chemical

tag: treatment

tag: batch

tag: reference rna

tag: solvent control

tag: index

value: GTTTATACT

tag: i5 index_id

value: CGTAACTTA


title: BPS-MAE_0.5_232

tag: tissue

tag: cell type

value: BPS-MAE

tag: chemical long_name

value: Plate 1B index G

tag: sequencing pool

value: GGTCTAGCT


title: 3964_9A_plus_10A_S1

description: processed data file: S4.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC270

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 4,4-BPF_1_233

tag: cell line

tag: chemical

value: 4,4-BPF (Bisphenol F)

tag: dose

tag: technical control

value: F

tag: well

tag: i7 index_id

value: ACTCATGTA

value: TCTAACCAT

tag: cas-rn

tag: iupac name


title: Pergafast201_0.5_230

tag: tissue

value: breast cancer

tag: cell type

value: Pergafast 201

tag: treatment

tag: batch

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: ATACCGGCA


title: RGC276

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: 3964_7O_S28

description: processed data file: S3.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage


title: 3964_7M_S27

description: processed data file: S3.txt


title: RGC284

description: Retinal ganglion cells, scRNA-seq


title: BADGE_0.5_228

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: BADGE

tag: chemical long_name

tag: dose

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

value: GTTTATACT

value: GCACCTATT


title: 2,4-BPF_0.5_229

tag: tissue

tag: cell type

value: 2,4-BPF (BPF Analog)

tag: treatment

tag: batch

value: Plate 1B index G

tag: reference rna

tag: solvent control

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: BPS_0.5_227

value: BPS

value: Bisphenol S

tag: index

tag: i5 index_id

value: GCCGTTACA


title: 3964_7K_S26

description: processed data file: S3.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: D-8_0.5_226

tag: cell line

tag: chemical

tag: chemical long_name

tag: dose

tag: sequencing pool

tag: technical control

value: F

value: ATACGCAGC


title: 4,4-BPF_0.5_225

tag: tissue

value: breast cancer

tag: cell type

value: 4,4-BPF (Bisphenol F)

tag: treatment

tag: batch

tag: well

tag: i7 index_id

value: TCTAACCAT


title: RGC277

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC278

description: Retinal ganglion cells, scRNA-seq


title: BPS-MAE_0.1_224

value: adenocarcinoma cell line

value: BPS-MAE

tag: reference rna

tag: solvent control

tag: index

value: GAACTGTAT

tag: i5 index_id

value: GGTCTAGCT

tag: cas-rn

tag: iupac name


title: D-8_1_234

tag: cell line

tag: chemical

tag: chemical long_name

tag: dose

value: Plate 1B index G

value: ACTCATGTA


title: 3964_5O_plus_6O_S24

description: processed data file: S3.txt

tag: organ

value: Bone marrow

tag: cell type

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage


title: 2,4-BPS_0.1_223

tag: tissue

tag: treatment

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

value: CGTAACTTA


title: RGC279

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: 2,4-BPF_0.1_221

tag: cell line

tag: chemical

value: 2,4-BPF (BPF Analog)

value: F

tag: reference rna

tag: solvent control

tag: index

tag: i5 index_id

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: 3964_5M_plus_6M_S23

description: processed data file: S3.txt

tag: organ

tag: cell type

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: BADGE_0.1_220

tag: tissue

value: breast cancer

value: BADGE

tag: chemical long_name

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

tag: technical control

tag: well

value: GCACCTATT


title: BPS_0.1_219

tag: cell line

tag: chemical

value: BPS

value: Bisphenol S

tag: reference rna

tag: solvent control

tag: i7 index_id

tag: index

value: GCCGTTACA


title: RGC280

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: D-8_0.1_218

tag: tissue

value: adenocarcinoma cell line

value: Plate 1B index G

value: GAACTGTAT

tag: i5 index_id

value: ATACGCAGC

tag: cas-rn

tag: iupac name


title: 4,4-BPF_0.1_217

tag: chemical long_name

value: 4,4-BPF (Bisphenol F)

tag: dose

tag: treatment

tag: batch

value: TCTAACCAT


title: 3964_5I_plus_6I_S21

description: processed data file: S3.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage


title: BPS-MAE_0.01_216

value: breast cancer

tag: cell line

tag: chemical

value: BPS-MAE

tag: sequencing pool

tag: technical control

value: F

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: GGGTTGTTA

value: GGTCTAGCT


title: 2,4-BPS_0.01_215

tag: tissue

tag: cell type

tag: index

tag: i5 index_id

value: CGTAACTTA

tag: cas-rn

tag: iupac name


title: Pergafast201_0.01_214

tag: chemical long_name

value: Pergafast 201

tag: dose

tag: treatment

tag: batch

value: ATACCGGCA


title: 3964_7I_S25

description: processed data file: S3.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 2,4-BPF_0.01_213

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: 2,4-BPF (BPF Analog)

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

value: GATTGTGTT


title: Pergafast201_0.1_222

tag: tissue

tag: cell type

value: Plate 1B index G

tag: well

tag: i7 index_id

tag: index

value: GAACTGTAT

tag: i5 index_id


title: RGC283

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 3964_5E_plus_6E_S19

description: processed data file: S3.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker


title: D-8_0.01_210

value: breast cancer

tag: chemical long_name

tag: dose

tag: treatment

tag: batch

value: F

value: ATACGCAGC

tag: cas-rn

tag: iupac name


title: RGC293

description: Retinal ganglion cells, scRNA-seq


title: BADGE_0.01_212

tag: cell line

tag: chemical

value: BADGE

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

value: GGGTTGTTA

value: GCACCTATT


title: 3964_5C_plus_6C_S18

description: processed data file: S3.txt

tag: cell type

tag: time point

tag: disease stage

value: Relapse


title: 3964_5A_plus_6A_S17

description: processed data file: S3.txt

tag: organ


title: RGC294

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain

tag: age


title: 4,4-BPF_0.01_209

value: adenocarcinoma cell line

tag: chemical long_name

value: 4,4-BPF (Bisphenol F)

tag: dose

tag: treatment

tag: well

tag: i7 index_id

tag: index

tag: i5 index_id

value: TCTAACCAT


title: RGC295

description: Retinal ganglion cells, scRNA-seq


title: BPS-MAE_0.001_208

tag: cell line

tag: chemical

value: BPS-MAE

tag: batch

value: Plate 1B index G

tag: sequencing pool

tag: technical control

value: AAGACTCTT

value: GGTCTAGCT

tag: cas-rn

tag: iupac name


title: 3964_5K_plus_6K_S22

description: processed data file: S3.txt

tag: organ

tag: cell type

tag: selection marker

tag: time point

tag: disease stage


title: RGC282

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 2,4-BPS_0.001_207

value: breast cancer

tag: chemical long_name

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: CGTAACTTA


title: RGC281

description: Retinal ganglion cells, scRNA-seq


title: 3964_3O_plus_4O_S16

description: processed data file: S3.txt

value: Bone marrow

value: Myeloma cells


title: RGC296

description: Retinal ganglion cells, scRNA-seq


title: 3964_5G_plus_6G_S20

description: processed data file: S3.txt


title: Pergafast201_0.001_206

tag: cell line

tag: chemical

value: Pergafast 201

tag: batch

tag: sequencing pool

tag: technical control

value: F

tag: i5 index_id

value: ATACCGGCA

tag: cas-rn

tag: iupac name


title: 3964_3M_plus_4M_S15

description: processed data file: S3.txt

tag: organ

tag: cell type

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC297

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain

tag: age


title: BADGE_0.001_204

value: adenocarcinoma cell line

value: BADGE

tag: chemical long_name

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: GCACCTATT


title: BPS_0.001_203

tag: cell line

tag: chemical

value: BPS

value: Bisphenol S

tag: batch

value: Plate 1B index G

tag: sequencing pool

tag: technical control

tag: i5 index_id

value: GCCGTTACA

tag: cas-rn

tag: iupac name


title: D-8_0.001_202

tag: tissue

tag: cell type

value: AAGACTCTT

value: ATACGCAGC


title: 3964_3K_plus_4K_S14

description: processed data file: S3.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: 2,4-BPS_0.0005_199

