title: EAE-IL17A-LN_1_CGTACTAG_ACTGCATA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_ACTGCATA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CGTACTAG_CTCTCTAT_183

status: Public on Nov 20 2015

type: SRA

city: Berkeley

first: Nir

last: Yosef

state: CA

address: Berkeley

department: EECS

country: USA

institute: UC Berkeley

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_CTCTCTAT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011

library_source: transcriptomic

data_processing:
base calling software
RNA-seq reads were aligned to the NCBI Build 37 (UCSC mm9) of the mouse genome using TopHat (Trapnell et al., 2009). The resulting alignments were processed by Scripture (Guttman et al., 2010) to evaluate the expression of transcripts from RefSeq (Pruitt et al., 2007).
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files output by the scripture software (Guttman et al. 2010);  columns: (1--3) genomic location (4) gene name (5) RPKM

molecule: total RNA

organism: Mus musculus

source_name: EAE-LN-IL-17A/GFP+ (single cell batch 2)

growth_protocol: C57BL/6 WT and CD4-/-(2663) mice were obtained from Jackson Laboratory. IL-17A–GFP+ mice were obtained from Biocytogen. All animals, unless noted otherwise, were housed and maintained in a conventional pathogen-free facility at the Harvard Institute of Medicine in Boston. All experiments were performed in accordance to the guidelines outlined by the Harvard Medical Area Standing Committee on Animals at the Harvard Medical School.

extract_protocol:
At the peak of disease, T cells were collected from the draining LNs and the CNS. For isolation from the CNS, mice were perfused through the left ventricle of the heart with cold PBS. The brain and the spinal cord were flushed out with PBS by hydrostatic pressure. CNS tissue was minced with a sharp razor blade and digested for 20 min at 37°C with collagenase D (2.5 mg/ml; Roche Diagnostics) and DNaseI (1 mg/ml; Sigma). Mononuclear cells were isolated by passage of the tissue through a cell strainer (70 mm), followed by centrifugation through a Percoll gradient (37% and 70%). After removal of mononuclear cells, the lymphocytes were washed, stained and sorted for CD3 (Biolegend), CD4 (Biolegend), 7AAD and IL-17A-GFP+.
Cell lysis and SMART-Seq (Ramskold et al., 2012) whole transcriptome amplification (WTA) was performed on the C1 chip using the Fluidigm C1 Single-Cell Auto Prep System (C1 System) with the SMARTer Ultra Low RNA Kit for Illumina Sequencing (Clontech). WTA products were harvested from the C1 chip, and cDNA libraries were prepared using Nextera XT DNA Sample preparation reagents (Illumina) as per manufacturer’s recommendations, with minor modifications. Specifically, reactions were run at ¼ the recommended volume, the tagmentation step was extended to 10 minutes, and the extension time during the PCR step was increased from 30s to 60s. After the PCR step, all 96 samples were pooled without library normalization, cleaned twice with 0.9x AMPure XP SPRI beads (Beckman Coulter), and eluted in buffer TE. The pooled libraries were quantified using Quant-IT DNA High-Sensitivity Assay Kit (Invitrogen) and examined using a high sensitivity DNA chip (Agilent). Finally, samples were sequenced deeply using either a HiSeq 2000 or a HiSeq 2500 sequencer.

treatment_protocol: For active induction of EAE, mice were immunized by subcutaneous injection of 100 μg MOG35-55  (MEVGWYRSPFSRVVHLYRNGK) in CFA, and then received 200 ng pertussis toxin intraperitoneally (List Biological Laboratory) on days 0 and 2. Mice were monitored and were assigned scores daily for development of classical and atypical signs of EAE according to the following criteria (Jager et al., 2009): 0, no disease; 1, decreased tail tone or mild balance defects; 2, hind limb weakness, partial paralysis or severe balance defects that cause spontaneous falling over; 3, complete hind limb paralysis or very severe balance defects that prevent walking; 4, front and hind limb paralysis or inability to move body weight into a different position; 5, moribund state.

tag: strain

tag: cell type

value: CD4 T cells


title: EAE-IL17A-LN_1_CGTACTAG_AAGGAGTA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_AAGGAGTA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CGTACTAG_AGAGTAGA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_AGAGTAGA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AGGCAGAA_TAGATCGC_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AGGCAGAA_TAGATCGC_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CGAGGCTG_CTCTCTAT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGAGGCTG_CTCTCTAT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CGAGGCTG_AGAGTAGA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGAGGCTG_AGAGTAGA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AGGCAGAA_TATCCTCT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AGGCAGAA_TATCCTCT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CGAGGCTG_ACTGCATA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGAGGCTG_ACTGCATA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CAGAGAGG_AGAGTAGA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_AGAGTAGA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AGGCAGAA_AAGGAGTA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AGGCAGAA_AAGGAGTA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CAGAGAGG_TAGATCGC_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_TAGATCGC_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CAGAGAGG_CTCTCTAT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_CTCTCTAT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AAGAGGCA_TATCCTCT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_TATCCTCT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_CTCTCTAC_AGAGTAGA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CTCTCTAC_AGAGTAGA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AAGAGGCA_ACTGCATA_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_ACTGCATA_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_GGACTCCT_TATCCTCT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GGACTCCT_TATCCTCT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_TCCTGAGC_GTAAGGAG_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_TCCTGAGC_GTAAGGAG_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010

