title: E10.5_VPR_Pdx1-pos_2_09

description:
Sample 277
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_08

status: Public on Jul 23 2018

type: SRA

city: Beijing

first: Cheng-ran

last: Xu

address: NO.5 YIHEYUAN ROAD HAIDIAN DISTRICT, BEIJING, P.R.CHINA

department: School of Basic Medical Sciences

country: China

institute: Peking University

description:
Sample 276
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz

library_source: transcriptomic

data_processing:
Bulk-cell RNA-seq (Sample 001-016)
Sequencing reads were aligned to the Mus musculus reference genome GRCm38/mm10 using TopHat (v2.1.0) with parameter "-o out_dir -G gtf --transcriptome-index trans_index bowtie2_index input_fastq1 input_fastq2".
Reads aligned to genes were counted by HTSeq (v 0.6.0) with parameters "-f bam -r pos -s reverse -a 30".
Reads of biological replicates were pooled.
Gene expression levels were quantified as reads per kilobase of longest transcript per million mapped reads (RPKM).
Single-cell RNA-seq (Sample 023-541, 568-586, 607-631, 671-674)
Sequencing reads were aligned to the Mus musculus reference genome GRCm38/mm10 using TopHat (v2.1.0) with parameter "-o out_dir -G gtf --transcriptome-index trans_index bowtie2_index input_fastq".
Reads aligned to genes were counted by HTSeq (v 0.6.0) with parameters "-f bam -r pos -s no -a 30".
Gene expression levels were quantified as reads per kilobase of longest transcript per million mapped reads (RPKM).
Genome_build: mm10
Supplementary_files_format_and_content: values tab-delimited text files include read count and RPKM values for each sample

molecule: total RNA

organism: Mus musculus

source_name: Ventral Pdx1-expression region

extract_protocol:
Bulk-cell RNA-seq (Sample 001-016)
For E10.5, E14.5 and E17.5 dorsal and ventral pancreases, a total of 5-7 x 10e4 sorted cells were used to isolate total RNA using the Rneasy Micro Kit (Qiagen, 74004). Poly(A) RNA was further purified with the NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB #E7490).
Libraries were prepared using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina (NEB #E7420) according to the manufacturer's instructions.
Single-cell RNA-seq (Sample 023-541, 568-586, 607-631, 671-674)
Libraries were prepared according the Smart-seq2 method as previously reported (Picelli et al., 2014).
2 ng cDNA were subjected to prepare the libraries using the TruePrep DNA Library Prep Kit (TD502, Vazyme).

tag: embryonic day

tag: culture time

tag: treatment

tag: sorting


title: E10.5_VPR_Pdx1-pos_2_07

description:
Sample 275
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_06

description:
Sample 274
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_5_01

description:
Sample 401
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz

source_name: Dorsal Pdx1-expression region


title: E10.5_VPR_Pdx1-pos_2_05

description:
Sample 273
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_04

description:
Sample 272
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_31

description:
Sample 266
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_32

description:
Sample 267
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_03

description:
Sample 271
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_01

description:
Sample 269
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_33

description:
Sample 268
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_02

description:
Sample 270
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_30

description:
Sample 265
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_28

description:
Sample 263
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_16

description:
Sample 284
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_14

description:
Sample 282
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_29

description:
Sample 264
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_2_10

description:
Sample 278
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_27

description:
Sample 262
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_24

description:
Sample 259
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_17

description:
Sample 252
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_26

description:
Sample 261
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_22

description:
Sample 257
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_20

description:
Sample 255
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_18

description:
Sample 253
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_21

description:
Sample 256
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_19

description:
Sample 254
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_13

description:
Sample 248
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_16

description:
Sample 251
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_14

description:
Sample 249
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_11

description:
Sample 246
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_12

description:
Sample 247
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_10

description:
Sample 245
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_09

description:
Sample 244
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_07

description:
Sample 242
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_08

description:
Sample 243
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_06

description:
Sample 241
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_23

description:
Sample 258
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_05

description:
Sample 240
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_25

description:
Sample 260
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_04

description:
Sample 239
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_01

description:
Sample 236
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_15

description:
Sample 250
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_3_02

description:
Sample 231
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_3_04

description:
Sample 233
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_03

description:
Sample 238
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_3_06

description:
Sample 235
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_3_03

description:
Sample 232
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_3_05

description:
Sample 234
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_2_01

description:
Sample 226
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_2_04

description:
Sample 229
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_2_03

description:
Sample 228
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_07

description:
Sample 221
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_3_01

description:
Sample 230
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_10

description:
Sample 224
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_05

description:
Sample 219
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_06

description:
Sample 220
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-pos_1_02