value: breast cancer

tag: chemical long_name

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

tag: well

value: TCCTCAGCC


title: BPS-MAE_0.0005_200

tag: cell line

tag: chemical

value: BPS-MAE

tag: batch

tag: sequencing pool

tag: i7 index_id

tag: index

value: GGTCTAGCT


title: RGC298

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 4,4-BPF_0.001_201

value: 4,4-BPF (Bisphenol F)

tag: technical control

value: F

tag: i5 index_id

value: TCTAACCAT

tag: cas-rn

tag: iupac name


title: 3964_3G_plus_4G_S12

description: processed data file: S3.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: Pergafast201_0.0005_198

tag: cell line

value: adenocarcinoma cell line

tag: chemical

tag: chemical long_name

value: Pergafast 201

tag: dose

tag: treatment

value: Plate 1B index G

tag: reference rna

tag: solvent control

tag: well

value: ATACCGGCA


title: 3964_3I_plus_4I_S13

description: processed data file: S3.txt

tag: cell type


title: 2,4-BPF_0.001_205

tag: tissue

value: breast cancer

value: 2,4-BPF (BPF Analog)

tag: batch

tag: sequencing pool

tag: technical control

tag: i7 index_id

tag: index

value: AAGACTCTT

value: GATTGTGTT


title: RGC286

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

tag: strain

tag: age


title: BADGE_0.0005_196

tag: cell line

value: BADGE

value: TCCTCAGCC

tag: i5 index_id

value: GCACCTATT

tag: cas-rn

tag: iupac name


title: RGC287

description: Retinal ganglion cells, scRNA-seq

value: Retina

value: 7-9 weeks old


title: 3964_3C_plus_4C_S10

description: processed data file: S3.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: 3964_3E_plus_4E_S11

description: processed data file: S3.txt

tag: cell type

value: Myeloma cells


title: RGC285

description: Retinal ganglion cells, scRNA-seq

tag: tissue


title: D-8_0.0005_194

tag: chemical

tag: chemical long_name

tag: dose

tag: treatment

tag: batch

value: F

tag: reference rna

tag: solvent control

tag: well

value: ATACGCAGC


title: 4,4-BPF_0.0005_193

tag: cell line

value: adenocarcinoma cell line

value: 4,4-BPF (Bisphenol F)

tag: sequencing pool

tag: technical control

tag: i7 index_id

tag: index

tag: i5 index_id

value: TCTAACCAT


title: RGC288

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: 2,4-BPF_0.0005_197

tag: tissue

value: breast cancer

tag: cell type

value: Plate 1B index G

tag: cas-rn

tag: iupac name


title: No cells; media only_0_192

tag: chemical

value: No cells; media only

tag: chemical long_name

tag: dose

tag: treatment

value: No cells; media only_0

value: Plate 2A index F

value: T

value: GATAGCGGA

value: AAGTAGGCT


title: 3964_3A_plus_4A_S9

description: processed data file: S3.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC289

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

value: 7-9 weeks old


title: No cells; 1X Lysis buffer_0_191

tag: cell line

value: No cells; 1X Lysis buffer

value: No cells; 1X Lysis buffer_0

tag: batch

tag: sequencing pool

tag: technical control

tag: reference rna

value: F

tag: solvent control

tag: well

tag: i7 index_id

value: TAACGCGTC


title: BPS_0.01_211

tag: tissue

tag: cell type

value: adenocarcinoma cell line

value: BPS

value: Bisphenol S

tag: index

value: GGGTTGTTA

tag: i5 index_id

value: GCCGTTACA

tag: cas-rn

tag: iupac name


title: 3964_1O_plus_2O_S8

description: processed data file: S3.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker


title: RGC290

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: No cells; Brain +ve control_0_190

value: breast cancer

tag: cell line

tag: chemical

value: No cells; Brain +ve control

tag: chemical long_name

tag: dose

tag: treatment

value: No cells; Brain +ve control_0

tag: batch

value: Plate 2A index F

value: T

value: GATAGCGGA

value: GCAGATGCA


title: 3964_1M_plus_2M_S7

description: processed data file: S3.txt

tag: time point

tag: disease stage

value: Relapse


title: No cells; Universal human +ve control_0_189

tag: tissue

tag: cell type

value: No cells; Universal human +ve control

value: No cells; Universal human +ve control_0

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

value: F

tag: well

tag: i7 index_id

value: AGCAAGGTC


title: RGC291

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: DMSO_188

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: DMSO Pool 1

value: DMSO 0.1%

value: DMSO

tag: index

tag: i5 index_id

value: TTCCGAATT

tag: cas-rn

tag: iupac name


title: DMSO_187

value: breast cancer

tag: chemical long_name

tag: dose

tag: treatment

tag: batch

value: Plate 2A index F

value: AAACACCTT


title: 3964_1K_plus_2K_S6

description: processed data file: S3.txt

tag: organ

value: Bone marrow

tag: cell type

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage


title: RGC299

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain


title: DMSO_186

tag: cell line

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

value: T

tag: well

tag: i7 index_id

value: GATAGCGGA

value: ACAACCATC


title: DMSO_185

tag: chemical

tag: chemical long_name

tag: dose

value: F

tag: index

tag: i5 index_id

value: GTGCATTAG

tag: cas-rn

tag: iupac name


title: RGC301

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

value: Retina

tag: age


title: 3964_1I_plus_2I_S5

description: processed data file: S3.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: Cells, no treatment_0_182

tag: tissue

tag: cell line

value: adenocarcinoma cell line

value: Cells, no treatment

value: cells, no treatment

tag: treatment

value: Cells, no treatment_0

tag: batch

tag: sequencing pool

tag: technical control

tag: reference rna

value: AGCCGATTA

value: GCAGATGCA


title: Cells, no treatment_0_183

value: breast cancer

tag: chemical

tag: chemical long_name

tag: dose

value: Plate 2A index F

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: TAACGCGTC


title: Dex_1000_181

tag: cell type

value: Dex

tag: i5 index_id

value: AGCAAGGTC

tag: cas-rn

tag: iupac name


title: 3964_1G_plus_2G_S4

description: processed data file: S3.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage


title: Dex_100_180

tag: tissue

tag: cell line

tag: treatment

tag: batch

tag: sequencing pool

tag: technical control

value: F

value: TTCCGAATT


title: 3964_1C_plus_2C_S2

description: processed data file: S3.txt


title: Dex_1_178

tag: chemical

tag: chemical long_name

tag: dose

tag: reference rna

tag: solvent control

tag: well

value: ACAACCATC


title: 3964_1E_plus_2E_S3

description: processed data file: S3.txt

tag: cell type

value: Relapse


title: RGC303

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC302

description: Retinal ganglion cells, scRNA-seq


title: BPA_100_176

value: adenocarcinoma cell line

value: BPA

tag: i7 index_id

tag: index

value: ACCTGAGGC

tag: i5 index_id

value: AAGTAGGCT

tag: cas-rn

tag: iupac name


title: Dex_0.1_177

tag: tissue

value: breast cancer

tag: cell line

tag: treatment

tag: batch

value: Plate 2A index F

value: AGCCGATTA

value: GTGCATTAG


title: 3964_1A_plus_2A_S1

description: processed data file: S3.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: Dex_10_179