source_name: EAE-LN-IL-17A/GFP+ (single cell batch 1)


title: EAE-IL17A-LN_1_TCCTGAGC_CTCTCTAT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_TCCTGAGC_CTCTCTAT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_TCCTGAGC_CTAAGCCT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_TCCTGAGC_CTAAGCCT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_AAGAGGCA_CTCTCTAT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_CTCTCTAT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AAGAGGCA_GTAAGGAG_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_GTAAGGAG_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AAGAGGCA_CTAAGCCT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_CTAAGCCT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_GGACTCCT_TATCCTCT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GGACTCCT_TATCCTCT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_TAGGCATG_AGAGTAGA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_TAGGCATG_AGAGTAGA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_TCCTGAGC_AAGGAGTA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_TCCTGAGC_AAGGAGTA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGTACTAG_CTAAGCCT_183

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_CTAAGCCT_183
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_GCTACGCT_TATCCTCT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GCTACGCT_TATCCTCT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CTCTCTAC_TAGATCGC_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CTCTCTAC_TAGATCGC_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CTCTCTAC_TATCCTCT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CTCTCTAC_TATCCTCT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_GCTACGCT_GTAAGGAG_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GCTACGCT_GTAAGGAG_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_GCTACGCT_ACTGCATA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GCTACGCT_ACTGCATA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CTCTCTAC_AGAGTAGA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CTCTCTAC_AGAGTAGA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CTCTCTAC_AAGGAGTA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CTCTCTAC_AAGGAGTA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CTCTCTAC_CTCTCTAT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CTCTCTAC_CTCTCTAT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGTACTAG_GTAAGGAG_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_GTAAGGAG_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_GCTACGCT_AGAGTAGA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GCTACGCT_AGAGTAGA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGTACTAG_CTCTCTAT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_CTCTCTAT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGTACTAG_TATCCTCT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_TATCCTCT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGTACTAG_TAGATCGC_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_TAGATCGC_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGTACTAG_AGAGTAGA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_AGAGTAGA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_GGACTCCT_CTCTCTAT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GGACTCCT_CTCTCTAT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_GTAGAGGA_GTAAGGAG_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GTAGAGGA_GTAAGGAG_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGTACTAG_ACTGCATA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGTACTAG_ACTGCATA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_GGACTCCT_ACTGCATA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GGACTCCT_ACTGCATA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGAGGCTG_ACTGCATA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGAGGCTG_ACTGCATA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_GCTACGCT_TAGATCGC_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_GCTACGCT_TAGATCGC_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGAGGCTG_TATCCTCT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGAGGCTG_TATCCTCT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CGAGGCTG_AAGGAGTA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CGAGGCTG_AAGGAGTA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CAGAGAGG_TAGATCGC_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_TAGATCGC_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_AGGCAGAA_AAGGAGTA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AGGCAGAA_AAGGAGTA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CAGAGAGG_GTAAGGAG_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_GTAAGGAG_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_AAGAGGCA_TATCCTCT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_TATCCTCT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CAGAGAGG_AGAGTAGA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_AGAGTAGA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CAGAGAGG_ACTGCATA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_ACTGCATA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_CAGAGAGG_CTCTCTAT_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_CAGAGAGG_CTCTCTAT_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_AGGCAGAA_ACTGCATA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AGGCAGAA_ACTGCATA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TCCTGAGC_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TCCTGAGC_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011

source_name: EAE-CNS-IL-17A/GFP+ (single cell batch 2)


title: EAE-IL17A-CNS_2_TCCTGAGC_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TCCTGAGC_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AAGAGGCA_AGAGTAGA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_AGAGTAGA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-LN_1_AAGAGGCA_GTAAGGAG_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_GTAAGGAG_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TCCTGAGC_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TCCTGAGC_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAAGGCGA_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAGGCATG_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAGGCATG_AGAGTAGA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_AGAGTAGA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAAGGCGA_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAAGGCGA_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAGGCATG_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAAGGCGA_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAAGGCGA_AGAGTAGA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_AGAGTAGA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAGGCATG_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAAGGCGA_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GTAGAGGA_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GTAGAGGA_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GTAGAGGA_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-LN_1_AAGAGGCA_ACTGCATA_181

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-LN_1_AAGAGGCA_ACTGCATA_181
IL17-GFP+ T cells collected from the draining LN of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization).
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GTAGAGGA_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GTAGAGGA_TATCCTCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_TATCCTCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GTAGAGGA_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GGACTCCT_TATCCTCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GGACTCCT_TATCCTCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GCTACGCT_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GGACTCCT_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GGACTCCT_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GTAGAGGA_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GGACTCCT_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GGACTCCT_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GGACTCCT_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GGACTCCT_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GCTACGCT_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GCTACGCT_TATCCTCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_TATCCTCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CTCTCTAC_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CTCTCTAC_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GCTACGCT_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CTCTCTAC_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CTCTCTAC_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGTACTAG_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CTCTCTAC_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_GCTACGCT_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGTACTAG_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGTACTAG_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGAGGCTG_TATCCTCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_TATCCTCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGAGGCTG_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGTACTAG_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGAGGCTG_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGAGGCTG_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CTCTCTAC_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CAGAGAGG_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CGAGGCTG_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CAGAGAGG_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CAGAGAGG_AGAGTAGA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_AGAGTAGA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CAGAGAGG_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AGGCAGAA_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AGGCAGAA_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_CAGAGAGG_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AGGCAGAA_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TAAGGCGA_AAGGAGTA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_AAGGAGTA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AGGCAGAA_TATCCTCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_TATCCTCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AAGAGGCA_TAGATCGC_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_TAGATCGC_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AGGCAGAA_GTAAGGAG_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_GTAAGGAG_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AAGAGGCA_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AAGAGGCA_TATCCTCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_TATCCTCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AAGAGGCA_CTAAGCCT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_CTAAGCCT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_AAGAGGCA_CTCTCTAT_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_CTCTCTAT_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TCCTGAGC_CTAAGCCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TCCTGAGC_CTAAGCCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010