tag: chemical

value: Dex

tag: chemical long_name

tag: dose

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

tag: well

value: AAACACCTT


title: RGC300

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: strain

tag: age


title: BPAF_100_172

tag: tissue

tag: cell line

value: BPAF

value: BPAF (Bisphenol AF)

tag: treatment

value: F

tag: i7 index_id

tag: index

tag: i5 index_id

value: TTCCGAATT

tag: cas-rn

tag: iupac name


title: RGC304

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina


title: 3964_7sM_plus_8M_S23

description: processed data file: S2.txt

tag: organ

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 3964_7sO_plus_8O_S24

description: processed data file: S2.txt


title: Cells, no treatment_0_184

value: adenocarcinoma cell line

tag: chemical

value: Cells, no treatment

tag: chemical long_name

value: cells, no treatment

tag: dose

value: Cells, no treatment_0

tag: batch

tag: sequencing pool

tag: technical control

value: T

tag: reference rna

tag: solvent control


title: BPC_100_170

tag: tissue

value: breast cancer

tag: cell line

tag: cell type

value: BPC

value: BPC (Bisphenol C)

tag: treatment

value: Plate 2A index F

tag: well

tag: i7 index_id

value: ACCTGAGGC

value: ACAACCATC


title: BPAP_100_169

value: BPAP

value: BPAP (Bisphenol AP)

value: F

tag: index

tag: i5 index_id

value: GTGCATTAG

tag: cas-rn

tag: iupac name


title: BPA_50_168

tag: chemical

value: BPA

tag: chemical long_name

value: TAGCGACAA

value: AAGTAGGCT


title: RGC312

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 3964_7sG_plus_8G_S20

description: processed data file: S2.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 3964_7sI_plus_8I_S21

description: processed data file: S2.txt


title: RGC308

description: Retinal ganglion cells, scRNA-seq

tag: tissue


title: TGSA_100_174

value: breast cancer

tag: cell line

tag: cell type

value: adenocarcinoma cell line

value: TGSA

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

value: GCAGATGCA


title: BTUM_50_165

tag: chemical

value: BTUM

tag: treatment

value: Plate 2A index F

tag: well

tag: i7 index_id

tag: index

tag: i5 index_id

value: AGCAAGGTC

tag: cas-rn

tag: iupac name


title: BPS-MPE_100_175

tag: tissue

value: BPS-MPE

tag: chemical long_name

value: F

value: ACCTGAGGC

value: TAACGCGTC


title: RGC305

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: strain

tag: age


title: RGC306

description: Retinal ganglion cells, scRNA-seq

value: Retina


title: BTUM_100_173

tag: cell line

tag: dose

tag: batch

tag: sequencing pool


title: TGSA_50_166

tag: chemical

tag: technical control

tag: reference rna

tag: solvent control

value: TAGCGACAA


title: 3964_7sE_plus_8E_S19

description: processed data file: S2.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: RGC309

description: Retinal ganglion cells, scRNA-seq

tag: tissue

value: 7-9 weeks old


title: BPAF_50_164

value: BPAF

tag: chemical long_name

value: BPAF (Bisphenol AF)

tag: treatment

tag: well

tag: i7 index_id

tag: index

tag: i5 index_id

value: TTCCGAATT

tag: cas-rn

tag: iupac name


title: DCDPS_50_163

value: breast cancer

tag: cell line

tag: cell type

value: adenocarcinoma cell line

tag: chemical

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

tag: dose

tag: batch

tag: sequencing pool

value: AAACACCTT


title: BPS-MPE_50_167

value: BPS-MPE

value: Plate 2A index F

tag: technical control

tag: reference rna

tag: solvent control


title: 3964_7sC_plus_8C_S18

description: processed data file: S2.txt

tag: organ

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 3964_7sA_plus_8A_S17

description: processed data file: S2.txt


title: DCDPS_100_171

tag: tissue

tag: chemical long_name

tag: treatment

value: F

tag: well

tag: i7 index_id

tag: index

value: ACCTGAGGC


title: 3964_7sK_plus_8K_S22

description: processed data file: S2.txt

tag: cell type


title: RGC307

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age


title: BPA_10_160

tag: cell line

tag: chemical

value: BPA

tag: dose

tag: batch

tag: sequencing pool

value: GCTATCGAT

tag: i5 index_id

value: AAGTAGGCT

tag: cas-rn

tag: iupac name


title: BPC_50_162

tag: tissue

value: BPC

value: BPC (Bisphenol C)

tag: technical control

tag: reference rna

tag: solvent control

value: TAGCGACAA

value: ACAACCATC


title: BPAP_50_161

value: breast cancer

value: adenocarcinoma cell line

value: BPAP

tag: chemical long_name

value: BPAP (Bisphenol AP)

tag: treatment

tag: well

tag: i7 index_id

value: GTGCATTAG


title: TGSA_10_158

tag: cell type

value: TGSA

value: Plate 2A index F

tag: index

value: GCAGATGCA


title: BTUM_10_157

tag: cell line

tag: chemical

value: BTUM

value: F

value: AGCAAGGTC


title: RGC314

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC310

description: Retinal ganglion cells, scRNA-seq


title: 4108_3K_plus_4K_S14

description: processed data file: S2.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 4108_3I_plus_4I_S13

description: processed data file: S2.txt


title: BPA_5_152

tag: tissue

value: breast cancer

value: BPA

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

value: ATTGGTTGC

tag: i5 index_id

value: AAGTAGGCT

tag: cas-rn

tag: iupac name


title: 4108_3O_plus_4O_S16

description: processed data file: S2.txt

tag: cell type


title: RGC313

description: Retinal ganglion cells, scRNA-seq


title: RGC315

description: Retinal ganglion cells, scRNA-seq


title: BPS-MPE_10_159

tag: cell line

value: adenocarcinoma cell line

value: BPS-MPE

tag: chemical long_name

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: GCTATCGAT

value: TAACGCGTC


title: BPAF_10_156

tag: tissue

tag: chemical

value: BPAF

value: BPAF (Bisphenol AF)

value: Plate 2A index F

value: TTCCGAATT


title: RGC317

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age


title: 4108_3G_plus_4G_S12

description: processed data file: S2.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: BTUM_5_149

tag: cell type

value: BTUM

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

value: F

tag: i5 index_id

value: AGCAAGGTC

tag: cas-rn

tag: iupac name


title: TGSA_5_150

value: breast cancer

tag: cell line

value: TGSA

tag: chemical long_name

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: GCAGATGCA


title: RGC328

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain

tag: age

value: 7-9 weeks old


title: 4108_3M_plus_4M_S15

description: processed data file: S2.txt

tag: organ

tag: cell type

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: DCDPS_10_155

value: adenocarcinoma cell line

tag: chemical

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

tag: dose

tag: batch

tag: sequencing pool

tag: technical control

value: GCTATCGAT

tag: i5 index_id

value: AAACACCTT

tag: cas-rn

tag: iupac name


title: BPC_10_154

tag: cell line

value: BPC

tag: chemical long_name

value: BPC (Bisphenol C)

tag: treatment

value: Plate 2A index F

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: ACAACCATC


title: RGC311

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age


title: BPAP_10_153

value: breast cancer

tag: chemical

value: BPAP

value: BPAP (Bisphenol AP)

tag: dose

tag: batch

tag: sequencing pool

value: F

value: GTGCATTAG


title: DCDPS_5_147

tag: technical control

value: ATTGGTTGC

tag: i5 index_id

tag: cas-rn

tag: iupac name


title: 4108_3C_plus_4C_S10

description: processed data file: S2.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: BPS-MPE_5_151

tag: cell line

value: adenocarcinoma cell line

value: BPS-MPE

tag: chemical long_name

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: TAACGCGTC


title: RGC329

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue

tag: strain

tag: age

value: 7-9 weeks old


title: RGC316

description: Retinal ganglion cells, scRNA-seq


title: BPAP_5_145

tag: chemical

tag: dose

tag: batch

value: Plate 2A index F

tag: sequencing pool

tag: technical control

tag: i5 index_id

tag: cas-rn

tag: iupac name


title: 4108_3E_plus_4E_S11

description: processed data file: S2.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: BPC_5_146

tag: cell line

value: BPC

tag: chemical long_name

value: BPC (Bisphenol C)

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: ACAACCATC


title: BPAF_5_148

tag: tissue

value: breast cancer

tag: cell type

tag: chemical

value: BPAF

value: BPAF (Bisphenol AF)

tag: dose

tag: batch

tag: sequencing pool

value: TTCCGAATT


title: 4108_1O_plus_2O_S8

description: processed data file: S2.txt

tag: organ

tag: selection marker


title: No cells; Universal human +ve control_0_381

value: No cells; Universal human +ve control

value: No cells; Universal human +ve control_0

value: Plate 2B index H

tag: technical control

value: T

value: F

value: GATAGCGGA

tag: i5 index_id

value: GATTGTGTT

tag: cas-rn

tag: iupac name


title: 4108_3A_S9

description: processed data file: S2.txt

value: Bone marrow

value: Myeloma cells

tag: time point

tag: disease stage

value: Relapse


title: BTUM_1_141

tag: cell line

value: adenocarcinoma cell line

value: BTUM

tag: chemical long_name

tag: treatment

value: Plate 2A index F

tag: reference rna

tag: solvent control

tag: well

value: TGATTAAGC

value: AGCAAGGTC


title: BPS_0.0005_195

tag: tissue

value: breast cancer

tag: cell type

tag: chemical

value: BPS

value: Bisphenol S

tag: dose

value: Plate 1B index G

tag: i7 index_id

tag: index

value: TCCTCAGCC

value: GCCGTTACA


title: 4108_1K_plus_2K_S6

description: processed data file: S2.txt

tag: organ

tag: selection marker


title: BPAP_1_137

value: BPAP

value: BPAP (Bisphenol AP)

tag: batch

tag: sequencing pool

tag: technical control

value: F

tag: i5 index_id

value: GTGCATTAG

tag: cas-rn

tag: iupac name


title: BPA_1_144

tag: cell line

value: BPA

tag: chemical long_name

tag: treatment

tag: reference rna

value: AAGTAGGCT


title: RGC319

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC330

description: Retinal ganglion cells, scRNA-seq


title: 4108_1I_plus_2I_S5

description: processed data file: S2.txt

value: Bone marrow

value: Myeloma cells

tag: time point

tag: disease stage

value: Relapse


title: 4108_1M_plus_2M_S7

description: processed data file: S2.txt

tag: organ

tag: selection marker


title: RGC331

description: Retinal ganglion cells, scRNA-seq


title: BPS-MPE_0.5_135

value: breast cancer

value: adenocarcinoma cell line

tag: chemical

value: BPS-MPE

tag: dose

tag: batch

value: Plate 2A index F

tag: sequencing pool

tag: solvent control

tag: well

tag: i7 index_id

tag: index

value: TCAGCTAAT

value: TAACGCGTC


title: BPAF_1_140

tag: cell line

value: BPAF

tag: chemical long_name

value: BPAF (Bisphenol AF)

tag: treatment

tag: technical control

tag: reference rna

value: TGATTAAGC

tag: i5 index_id

value: TTCCGAATT

tag: cas-rn

tag: iupac name


title: DCDPS_1_139

tag: tissue

tag: cell type

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

value: F

value: AAACACCTT


title: 4108_1G_plus_2G_S4

description: processed data file: S2.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: BPC_1_138

tag: chemical

value: BPC

value: BPC (Bisphenol C)

tag: dose

tag: batch

tag: sequencing pool

tag: solvent control

tag: well

value: ACAACCATC


title: TGSA_0.5_134

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

value: TGSA

tag: chemical long_name

tag: treatment

tag: technical control

tag: i7 index_id

tag: index

value: GCAGATGCA


title: BPA_0.5_136

tag: tissue

tag: cell type

value: BPA

value: Plate 2A index F

tag: reference rna

value: TCAGCTAAT

tag: i5 index_id

value: AAGTAGGCT

tag: cas-rn

tag: iupac name


title: RGC322

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BPS-MPE_1_143

tag: chemical

value: BPS-MPE

tag: dose

tag: batch

tag: sequencing pool

value: F

value: TGATTAAGC

value: TAACGCGTC


title: BTUM_0.5_133

tag: cell line

value: BTUM

tag: chemical long_name

tag: solvent control

tag: well

value: AGCAAGGTC


title: RGC323

description: Retinal ganglion cells, scRNA-seq


title: 4108_1E_plus_2E_S3

description: processed data file: S2.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC318

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue


title: BPAF_0.5_132

value: breast cancer

value: adenocarcinoma cell line

value: BPAF

value: BPAF (Bisphenol AF)

tag: treatment

tag: technical control

tag: reference rna

tag: i7 index_id

tag: index

tag: i5 index_id

value: TTCCGAATT

tag: cas-rn

tag: iupac name


title: TGSA_1_142

tag: cell line

tag: chemical

value: TGSA

tag: chemical long_name

tag: dose

tag: batch

value: Plate 2A index F

tag: sequencing pool

value: GCAGATGCA


title: DCDPS_0.5_131

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

tag: solvent control

tag: well

value: TCAGCTAAT

value: AAACACCTT


title: RGC324

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: BPC_0.5_130

value: BPC

value: BPC (Bisphenol C)

tag: treatment

tag: technical control

value: F

tag: reference rna

tag: i7 index_id

value: ACAACCATC


title: 4108_1C_plus_2C_S2

description: processed data file: S2.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 4108_1A_plus_2A_S1

description: processed data file: S2.txt


title: RGC320

description: Retinal ganglion cells, scRNA-seq


title: BPA_0.1_128

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: BPA

tag: chemical long_name

tag: dose

tag: index

value: TGCTTATTC

tag: i5 index_id

value: AAGTAGGCT

tag: cas-rn

tag: iupac name


title: RGC325

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue

tag: strain

tag: age


title: BPS-MPE_0.1_127

value: BPS-MPE

tag: treatment

tag: batch

value: Plate 2A index F

tag: sequencing pool

tag: technical control

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: TAACGCGTC


title: TGSA_0.1_126

tag: cell line

tag: chemical

value: TGSA

tag: chemical long_name

tag: dose

value: GCAGATGCA


title: BTUM_0.1_125

value: BTUM

tag: index

tag: i5 index_id

value: AGCAAGGTC

tag: cas-rn

tag: iupac name


title: BPAP_0.5_129

tag: tissue

tag: cell type

value: BPAP

value: BPAP (Bisphenol AP)

value: F

value: TCAGCTAAT

value: GTGCATTAG


title: RGC321

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: DCDPS_0.1_123

value: breast cancer

value: adenocarcinoma cell line

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

tag: treatment

tag: batch

tag: sequencing pool

tag: technical control

value: TGCTTATTC

value: AAACACCTT


title: 4108_9K-10K_S22

description: processed data file: S1.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: BPAP_0.1_121

tag: cell line

tag: chemical

value: BPAP

tag: chemical long_name

tag: dose

value: Plate 2A index F

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id


title: 4108_9M-10M_S23

description: processed data file: S1.txt

tag: cell type


title: RGC327

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain

tag: age


title: BPC_0.1_122

value: BPC

value: BPC (Bisphenol C)