source_name: EAE-CNS-IL-17A/GFP+ (single cell batch 1)


title: EAE-IL17A-CNS_2_TCCTGAGC_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TCCTGAGC_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAGGCATG_TAGATCGC_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_TAGATCGC_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAGGCATG_CTCTCTAT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_CTCTCTAT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAGGCATG_ACTGCATA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_ACTGCATA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAGGCATG_AAGGAGTA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_AAGGAGTA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAGGCATG_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAGGCATG_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAAGGCGA_CTAAGCCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_CTAAGCCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_AGGCAGAA_ACTGCATA_184

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_ACTGCATA_184
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131011


title: EAE-IL17A-CNS_2_TCCTGAGC_ACTGCATA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TCCTGAGC_ACTGCATA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GTAGAGGA_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAAGGCGA_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAAGGCGA_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GTAGAGGA_CTAAGCCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_CTAAGCCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAGGCATG_TATCCTCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAGGCATG_TATCCTCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GCTACGCT_TAGATCGC_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_TAGATCGC_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GCTACGCT_ACTGCATA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_ACTGCATA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GCTACGCT_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GCTACGCT_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GGACTCCT_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GGACTCCT_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CTCTCTAC_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GCTACGCT_AAGGAGTA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_AAGGAGTA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CGTACTAG_TATCCTCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_TATCCTCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CGTACTAG_TAGATCGC_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_TAGATCGC_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CGTACTAG_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CTCTCTAC_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CGTACTAG_CTAAGCCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGTACTAG_CTAAGCCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CAGAGAGG_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CGAGGCTG_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CAGAGAGG_CTCTCTAT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_CTCTCTAT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CGAGGCTG_CTCTCTAT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_CTCTCTAT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GTAGAGGA_AAGGAGTA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GTAGAGGA_AAGGAGTA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CAGAGAGG_ACTGCATA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_ACTGCATA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CAGAGAGG_AAGGAGTA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_AAGGAGTA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_AGGCAGAA_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CAGAGAGG_TATCCTCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CAGAGAGG_TATCCTCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_AAGAGGCA_TAGATCGC_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_TAGATCGC_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GGACTCCT_ACTGCATA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GGACTCCT_ACTGCATA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GGACTCCT_TAGATCGC_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GGACTCCT_TAGATCGC_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_GCTACGCT_CTCTCTAT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_GCTACGCT_CTCTCTAT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_CTCTCTAC_CTCTCTAT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CTCTCTAC_CTCTCTAT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC95_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC95_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124

source_name: EAE-CNS-IL-17A/GFP+ (single cell batch 4)


title: EAE-IL17A-CNS_2_AAGAGGCA_AAGGAGTA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_AAGGAGTA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_TAAGGCGA_TAGATCGC_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_TAAGGCGA_TAGATCGC_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_2_AAGAGGCA_GTAAGGAG_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_GTAAGGAG_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC9_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC9_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC89_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC89_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC88_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC88_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC85_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC85_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC80_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC80_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC84_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC84_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_2_AGGCAGAA_TAGATCGC_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AGGCAGAA_TAGATCGC_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC78_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC78_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC77_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC77_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC73_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC73_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC71_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC71_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC87_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC87_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC7_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC7_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_2_AAGAGGCA_AGAGTAGA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_AGAGTAGA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC96_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC96_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC66_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC66_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC93_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC93_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC69_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC69_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC70_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC70_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC72_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC72_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC63_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC63_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC65_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC65_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC61_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC61_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC62_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC62_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC68_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC68_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC86_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC86_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC57_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC57_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC79_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC79_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC56_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC56_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_2_AAGAGGCA_CTAAGCCT_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_AAGAGGCA_CTAAGCCT_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC41_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC41_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC46_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC46_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC49_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC49_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC5_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC5_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC3_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC3_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC31_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC31_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC50_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC50_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC27_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC27_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC64_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC64_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_2_CGAGGCTG_AAGGAGTA_182

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_2_CGAGGCTG_AAGGAGTA_182
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 131010


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC35_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC35_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC55_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC55_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC52_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC52_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC39_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC39_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC42_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC42_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC34_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC34_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC45_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC45_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC29_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC29_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC25_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC25_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC26_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC26_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC23_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC23_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC20_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC20_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC2_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC2_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: WT_repeat1

city: Cambridge

first: Xiaowei

last: Zhuang

state: MA

address: 12 Oxford St

department: Chemistry and Chemical Biology

institute: Harvard University

data_processing:
Reads in each sample were aligned to dm3 using bowtie2 and refernce annotation based transcriptome assembly was performed with Cufflinks2.1.
Genome_build: dm3

organism: Drosophila melanogaster

source_name: Kc167 Cells

growth_protocol: Kc167 cells were grown in Schneider's insect medium with 10% heat-inactivated FBS.