tag: treatment

tag: batch

tag: sequencing pool

tag: technical control

value: F

tag: index

tag: i5 index_id

value: ACAACCATC

tag: cas-rn

tag: iupac name


title: BPS-MPE_0.01_119

tag: cell line

tag: chemical

value: BPS-MPE

tag: chemical long_name

tag: dose

value: ATTCGAATC

value: TAACGCGTC


title: 4108_9G-10G_S20

description: processed data file: S1.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: 4108_9O-10O_S24

description: processed data file: S1.txt

tag: cell type


title: 4108_9I-10I_S21

description: processed data file: S1.txt


title: BPA_0.01_120

tag: tissue

value: breast cancer

value: adenocarcinoma cell line

value: BPA

tag: treatment

tag: reference rna

tag: solvent control

tag: well

tag: i7 index_id

value: AAGTAGGCT


title: RGC333

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: TGSA_0.01_118

tag: cell line

value: TGSA

tag: batch

tag: sequencing pool

tag: technical control

tag: index

tag: i5 index_id

value: GCAGATGCA

tag: cas-rn

tag: iupac name


title: RGC332

description: Retinal ganglion cells, scRNA-seq

tag: cell type


title: 4108_9E-10E_S19

description: processed data file: S1.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: BTUM_0.01_117

tag: tissue

tag: chemical

value: BTUM

tag: chemical long_name

tag: dose

tag: treatment

value: Plate 2A index F

value: F

tag: reference rna

tag: solvent control

tag: well

value: AGCAAGGTC


title: BPAF_0.01_116

tag: cell line

value: BPAF

value: BPAF (Bisphenol AF)

tag: batch

tag: sequencing pool

tag: technical control

tag: i7 index_id

tag: index

value: ATTCGAATC

value: TTCCGAATT


title: DCDPS_0.01_115

value: breast cancer

tag: cell type

value: adenocarcinoma cell line

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

tag: i5 index_id

value: AAACACCTT

tag: cas-rn

tag: iupac name


title: RGC326

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC334

description: Retinal ganglion cells, scRNA-seq


title: BPAF_0.1_124

tag: chemical

tag: chemical long_name

tag: dose

tag: treatment

value: TGCTTATTC


title: RGC335

description: Retinal ganglion cells, scRNA-seq


title: BPC_0.01_114

tag: cell line

value: BPC

value: BPC (Bisphenol C)

tag: reference rna

tag: solvent control

tag: well

value: ACAACCATC


title: BPA_0.001_112

value: BPA

tag: batch

value: Plate 2A index F

tag: sequencing pool

tag: technical control

value: F

tag: i7 index_id

value: ATCGCGACT

value: AAGTAGGCT


title: 4108_9A-10A_S17

description: processed data file: S1.txt

tag: organ

value: Bone marrow

tag: cell type

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: BPAP_0.01_113

tag: tissue

value: breast cancer

value: adenocarcinoma cell line

tag: chemical

value: BPAP

value: BPAP (Bisphenol AP)

tag: index

value: ATTCGAATC

tag: i5 index_id

value: GTGCATTAG

tag: cas-rn

tag: iupac name


title: 4108_9C-10C_S18

description: processed data file: S1.txt


title: 4108_7O-8O_S16

description: processed data file: S1.txt


title: TGSA_0.001_110

tag: cell line

value: TGSA

tag: chemical long_name

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

value: GCAGATGCA


title: RGC336

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 4108_7M-8M_S15

description: processed data file: S1.txt

tag: organ

tag: cell type

tag: selection marker


title: BPAF_0.001_108

tag: tissue

value: BPAF

value: BPAF (Bisphenol AF)

tag: batch

value: Plate 2A index F

tag: sequencing pool

tag: technical control

value: F

tag: well

tag: i7 index_id

value: TTCCGAATT


title: RGC343

description: Retinal ganglion cells, scRNA-seq


title: DCDPS_0.001_107

tag: cell line

tag: chemical

value: DCDPS

value: Bis (4-chorophenyl) Sulfone

tag: index

value: ATCGCGACT

tag: i5 index_id

value: AAACACCTT

tag: cas-rn

tag: iupac name


title: BPAP_0.001_105

value: breast cancer

value: adenocarcinoma cell line

value: BPAP

tag: chemical long_name

value: BPAP (Bisphenol AP)

tag: dose

tag: treatment

tag: reference rna

tag: solvent control


title: 4108_7K-8K_S14

description: processed data file: S1.txt

tag: organ

value: Bone marrow

tag: cell type

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC342

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 4108_7I-8I_S13

description: processed data file: S1.txt


title: BPC_0.001_106

tag: cell line

tag: chemical

value: BPC

value: BPC (Bisphenol C)

tag: batch

value: Plate 2A index F

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

tag: index

value: ACAACCATC


title: BPA_0.0005_104

value: BPA

tag: chemical long_name

tag: dose

tag: treatment

value: F

tag: reference rna

tag: solvent control

value: TGGAACGCT

tag: i5 index_id

value: AAGTAGGCT

tag: cas-rn

tag: iupac name


title: RGC345

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue

tag: strain

tag: age


title: 4108_7G-8G_S12

description: processed data file: S1.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: BPS-MPE_0.0005_103

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: BPS-MPE

tag: batch

tag: sequencing pool

tag: technical control

tag: well

tag: i7 index_id

tag: index

value: TAACGCGTC


title: TGSA_0.0005_102

value: TGSA

tag: chemical long_name

tag: dose

tag: treatment

tag: reference rna

tag: solvent control

tag: i5 index_id

value: GCAGATGCA

tag: cas-rn

tag: iupac name


title: BTUM_0.0005_101

tag: tissue

tag: cell type

value: BTUM

value: AGCAAGGTC


title: RGC347

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC346

description: Retinal ganglion cells, scRNA-seq


title: BPS-MPE_0.001_111

tag: cell line

tag: chemical

tag: batch

value: Plate 2A index F

tag: sequencing pool

value: ATCGCGACT


title: BPAF_0.0005_100

value: BPAF

value: BPAF (Bisphenol AF)

tag: technical control

tag: well

tag: i7 index_id

tag: index

value: TTCCGAATT


title: DCDPS_0.0005_99

value: DCDPS

tag: chemical long_name

value: Bis (4-chorophenyl) Sulfone

tag: dose

tag: treatment

value: F

tag: reference rna

value: TGGAACGCT

value: AAACACCTT


title: 4108_7C-8C_S10

description: processed data file: S1.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: RGC337