extract_protocol:
Total RNA was extracted using the Qiagen Rneasy mini kit (74104)
RNA-sequencing libraries were constructed using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina (E7420S)

treatment_protocol: Cells washed in PBS and then resuspended in serum free medium. 1 mL of cells was plated per well of a 6-well dish, and 30 ug of dsRNA against ph-p and 30 ug against ph-d was added to the medium of knockdown-cells.  Wildtype control cells were treated with water.  After 50 minutes, 3 mL of fresh medium containing 12.5% FBS was added to the wells. Cells were grown for 4 days and then harvested.

tag: genotype/variation

value: wild type


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC18_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC18_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: WT_repeat2


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC17_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC17_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: LPL-IL17A/GFP+ (population, rep1)

description:
Gaublomme_et_al_2015_populations_invivo_LPL_LPL_IL17A_1
sample date (yymmdd): 150624

data_processing:
base calling software
RNA-seq reads were aligned to the NCBI Build 37 (UCSC mm9) of the mouse genome using TopHat (Trapnell et al., 2009). The resulting alignments were processed by Cufflinks to evaluate the expression of transcripts from RefSeq.
Genome_build: mm9
Supplementary_files_format_and_content: Tab delimited text. Standard cufflinks output with columns for: (tracking_id, class_code, nearest_ref_id, gene_id, gene_short_name, tss_id, locus, length, coverage, FPKM, FPKM_conf_lo, FPKM_conf_hi, FPKM_status)

source_name: CD4 T cells

extract_protocol:
Cells were washed, stained and sorted for CD3 (Biolegend), CD4 (Biolegend), 7AAD and IL-17A-GFP+.
population controls were generated by extracting total RNA using a RNeasy plus Micro RNA kit (Qiagen) according to manufacturer’s recommendations. Subsequently, 1 μL of RNA in water was added to 2  μL of lysis reaction mix, thermocycled using cycling conditions I described in Supplementary Experimental Procedures in corresponding publication. Next, 4  μL of the RT Reaction Mix were added, and the mixture was thermocycled using cycling conditions II. Finally, 1  μL of the total RT reaction was added to 9 μL of PCR mix, and that mixture was thermocycled using cycling conditions III. Products were quantified, diluted to 0.125 ng/ μL, and libraries were prepared, cleaned, and tested as described in Supplementary Experimental Procedures in corresponding publication.

treatment_protocol: Cells were isolated from the lamina propria of the large intestine from 3-6 month old IL-17GFP KI mice using Miltenyi Biotec Lamina Propria Dissociation kit following the manufacturer's protocol (Militenyi Biotec, Calfornia


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC10_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC10_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC11_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC11_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: PhKD_repeat1

value: ph-p,ph-d knockdown


title: EAE-LN-IL17A/GFP+ (population, rep1)

description: Gaublomme_et_al_2015_populations_invivo_EAE-IL17A-LN_1

extract_protocol:
At the peak of disease (EAE), T cells were collected from the draining LNs and the CNS. For isolation from the CNS, mice were perfused through the left ventricle of the heart with cold PBS. The brain and the spinal cord were flushed out with PBS by hydrostatic pressure. CNS tissue was minced with a sharp razor blade and digested for 20 min at 37°C with collagenase D (2.5 mg/ml; Roche Diagnostics) and DNaseI (1 mg/ml; Sigma). Mononuclear cells were isolated by passage of the tissue through a cell strainer (70 μm), followed by centrifugation through a Percoll gradient (37% and 70%). After removal of mononuclear cells, the lymphocytes were washed, stained and sorted for CD3 (Biolegend), CD4 (Biolegend), 7AAD and IL-17A-GFP+.
Population controls were generated by extracting total RNA using a RNeasy plus Micro RNA kit (Qiagen) according to manufacturer’s recommendations. Subsequently, 1 μL of RNA in water was added to 2  μL of lysis reaction mix, thermocycled using cycling conditions I described in Supplementary Experimental Procedures in corresponding publication. Next, 4  μL of the RT Reaction Mix were added, and the mixture was thermocycled using cycling conditions II. Finally, 1  μL of the total RT reaction was added to 9 μL of PCR mix, and that mixture was thermocycled using cycling conditions III. Products were quantified, diluted to 0.125 ng/ μL, and libraries were prepared, cleaned, and tested as described in Supplementary Experimental Procedures in corresponding publication.


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC12_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC12_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: PhKD_repeat2


title: EAE-LN-IL17A/GFP+ (population, rep3)

description: Gaublomme_et_al_2015_populations_invivo_EAE-IL17A-LN_3


title: TOSO-KO-IL1B_IL6_IL23-96h (population, rep2)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-KO-B623-96-2
sample date (yymmdd): 140219

growth_protocol: C57BL/6 WT and CD4-/-(2663) mice were obtained from Jackson Laboratory. IL-17A–GFP+ mice were obtained from Biocytogen. All animals, unless noted otherwise, were housed and maintained in a conventional pathogen-free facility at the Harvard Institute of Medicine in Boston. All experiments were performed in accordance to the guidelines outlined by the Harvard Medical Area Standing Committee on Animals at the Harvard Medical School. In addition, spleens and lymph nodes from GPR65−/− mice were provided by Li Yang (IACUC protocol: J195b), originally generated by Dr. Owen Witte. PLZP−/− mice were provided by Pier Paolo Pandolfi at the Beth Israel Deaconess Medical Center (IACUC protocol: 082-2014), and TOSO−/− mice were generously provided by John Coligan at the National Institute of Allergy and Infectious Diseases.