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue

tag: strain

tag: age


title: 4108_7E-8E_S11

description: processed data file: S1.txt


title: BPC_0.0005_98

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

value: BPC

value: BPC (Bisphenol C)

tag: batch

tag: sequencing pool

tag: solvent control

tag: i5 index_id

value: ACAACCATC

tag: cas-rn

tag: iupac name


title: BTUM_0.001_109

value: BTUM

tag: chemical long_name

tag: dose

tag: treatment

value: Plate 2A index F

tag: technical control

tag: reference rna

tag: well

tag: i7 index_id

tag: index

value: ATCGCGACT

value: AGCAAGGTC


title: BPAP_0.0005_97

tag: tissue

tag: cell type

value: BPAP

value: BPAP (Bisphenol AP)

value: GTGCATTAG


title: RGC338

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC344

description: Retinal ganglion cells, scRNA-seq


title: No cells; media only_0_96

tag: cell line

tag: chemical

value: No cells; media only

value: No cells; media only_0

tag: batch

value: Plate 1A index E

tag: sequencing pool

value: T

value: F

value: TAGCTCTTC

value: AAGTAGGCT


title: 4108_7A-8A_S9

description: processed data file: S1.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 4108_5O-6O_S8

description: processed data file: S1.txt


title: No cells; 1X Lysis buffer_0_95

value: breast cancer

value: adenocarcinoma cell line

value: No cells; 1X Lysis buffer

tag: chemical long_name

tag: dose

tag: treatment

value: No cells; 1X Lysis buffer_0

tag: technical control

tag: solvent control

tag: i5 index_id

value: TAACGCGTC

tag: cas-rn

tag: iupac name


title: RGC339

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age


title: No cells; Brain +ve control_0_94

tag: cell line

tag: chemical

value: No cells; Brain +ve control

value: No cells; Brain +ve control_0

tag: batch

tag: sequencing pool

tag: reference rna

tag: well

tag: i7 index_id

tag: index

value: GCAGATGCA


title: RGC340

description: Retinal ganglion cells, scRNA-seq

value: 7-9 weeks old


title: 4108_5M-6M_S7

description: processed data file: S1.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: DMSO_92

value: DMSO Pool 1

tag: chemical long_name

value: DMSO 0.1%

tag: dose

tag: treatment

value: DMSO

value: Plate 1A index E

tag: technical control

value: F

tag: solvent control

value: T

tag: i5 index_id

value: TTCCGAATT

tag: cas-rn

tag: iupac name


title: 4108_5K-6K_S6

description: processed data file: S1.txt

value: Bone marrow

tag: cell type

value: Myeloma cells

value: Relapse


title: DMSO_91

tag: tissue

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

tag: chemical

tag: batch

tag: sequencing pool

tag: reference rna

value: TAGCTCTTC

value: AAACACCTT


title: DMSO_90

tag: well

tag: i7 index_id

tag: index

value: ACAACCATC


title: No cells; Universal human +ve control_0_93

value: No cells; Universal human +ve control

tag: chemical long_name

tag: dose

value: No cells; Universal human +ve control_0

value: AGCAAGGTC


title: 4108_5I-6I_S5

description: processed data file: S1.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: DMSO_89

value: DMSO Pool 1

value: DMSO 0.1%

tag: treatment

tag: technical control

tag: solvent control

tag: i5 index_id

value: GTGCATTAG

tag: cas-rn

tag: iupac name


title: Cells, no treatment_0_88

tag: tissue

tag: cell line

tag: cell type

tag: chemical

value: Cells, no treatment

value: cells, no treatment

value: Cells, no treatment_0

tag: batch

value: Plate 1A index E

tag: sequencing pool

value: F

value: GACTTCATT

value: AAGTAGGCT


title: Cells, no treatment_0_87

value: breast cancer

value: adenocarcinoma cell line

tag: chemical long_name

tag: dose

value: T

tag: reference rna

tag: well

tag: i7 index_id

tag: index

value: TAACGCGTC


title: RGC341

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 17B-estradiol_1000_85

tag: treatment

tag: technical control

tag: solvent control

tag: i5 index_id

value: AGCAAGGTC


title: 4108_5G-6G_S4

description: processed data file: S1.txt

tag: organ

value: Bone marrow

value: Myeloma cells

tag: selection marker

tag: time point

tag: disease stage

value: Relapse


title: 17B-estradiol_10000_86

tag: tissue

tag: cell line

tag: cell type

tag: chemical

tag: batch

tag: sequencing pool

value: GCAGATGCA

tag: cas-rn

tag: iupac name


title: 4108_5E-6E_S3

description: processed data file: S1.txt


title: RGC348

description: Retinal ganglion cells, scRNA-seq

tag: strain

tag: age


title: 17B-estradiol_10_83

tag: chemical long_name

tag: dose

tag: treatment

tag: technical control

tag: reference rna

tag: well

tag: i7 index_id

tag: index

value: AAACACCTT


title: RGC350

description: Retinal ganglion cells, scRNA-seq

tag: tissue


title: RGC349

description: Retinal ganglion cells, scRNA-seq

tag: cell type


title: RGC351

description: Retinal ganglion cells, scRNA-seq


title: 4108_5C-6C_S2

description: processed data file: S1.txt

tag: organ

tag: selection marker

tag: time point

tag: disease stage


title: 17B-estradiol_100_84

tag: cell line

tag: chemical

tag: batch

value: Plate 1A index E

tag: sequencing pool

tag: solvent control

tag: i5 index_id

value: TTCCGAATT

tag: cas-rn

tag: iupac name


title: BPS-MAE_100_80

value: BPS-MAE

tag: chemical long_name

tag: dose

tag: treatment

tag: technical control

value: F

tag: reference rna

tag: well

value: TGCATGACA


title: 17B-estradiol_0.1_81

tag: tissue

value: breast cancer

tag: cell type

value: adenocarcinoma cell line

tag: i7 index_id

tag: index

value: GACTTCATT

value: GTGCATTAG


title: RGC352

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age


title: 2,4-BPS_100_79

tag: cell line

tag: chemical

tag: batch

tag: sequencing pool

value: TAACGCGTC


title: 4108_5A-6A_S1

description: processed data file: S1.txt

tag: organ

value: Bone marrow

tag: selection marker

tag: time point

tag: disease stage


title: RGC359

description: Retinal ganglion cells, scRNA-seq

value: 7-9 weeks old


title: Pergafast201_100_78

tag: chemical long_name

value: Pergafast 201

tag: dose

tag: treatment

tag: technical control

tag: solvent control

tag: i5 index_id

tag: cas-rn

tag: iupac name


title: 2,4-BPF_100_77

tag: tissue

tag: cell type

value: 2,4-BPF (BPF Analog)

tag: reference rna

tag: well

tag: i7 index_id

tag: index

value: AGCAAGGTC


title: BPS_100_75

tag: cell line

tag: chemical

value: BPS

value: Bisphenol S

tag: batch

value: Plate 1A index E

tag: sequencing pool

value: AAACACCTT


title: BADGE_100_76

value: BADGE

tag: chemical long_name

tag: dose

value: F

value: TGCATGACA

value: TTCCGAATT


title: D-8_100_74

value: breast cancer

value: adenocarcinoma cell line

tag: treatment

tag: technical control

value: ACAACCATC


title: RGC360

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age


title: RGC355

description: Retinal ganglion cells, scRNA-seq

value: 7-9 weeks old


title: 4,4-BPF_100_73

value: 4,4-BPF (Bisphenol F)

tag: solvent control

tag: i5 index_id

value: GTGCATTAG

tag: cas-rn

tag: iupac name


title: 2,4-BPF_50_69

tag: tissue

tag: cell type

value: 2,4-BPF (BPF Analog)

tag: reference rna

tag: well

value: TAAGGTAGC

value: AGCAAGGTC


title: 17B-estradiol_1_82

tag: cell line

tag: chemical

value: Plate 1A index E

tag: i7 index_id

tag: index

value: GACTTCATT


title: BPS-MAE_50_72

value: BPS-MAE

tag: chemical long_name

tag: dose

tag: batch

tag: sequencing pool

value: AAGTAGGCT


title: Pergafast201_50_70

value: Pergafast 201

tag: treatment

tag: technical control

value: F

value: GCAGATGCA


title: 2,4-BPS_50_71

value: breast cancer

value: adenocarcinoma cell line

tag: solvent control

tag: i5 index_id

value: TAACGCGTC


title: AP_Recovery_3

city: Baltimore

first: Immunometabolism

last: Department

state: Maryland

address: 1650 Orleans Street

department: Immunometabolism

country: USA

institute: Johns Hopkins University

description:
Recovery after treatment
RECOVERY

data_processing:
Sequenced libraries were processed in an in-house developed RNA sequencing pipeline (Bhardwaj et al., 2019)
Raw mapped reads were processed in R (Lucent Technologies) with DESeq2 (Love et al., 2014), to determine differentially expressed genes and generate normalized read counts to visualize as heatmaps using Morpheus (Broad Institute).
Genome_build: mm10
Supplementary_files_format_and_content: raw read counts matrix containing count for every sample

source_name: Stromal vascular fraction from mesenteric adipose tissue

growth_protocol: For isolation of cells from mFAT mice were euthanised and transcardially perfused with 10ml of ice-cold PBS. mFAT was separated from mLN, intestine and omentum, minced and digested in 3ml of low glucose DMEM containing 25mM HEPES, 1% low fatty acid BSA, 2mM L-glutamine (L-glut), 100U/ml Penicillin/Streptomycin (P/S), with the addition of Liberase TL (0.2mg/ml, Roche) and DNase I (0.25mg/ml, Roche) for 30-40min in 37°C rotating. After digestion 2ml DMEM containing 2mM EDTA was added and the suspension filtered through 70um strainer. Cells in SVF were then separated from the adipocyte layer by centrifugation.