treatment_protocol: CD4+ T cells were purified from spleen and LNs using anti-CD4 microbeads (Miltenyi Biotech) and then stained in PBS with 1% FCS for 20 min at room temperature with anti-CD4-PerCP, anti-CD62L-APC and anti-CD44-PE antibodies (all Biolegend). Naive CD4+CD62lhighCD44low T cells were sorted using a BD FACSAria cell sorter, or provided by collaborator as sorted cells, shipped on ice overnight. Sorted cells were activated with plate-bound anti-CD3 (2 μg/ml) and anti-CD28 (2 μg/ml) in the presence of cytokines. For Th17 differentiation, the following reagents were used: 2 ng/ml recombinant human TGF-β1 (Miltenyi Biotec), 25 ng/ml recombinant mouse IL-6 (Miltenyi Biotec), 20 ng/ml recombinant mouse IL-23 (R&D Biosystems) and 20 ng/ml recombinant mouse IL-1β (Miltenyi Biotec).


title: EAE-CNS-IL17A/GFP+ (population, rep2)

description: Gaublomme_et_al_2015_populations_invivo_EAE-IL17A-CNS_2


title: MATa HiC Rep2

city: Worcester

first: Bryan

middle: R

last: Lajoie

address: 368 Plantation St.

department: Program in Systems Biology

institute: UMMS

description:
library strategy: Hi-C
yHiC-yJB2__sk1-rmv__genome__H-10000-iced.matrix.gz-n2r.txt
yHiC-yJB2-R2___yHiC-yJB2-R4.log2ratio.matrix.gz
yHiC-yJB2-R2___yHiC-yJB2-R4.subtract.matrix.gz
yHiC-yJB2-R4

library_source: genomic

data_processing:
[Hi-C, mapping] Iterative mapping and error correction of the chromatin interaction data were performed as previously described (Imakaev, M. et al. Iterative correction of Hi-C data reveals hallmarks of chromosome organization. Nat. Methods 9, 999-1003, doi:10.1038/nmeth.2148 (2012))
[Hi-C normalization] The total read count for each library was normalized to a common value
[Hi-C, comparisons] subtractions and log2 ratios were performed
[5C, mapping] fastq files were mapped to the 5C probe pool using our in-house 5C mapping pipeline.  Each side of the paired-end reads was mapped independently to the 5C probe pool using the novoalign mapping software (V2.05 novocraft.com) and 5C interactions were assembled from those paired end reads where both sides mapped uniquely to a single 5C primer of opposite type (forward-reverse or reverse-forward).  Since our experiments were carried out using strains which have a different background than that for which the probes were designed to, we lifted the probe coordinates over to the correct genome assembly.  For SK1 the 5C probes were aligned to the SK1 genome produced by Scott Keeney’s Group (http://cbio.mskcc.org/public/SK1_MvO/) using the BLAST command line tool blastall (http://www.ncbi.nlm.nih.gov/staff/tao/URLAPI/blastall/) using the blastn program and a 20bp word size.  This genome assembly contained what appeared to be a 29,701bp translocation from chromosome XI inserted at position 3,623 in the left arm of Chr. III.  Our 5C data did not show evidence for a large insertion in Chr. III.  Therefore this region of the assembly is likely an assembly error so we manually removed this region from the SK1 genomic sequence (chrIII:3,623-33,324).Once the probes were aligned to the genome they were manually curated to remove those which blasted to the wrong chromosome or to multiple chromosomes.  Probes were also filtered if they no longer aligned adjacent to a HindIII restriction site in the SK1 genome. Finally, since the length of the rDNA on the right arm of chromosome XII contains many copies of the rDNA repeats which could, in reality be up to 2Mbps of DNA, we decided to treat the left and right portions of chromosome XII as separate chromosome in our analysis.  We did this by changing the chromosome name of these probes to the right of the rDNA to chr12R and restarting the coordinates at 0.  The procedure for mapping to the 5C datasets from the strains used for the microscopy experiments (Supplemental Figure S8) was the same as for mapping to the SK1 genome, except that the W303 genome.
[5C, filtering] Prior to correcting the 5C counts using the Iterative Correction algorithm it was necessary to filter the data of any outliers.  First, the 70kb around Centromere-centromere and telomere-telomere interactions were removed to prevent from filtering high 5C counts from these regions which are known to interact and thus will have a higher signal than expected.  Then single data points which were greater than or equal to 7 standard deviations from the local mean, based on genomic distance, were removed for intra-chromosomal interactions.  For inter-chromosomal interactions a cutoff of 8 standard deviations from the mean of the inter-quartile (25%-50%) were removed.  