extract_protocol:
RNA isolations for mature adipocyte was done using a Trizol extraction method and for mFAT MSC using Ambion’s RNAqueous Micro Kit (Cat 1931)
Libraries were prepared using the TruSeq stranded mRNA kit (Illumina) and sequenced in a HISeq 3000 (Illumina)

treatment_protocol: All mice were maintained in specific-pathogen-free conditions in the animal facility of the Max Planck Institute for Immunobiology and Epigenetics (Freiburg, Germany), and all corresponding animal protocols were approved by the animal care committee of the Regierungspraesidium Freiburg. To induce H. polygyrus infection mice were gavage with 200 L3 infectious stage larvae in PBS. For primary infection mice were left for 11-13 days before being sacrificed. For recovery mice were orally treated with anti-helminth pyrantel pamoate (1mg/mouse) and left for 4-5 weeks. For secondary infection mice were gavaged with 200 L3 H. polygyrus at the end of recovery stage and sacrificed at 11-13 days post-secondary infection. In all the experiments mice were age and sex matched, in particular in the experiments with primary and secondary infections mice were aged matched, such that at the point of sacrifice all experimental groups of mice were at the same age.

tag: strain

tag: condition

value: Recovery

value: Mesenteric adipose

value: Stromal vascular fraction


title: RGC356

description: Retinal ganglion cells, scRNA-seq

tag: cell type

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: age

value: 7-9 weeks old


title: BPS_50_67

tag: cell line

value: BPS

value: Bisphenol S

tag: reference rna

tag: well

value: TAAGGTAGC

value: AAACACCTT

tag: cas-rn

tag: iupac name


title: RGC354

description: Retinal ganglion cells, scRNA-seq


title: AP_Recovery_2

description:
Recovery after treatment
RECOVERY


title: BADGE_50_68

tag: chemical

value: BADGE

tag: chemical long_name

tag: dose

value: Plate 1A index E

tag: i7 index_id

tag: index

value: TTCCGAATT


title: D-8_50_66

tag: treatment

tag: batch

tag: sequencing pool

tag: technical control

value: F

tag: solvent control

value: ACAACCATC


title: RGC353

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue

tag: strain


title: AP_Recovery_1

description:
Recovery after treatment
RECOVERY

tag: condition


title: AP_Secondary_3

description:
Secondary infection with H. polygyrus after primary infection is cleared
SECONDARY

value: Secondary infection


title: Pergafast201_10_62

value: breast cancer

tag: cell line

value: adenocarcinoma cell line

value: Pergafast 201

tag: reference rna

tag: well

value: TCAGTACAT

tag: i5 index_id

value: GCAGATGCA


title: RGC357

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: age


title: RGC367

description: Retinal ganglion cells, scRNA-seq

value: 7-9 weeks old


title: 2,4-BPF_10_61

tag: chemical

tag: chemical long_name

value: 2,4-BPF (BPF Analog)

tag: dose

value: AGCAAGGTC

tag: cas-rn

tag: iupac name


title: RGC361

description: Retinal ganglion cells, scRNA-seq


title: AP_Secondary_2

value: Mesenteric adipose

value: Stromal vascular fraction


title: BPS_10_59

value: BPS

value: Bisphenol S

tag: treatment

tag: batch

value: Plate 1A index E

tag: sequencing pool

tag: i7 index_id

tag: index

value: AAACACCTT


title: RGC362

description: Retinal ganglion cells, scRNA-seq

tag: cell type

tag: tissue

tag: strain


title: D-8_10_58

tag: cell line

tag: technical control

value: F

tag: reference rna

tag: solvent control

value: ACAACCATC


title: AP_Secondary_1

tag: condition

value: Secondary infection


title: RGC358

description: Retinal ganglion cells, scRNA-seq

tag: age


title: BPS-MAE_10_64

value: breast cancer

value: adenocarcinoma cell line

tag: chemical

value: BPS-MAE

tag: chemical long_name

tag: dose

tag: well

tag: i5 index_id

value: AAGTAGGCT


title: 4,4-BPF_50_65

value: 4,4-BPF (Bisphenol F)

tag: treatment

tag: batch

tag: sequencing pool

value: TAAGGTAGC

value: GTGCATTAG

tag: cas-rn

tag: iupac name


title: BPS-MAE_5_56

tag: tissue

tag: cell type

tag: i7 index_id

tag: index

value: ATTCGCTCT


title: AP_Primary_2

description:
Single infection with H. polygyrus
PRIMARY

tag: strain

value: Single infection

value: Mesenteric adipose


title: RGC364

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

value: 7-9 weeks old


title: 2,4-BPS_10_63

tag: cell line

value: Plate 1A index E

tag: technical control

tag: reference rna

tag: solvent control

value: TCAGTACAT

value: TAACGCGTC


title: AP_Primary_3

tag: condition

value: Stromal vascular fraction


title: 4,4-BPF_10_57

value: breast cancer

tag: chemical

tag: chemical long_name

tag: dose

value: F

tag: well


title: Pergafast201_5_54

value: adenocarcinoma cell line

value: Pergafast 201

tag: treatment

tag: batch

tag: sequencing pool

tag: i5 index_id

value: GCAGATGCA


title: AP_Primary_1

tag: tissue

tag: cell type


title: 2,4-BPF_5_53

value: 2,4-BPF (BPF Analog)

tag: i7 index_id

tag: index

value: AGCAAGGTC

tag: cas-rn

tag: iupac name


title: BADGE_10_60

tag: cell line

value: BADGE

tag: technical control

tag: reference rna

value: TTCCGAATT


title: BPS_5_51

tag: chemical

value: BPS

value: Bisphenol S

tag: solvent control

value: ATTCGCTCT

value: AAACACCTT


title: RGC365

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: 2,4-BPS_5_55

tag: chemical long_name

tag: dose

tag: treatment

value: Plate 1A index E

tag: well

value: TAACGCGTC


title: BADGE_5_52

tag: tissue

value: breast cancer

tag: batch

tag: sequencing pool

value: F

tag: i5 index_id


title: AP_Ctrl_3

description:
Control mice
CONTROL

tag: condition

value: Naive

value: Mesenteric adipose

tag: cell type

value: Stromal vascular fraction


title: D-8_5_50

tag: cell line

value: adenocarcinoma cell line

tag: i7 index_id

tag: index

value: ACAACCATC

tag: cas-rn

tag: iupac name


title: RGC366

description: Retinal ganglion cells, scRNA-seq

tag: strain


title: 4,4-BPF_5_49

tag: chemical

value: 4,4-BPF (Bisphenol F)