Finally, we removed the highest and lowest 7.5% (15% total) of rows and columns from the dataset which were determined by summing all of the inter-chromosomal interactions for each 5C fragment.  The centromeres and telomeres were replaced and used for all further correction/analysis. The data was binned into 10kb x 10kb bins.  The median of the interactions in each 10kb x 10kb region was used to represent that region.  The iterative correction algorithm assumes that all bins should have the same sum of interactions.  This assumption is valid when genome wide Hi-C data is being considered.  However, the 5C design is comprehensive enough to approximate this assumption.  The row and column sums were calculated for each 10kb bin.  Then each row and column was multiplied by a factor that would raise or lower its sum to match the average of all the sums.  This was done iteratively until the row and column sums deviated very little from each other.  Figure S3 shows the sums of each row in the dataset before and after applying the iterative correction algorithm.
[5C, comparisons] In order to call significant differences between pairs of 5C datasets, we tested for the difference in the ranks of interaction frequencies obtained between two pairs of genomic regions.  To this end, we first bin the 5C data into 30Kb by 30Kb bins that overlap each other by 10Kb.  For each of these bins we pool all 5C interactions that fall within it across the three biological replicates for that strain.  We use this list of pooled values for the first strain and perform a two-tailed rank sum test with the list of corresponding values for the second strain.  We correct for multiple testing and plot the log2 of the median of strain 1 divided by the median of strain 2 for that bin in the heat map if the corrected p-value from the test between these two bins is less than or equal to a 5% FDR.Filtering, correction, and normalization of 5C data. Prior to correcting the 5C counts using the Iterative Correction algorithm it was necessary to filter the data of any outliers.  First, the 70kb around Centromere-centromere and telomere-telomere interactions were removed to prevent from filtering high 5C counts from these regions which are known to interact and thus will have a higher signal than expected.  Then single data points which were greater than or equal to 7 standard deviations from the local mean, based on genomic distance, were removed for intra-chromosomal interactions.  For inter-chromosomal interactions a cutoff of 8 standard deviations from the mean of the inter-quartile (25%-50%) were removed.  Finally, we removed the highest and lowest 7.5% (15% total) of rows and columns from the dataset which were determined by summing all of the inter-chromosomal interactions for each 5C fragment.  The centromeres and telomeres were replaced and used for all further correction/analysis.  The data was binned into 10kb x 10kb bins.  The median of the interactions in each 10kb x 10kb region was used to represent that region.  The iterative correction algorithm assumes that all bins should have the same sum of interactions.  This assumption is valid when genome wide Hi-C data is being considered.  However, the 5C design is comprehensive enough to approximate this assumption.  The row and column sums were calculated for each 10kb bin.  Then each row and column was multiplied by a factor that would raise or lower its sum to match the average of all the sums.  This was done iteratively until the row and column sums deviated very little from each other.  Figure S3 shows the sums of each row in the dataset before and after applying the iterative correction algorithm.  The 5C data for each dataset was first normalized to a standard read depth.  Each interaction in the dataset was calculated as a percentage of the total number of reads for the dataset.  This percentage was then multiplied by the arbitrary value of 1,000,000. Finally, 5C data was normalized relative to the expected value for pairs of loci separated by a give genomic distance (as decribed in (Sanyal et al., 2012)). This distance-dependent expected value was calculated using the ârobust lowessâsmoothing method which takes an âoutlier filteredâ weighted average across a percentage of the data (here we used 5%) for each genomic distance.    #5C data analysis.  In order to call significant differences between pairs of 5C datasets, we tested for the difference in the ranks of interaction frequencies obtained between two pairs of genomic regions.  To this end, we first bin the 5C data into 30Kb by 30Kb bins that overlap each other by 10Kb.  For each of these bins we pool all 5C interactions that fall within it across the three biological

molecule: genomic DNA

organism: Saccharomyces cerevisiae

source_name: MATa HiC

growth_protocol: Yeast from glycerol stocks were streaked out onto agar plates with the appropriate media and incubated at 30°C.  Three colonies were picked and grown over night in a 6ml culture of the appropriate media at 30°C while shaking at 250 RPM.  The culture was backed down to an OD600 of 0.2 in 100ml of media and grown over night at 30°C with shaking.  The culture was diluted to an OD600 of 0.2 in 400ml of media and incubated to mid-log phase at 30˚C with shaking.

extract_protocol:
Crosslinked cells were lysed by grinding in a cold mortar and pestle
[Hi-C] The yeast culture was crosslinked with 37% formaldehyde to a final concentration of 3% in the culture media for 20 min at 25˚C.  The crosslinking was quenched by adding 2X the volume of formaldehyde used of 2.5M Glycine to the culture and incubated culture for 5 min at 25˚C.  Cells were lyses by grinding in a cold mortar and pestle.  The chromatin was solubilized by adding 1% w/v SDS and Incubating at 65˚C water bath for 10 min.  Excess SDS was quenched using 10% v/v Triton X-100.  The chromatin was digested with HindIII at 37˚C overnight in a water bath.  Digested ends were filled in with biotin-14-dCTP with Klenow at 37˚C for 2 hr in a water bath.  The klenow was inactivated by Incubating in a 65˚C water bath for 20 min.  Crosslinked and digested fragments were ligated together in a dilute reaction inorder to favor intra-molecular ligation in a 16˚C water bath for 8 hr.  Crosslinkes were reversed by incubating the ligation mixture with proteinase K in a 65˚C water bath.  Ligation products were purified with phenol (pH 8.0):chloroform and precipitated with sodium acetate pH 5.2 and ethanol.  The precipitated DNA was resuspended in 1X TE and then the DNA was re-extracted with phenol (pH 8.0):chloroform and precipitated with sodium acetate pH 5.2 and ethanol.  The DNA pellet was dried thoroughly and excess salt was washed out of the solution using an amicon 30kDa spin column using 1X TE.  Then the sample was concentrated using a 30kDa amicon column.  RNA was degrade using DNase free RNase A at 37˚C for 1 hr.  The Hi-C library was quantified on a 0.8% agarose gel in 0.5X TBE by comparing it to known concentration standards.  The Hi-C efficiencey was accessed by first PCR amplifing a neighboring interaction in the Hi-C library.  This amplicon was split and the aliquots were digested with either HindIII, NheI, or HindIII and NheI at 37˚C overnight.  The digested products were quantified on a gel and the percent Hi-C efficiency was calculated as the percent digested with NheI divided by the percent digested in the NheI and HindIII combined reaction.  Biotin was removed from un-ligated ends using T4 DNA polymerase at 20˚C for 4hrs and then at 75˚C for 20 min to inactivate the enzyme. The DNA was sheared to 50-700bp using the Covaris S2 sonicator. The DNA ends were repaired using T4 DNA Polymerase, T4 Polynucleotide Kinase, and Klenow fragment of DNA Polymerase I at 20˚C for 30 min.  The DNA was purified with one Qiagen MinElute Column.  A dATP was added to the 3’ end of the molecules by using Klenow Fragment (exo-) at 37˚C for 30 min and then at 65˚C for 20 min to inactivate the enzyme.  The end repaired and A-tailed library was fractionated to 100-300bp using 0.9x and then 1.1x ampure XP extractions.  For each 1.0 ng of biotinylated ligation products, 1.0 µl of Dynabeads MyOne Strepavidin C1 beads were used to enrich the library.  Illumina PE adapters were ligated to the library using NEB Quick Ligase at room temperature for 15 min.  The library was amplified using Illumina primers PE1.0 and PE2.0 for as few cycles as possible.  Cycle number was determined by a titration experiment that revealed which cycle would produce enough library for sequencing but didn’t produce higher molecular weight artifacts.  The library was purified once more with 1.8x Ampure XP to remove primers and primer dimers.  The final library was quantified on a bioanalyzer.  The libraries were sequenced on either the GAII or HiSeq platforms.
[5C] The yeast culture was crosslinked with a final volume of 3% formaldehyde (37% w/v, Fisher, Catalog #: BP531-500) in the culture media at 25˚C for 20mins with shaking.  The remaining formaldehyde was quenched with an excess of 2.5M glycine.  The yeast cells were harvested by centrifugation and lysed by grinding with a mortar and pestle in the presence of liquid nitrogen.  The chromatin was digested with HindIII (NEB, R0104S) and the resulting crosslinked restriction fragments were ligated with T4 DNA polymerase (Invitrogen, 15224-090) in a dilute reaction so that intra-molecular ligation was favored.  The crosslinking was reversed by incubating overnight at 65˚C in the presence of proteinase K (Invitrogen, 25530-015).  The chimeric DNA molecules were purified with a series of phenol:chloroform pH 8.0 (1:1) extractions and precipitated with 100% cold ethanol and 3M sodium acetate pH 5.2.  The RNA was degraded with RNase A (Roche, Catalog #: 10109169001) and the yield was quantified using molecular weight standards run on an agarose gel.  3C-PCR was performed on all 3C libraries with 3C PCR primers which represent a variety of genomic distances.  Libraries which showed the characteristic, exponential decay of 3C-PCR product abundance relative to genomic distance passed quality control.  For one 5C reaction, 4 million genome copies (53.3ng) worth of 3C library were mixed with 1fmol of each of the 5C probes in a 40 µl reaction.  The reaction was heated to 95˚C for 9mins to melt the DNA, then slowly cooled to 55˚C to allow for the 5C probes to anneal to the 3C ligation products for a minimum of 4hrs and a maximum of 16hrs.  The annealed probes were then ligated together using Taq DNA Ligase (New England Biolabs, M0208S) at 55˚C for 1hr.  The 5C products were amplified with a high fidelity polymerase (Amplitaq Gold, Life technologies, 4398813) and 1.6µM of each of the universal primers (Universal_forward: 5’ -/5Phos/CCTCTCTATGGGCAGTCGGTGAT – 3’, Universal_reverse: 5’ – /5Phos/CTGCCCCGGGTTCCTCATTCTCT – 3’).  Five 5C reactions for a total of 20 million genome copies were used to produce each 5C library.  The Illumina Paired-end sequencing adapters and primers were used to add the Illumina Paired-end sequences to the 5C molecules in order to prepare them for sequencing on either the Illumina GAII or HiSeq platforms.

tag: genotype

value: MATa, ho::LYS2, lys2, ura3, nuc1D::LEU2, pGAL::HO::URA3

tag: media

value: -ura

tag: tag


title: LPL-IL17A/GFP+ (population, rep2)

description:
Gaublomme_et_al_2015_populations_invivo_LPL_LPL_IL17A_2
sample date (yymmdd): 150624


title: MATalpha 5C Rep2 (microscopy)