tag: technical control

tag: reference rna

tag: solvent control

value: GTGCATTAG


title: AP_Ctrl_2

description:
Control mice
CONTROL


title: BPS-MAE_1_48

value: BPS-MAE

tag: chemical long_name

tag: dose

tag: treatment

tag: well

value: ACTCATGTA

value: AAGTAGGCT


title: RGC368

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

tag: tissue

tag: age


title: 2,4-BPS_1_47

tag: cell type

tag: batch

tag: sequencing pool

tag: i5 index_id


title: 2,4-BPF_1_45

tag: cell line

value: 2,4-BPF (BPF Analog)

tag: i7 index_id

tag: index

value: AGCAAGGTC

tag: cas-rn


title: AP_Ctrl_1

description:
Control mice
CONTROL

tag: strain

tag: condition


title: BADGE_1_44

tag: chemical

value: BADGE

value: Plate 1A index E

tag: technical control

tag: reference rna

tag: solvent control

value: TTCCGAATT

tag: iupac name


title: RGC369

description: Retinal ganglion cells, scRNA-seq

tag: tissue

value: Retina

value: 7-9 weeks old


title: RGC372

description: Retinal ganglion cells, scRNA-seq

tag: age


title: BPS_1_43

value: breast cancer

tag: cell type

value: BPS

tag: chemical long_name

value: Bisphenol S

tag: dose

tag: treatment

value: F

tag: well

value: AAACACCTT


title: Pergafast201_1_46

tag: cell line

value: adenocarcinoma cell line

value: Pergafast 201

tag: batch

tag: sequencing pool

tag: i7 index_id

tag: i5 index_id

value: GCAGATGCA


title: RGC370

description: Retinal ganglion cells, scRNA-seq

tag: strain


title: RGC373

description: Retinal ganglion cells, scRNA-seq


title: 4,4-BPF_1_41

tag: chemical

value: 4,4-BPF (Bisphenol F)

tag: technical control

tag: index

value: ACTCATGTA

value: GTGCATTAG

tag: cas-rn


title: Pergafast201_0.5_38

tag: tissue

tag: reference rna

tag: solvent control

value: GTTTATACT

tag: iupac name


title: 2,4-BPS_0.5_39

tag: cell type

tag: chemical long_name

tag: dose

value: TAACGCGTC


title: D-8_1_42

tag: cell line

tag: treatment

value: Plate 1A index E

tag: well

value: ACAACCATC


title: BPS-MAE_0.5_40

value: BPS-MAE

tag: batch

tag: sequencing pool

tag: i7 index_id

value: AAGTAGGCT


title: BADGE_0.5_36

value: breast cancer

tag: chemical

value: BADGE

tag: i5 index_id

value: TTCCGAATT


title: 2,4-BPF_0.5_37

value: 2,4-BPF (BPF Analog)

tag: technical control

value: F

tag: index

value: AGCAAGGTC


title: RGC374

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

tag: tissue

value: Retina

tag: strain

tag: age

value: 7-9 weeks old


title: RGC371

description: Retinal ganglion cells, scRNA-seq


title: BPS_0.5_35

value: adenocarcinoma cell line

value: BPS

value: Bisphenol S

tag: reference rna

tag: solvent control

value: AAACACCTT

tag: cas-rn

tag: iupac name


title: D-8_0.5_34

tag: cell line

tag: cell type

tag: chemical long_name

tag: dose

value: Plate 1A index E

value: GTTTATACT


title: RGC375

description: Retinal ganglion cells, scRNA-seq


title: 4,4-BPF_0.5_33

value: 4,4-BPF (Bisphenol F)

tag: treatment

tag: batch

tag: sequencing pool

tag: well

value: GTGCATTAG


title: BPS-MAE_0.1_32

value: breast cancer

tag: chemical

value: BPS-MAE

tag: technical control

tag: i7 index_id

value: GAACTGTAT

tag: i5 index_id

value: AAGTAGGCT


title: RGC376

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain

tag: age


title: 2,4-BPS_0.1_31

value: F

tag: reference rna

tag: solvent control

tag: index

value: TAACGCGTC

tag: cas-rn


title: Pergafast201_0.1_30

tag: cell line

tag: cell type

tag: chemical long_name

value: Pergafast 201

value: GCAGATGCA

tag: iupac name


title: BADGE_0.1_28

value: BADGE

tag: dose

tag: treatment

tag: batch

tag: sequencing pool

value: TTCCGAATT


title: RGC378

description: Retinal ganglion cells, scRNA-seq

value: Retinal ganglion cells

value: Retina

value: 7-9 weeks old


title: 2,4-BPF_0.1_29

value: adenocarcinoma cell line

tag: chemical

value: 2,4-BPF (BPF Analog)

value: Plate 1A index E

tag: technical control

tag: well

tag: i7 index_id

value: AGCAAGGTC


title: RGC377

description: Retinal ganglion cells, scRNA-seq

tag: tissue

tag: strain

tag: age


title: HaCAT-siALKBH5-replicate_Input

city: Shanghai

first: Xin

last: Huang

state: China

address: zhizaoju Road 639

institute: Ninth People's Hospital affiliated to Shanghai Jiao Tong University School of Medicine

data_processing:
Raw reads were filtered by Trimmomatic.
Qualified reads were then mapped to hg38 genome using STAR.
Peak calling was performed by MetPeak package as follow:metpeak(GENE_ANNO_GTF = gtf,IP_BAM = ip,INPUT_BAM = input,EXPERIMENT_NAME = name );Cutoff:PEAK_CUTOFF_FDR=0.05, FOLD_ENRICHMENT=1 .
bed files were generated using the bedtools.
Assembly: hg38
Supplementary files format and content: bed

source_name: HaCAT

growth_protocol: HaCAT cells were maintained in DMEM (Gibco) supplemented with 10% fetal bovine serum (Gibco) and 1% P/S (Gibco) in humidified atmosphere with 5% CO2 at 37℃

extract_protocol:
Total RNA from Epidermis or HaCAT cells was extracted using Trizol reagent (15596018; Thermo Fisher Scientific, Waltham, MA). Due to the presence of m6A in DNA, total RNA was treated with DNase I (04 716 728 001; Roche Diagnostics, Indianapolis, IN) for 20 minutes at 37 ℃ to remove DNA contamination. The RNA was precipitated using magnetic beads (Thermo Fisher Scientific) according to the manufacutor's protocol. The final pellet was resuspended in ultrapure H2O.
The  library was constructed using SMARTer Stranded Total RNA-Seq Kit-version 2 （Pico Input Mammalian，Takara/Clontech，634413).

treatment_protocol: Knockdown of ALKBH5 in HaCAT cells was realized by transfection with siRNAs. Cells grown in six-well plates were transfected with 200 pmol siRNAs using lipofectamine 3000 transfection reagent (Invitrogen, L3000008) according to the manufactuer’s instructions.

value: HaCAT

value: Keratinocyte cell line

tag: genotype

value: ALKBH5 knockdown

value: Transfection of ALKBH5 knockdown siRNA

tag: anti-m6a antibody


title: D-8_0.1_26

value: breast cancer

tag: cell line

value: F

tag: reference rna

tag: solvent control

tag: index

value: GAACTGTAT

tag: i5 index_id

value: ACAACCATC

tag: cas-rn


title: RGC379

description: Retinal ganglion cells, scRNA-seq

tag: cell type


title: HaCAT-siALKBH5-replicate_IP

tag: treatment

value: ABE572, Millipore, Germany


title: 4,4-BPF_0.1_25

tag: chemical

tag: chemical long_name

value: 4,4-BPF (Bisphenol F)

tag: dose

tag: batch

tag: sequencing pool

value: GTGCATTAG

tag: iupac name