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_w303-YKB10-R2

source_name: MATalpha 5C

value: MATalpha, ade2-1, can1-100, his3-11 & 15, leu2-3 & 112, trp1-1, ura3-1, ade2-1::His3p-CFP-lacI-Ura3p-LambdacI-YFP-ADE2, YGL117::TetR-mRFP-NAT1, MAT5'(ChrIII:197205-197318)::LambdaO-His, HMR(ChrIII:294898-295245)::LacO-TRP, HML(ChrIII:15160-15772)::TetO-LEU

value: YPAD


title: MATalpha HiC Rep1

description:
library strategy: Hi-C
yHiC-yJB1__sk1-rmv__genome__H-10000-iced.matrix.gz-n2r.txt
yHiC-yJB1-R1___yHiC-yJB1-R4.log2ratio.matrix.gz
yHiC-yJB1-R1___yHiC-yJB1-R4.subtract.matrix.gz
yHiC-yJB1-R1

source_name: MATalpha HiC

value: MATalpha, ho::LYS2, lys2, ura3, nuc1D::LEU2, pGAL::HO::URA3


title: MATalpha HiC Rep2

description:
library strategy: Hi-C
yHiC-yJB1__sk1-rmv__genome__H-10000-iced.matrix.gz-n2r.txt
yHiC-yJB1-R1___yHiC-yJB1-R4.log2ratio.matrix.gz
yHiC-yJB1-R1___yHiC-yJB1-R4.subtract.matrix.gz
yHiC-yJB1-R4


title: MATalpha 5C Rep1 (microscopy)

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_w303-YKB10-R1


title: MATa 5C Rep3 (microscopy)

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_w303-YKB9-R3

source_name: MATa 5C

value: MATa, ade2-1, can1-100, his3-11 & 15, leu2-3 & 112, trp1-1, ura3-1, ade2-1::His3p-CFP-lacI-Ura3p-LambdacI-YFP-ADE2, YGL117::TetR-mRFP-NAT1, MAT5'(ChrIII:197205-197318)::LambdaO-His, HMR(ChrIII:294898-295245)::LacO-TRP, HML(ChrIII:15160-15772)::TetO-LEU


title: TOSO-KO-TGFB1_IL6-96h (population, rep2)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-KO-T16-96-2
sample date (yymmdd): 140219


title: MATalpha 5C Rep3 (microscopy)

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_w303-YKB10-R3


title: TOSO-KO-No_cytokines_added-96h (population, rep2)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-KO-Th0-96-2
sample date (yymmdd): 140219


title: EAE-IL17A-CNS_130124_CNS_IL17a_SC75_58

description:
Gaublomme_et_al_2015_single-cells_EAE-IL17A-CNS_130124_CNS_IL17a_SC75_58
IL17-GFP+ T cells collected from the CNS of EAE-induced mice. Cells were colected at the peak of disease (14 days post immunization)
sample date (yymmdd): 130124


title: TOSO-WT-IL1B_IL6_IL23-96h (population, rep2)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-WT-B623-96-2
sample date (yymmdd): 140219


title: MATa deltaRE_whole 5C Rep3

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_SK1v3-yJB24-R3

source_name: MATa deltaRE_whole 5C

value: MATa, ho::LYS2, lys2, ura3, nuc1D::LEU2, pGAL::HO::URA3,RE_whole::KanMX6


title: MATa 5C Rep2 (microscopy)

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_w303-YKB9-R2


title: EAE-CNS-IL17A/GFP+ (population, rep3)

description: Gaublomme_et_al_2015_populations_invivo_EAE-IL17A-CNS_3


title: EAE-CNS-IL17A/GFP+ (population, rep1)

description: Gaublomme_et_al_2015_populations_invivo_EAE-IL17A-CNS_1


title: TOSO-WT-TGFB1_IL6-96h (population, rep2)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-WT-T16-96-2
sample date (yymmdd): 140219


title: TOSO-WT-No_cytokines_added-96h (population, rep2)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-WT-Th0-96-2
sample date (yymmdd): 140219


title: TOSO-KO-IL1B_IL6_IL23-96h (population, rep1)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-KO-B623-96-1
sample date (yymmdd): 140219


title: TOSO-KO-No_cytokines_added-96h (population, rep1)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-KO-Th0-96-1
sample date (yymmdd): 140219


title: MATa deltaRE_whole 5C Rep2

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_SK1v3-yJB24-R2

value: MATa, ho::LYS2, lys2, ura3, nuc1D::LEU2, pGAL::HO::URA3,RE_whole::KanMX5


title: MATa deltaRE_whole 5C Rep1

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_SK1v3-yJB24-R1

value: MATa, ho::LYS2, lys2, ura3, nuc1D::LEU2, pGAL::HO::URA3,RE_whole::KanMX4


title: TOSO-WT-IL1B_IL6_IL23-96h (population, rep1)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-WT-B623-96-1
sample date (yymmdd): 140219


title: MATa 5C Rep1 (microscopy)

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_w303-YKB9-R1


title: TOSO-KO-TGFB1_IL6-96h (population, rep1)

description:
Gaublomme_et_al_2015_populations_invitro_knockouts_TOSO-KO-T16-96-1
sample date (yymmdd): 140219


title: MATalpha deltaRE_whole 5C Rep3

description:
library strategy: 5C
supplemental_table_3_5Cprobes_mapped_and_filtered_to_SK1.xlsx
supplemental_table_4_5Cprobes_mapped_and_filtered_to_w303.xlsx
supplemental_table_S1_all5Cprobes.xlsx
supplemental_readme.txt
significant_differences_1repVs1rep.tar.gz
significant_differences_3repVs3rep.tar.gz
y3512LR_SK1v3-yJB23-R3

source_name: MATalpha deltaRE_whole 5C

value: MATalpha, ho::LYS2, lys2, ura3, nuc1D::LEU2, pGAL::HO::URA3,RE_whole::KanMX6