description:
Sample 237
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_04

description:
Sample 218
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_17

description:
Sample 214
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz

value: Pdx1-GFP-low; Liv2+


title: E10.5_VPR_Pdx1-low_1_03

description:
Sample 217
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_02

description:
Sample 216
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_01

description:
Sample 215
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_14

description:
Sample 211
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_13

description:
Sample 210
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_16

description:
Sample 213
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_08

description:
Sample 222
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_2_02

description:
Sample 227
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_11

description:
Sample 225
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_12

description:
Sample 209
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_1_09

description:
Sample 223
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_08

description:
Sample 205
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_09

description:
Sample 206
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_10

description:
Sample 207
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_07

description:
Sample 204
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_05

description:
Sample 202
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_06

description:
Sample 203
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_11

description:
Sample 208
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_03

description:
Sample 200
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_02

description:
Sample 199
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_15

description:
Sample 212
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_01

description:
Sample 198
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_37

description:
Sample 197
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_2_04

description:
Sample 201
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_36

description:
Sample 196
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_34

description:
Sample 194
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_32

description:
Sample 192
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_33

description:
Sample 193
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_35

description:
Sample 195
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_29

description:
Sample 189
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_30

description:
Sample 190
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_31

description:
Sample 191
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_26

description:
Sample 186
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_25

description:
Sample 185
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_23

description:
Sample 183
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_27

description:
Sample 187
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_22

description:
Sample 182
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_28

description:
Sample 188
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_21

description:
Sample 181
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_24

description:
Sample 184
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_20

description:
Sample 180
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_14

description:
Sample 174
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_18

description:
Sample 178
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_15

description:
Sample 175
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_19

description:
Sample 179
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_16

description:
Sample 176
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_17

description:
Sample 177
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_11

description:
Sample 171
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_13

description:
Sample 173
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_09

description:
Sample 169
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_08

description:
Sample 168
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_10

description:
Sample 170
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_07

description:
Sample 167
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_03

description:
Sample 163
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_05

description:
Sample 165
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_04

description:
Sample 164
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_01

description:
Sample 161
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_18

description:
Sample 160
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz

value: Pdx1-GFP-low; Liv2-


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_02

description:
Sample 162
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_17

description:
Sample 159
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_12

description:
Sample 172
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_13

description:
Sample 155
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_14

description:
Sample 156
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_12

description:
Sample 154
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_10

description:
Sample 152
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_08

description:
Sample 150
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_15

description:
Sample 157
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_05

description:
Sample 147
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_04

description:
Sample 146
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_07

description:
Sample 149
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_03

description:
Sample 145
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-pos_1_06

description:
Sample 166
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_40

description:
Sample 141
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_06

description:
Sample 148
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_02

description:
Sample 144
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_41

description:
Sample 142
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_39

description:
Sample 140
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_01

description:
Sample 143
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_38

description:
Sample 139
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_11

description:
Sample 153
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_34

description:
Sample 135
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_32

description:
Sample 133
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_36

description:
Sample 137
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_35

description:
Sample 136
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_09

description:
Sample 151
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_2_16

description:
Sample 158
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_33

description:
Sample 134
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_28

description:
Sample 129
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_31

description:
Sample 132
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_30

description:
Sample 131
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_29

description:
Sample 130
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_24

description:
Sample 125
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_27

description:
Sample 128
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_37

description:
Sample 138
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_25

description:
Sample 126
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_26

description:
Sample 127
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_22

description:
Sample 123
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_23

description:
Sample 124
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_18

description:
Sample 119
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_17

description:
Sample 118
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_20

description:
Sample 121
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_15

description:
Sample 116
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_19

description:
Sample 120
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_16

description:
Sample 117
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_11

description:
Sample 112
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_12

description:
Sample 113
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_14

description:
Sample 115
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_07

description:
Sample 108
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_10

description:
Sample 111
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_09

description:
Sample 110
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_05

description:
Sample 106
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_06

description:
Sample 107
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_13

description:
Sample 114
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_01

description:
Sample 102
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_04

description:
Sample 105
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_21

description:
Sample 122
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_3_01

description:
Sample 100
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_03

description:
Sample 104
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_2_03

description:
Sample 096
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_2_04

description:
Sample 097
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_2_02

description:
Sample 095
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_3_02

description:
Sample 101
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_2_05

description:
Sample 098
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_1_04

description:
Sample 092
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_2_06

description:
Sample 099
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_1_01

description:
Sample 089
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_1_02

description:
Sample 090
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_12

description:
Sample 088
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz

source_name: Liver Bud


title: E10.5_VPR_Pdx1-high_1_05

description:
Sample 093
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_11

description:
Sample 087
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_08

description:
Sample 109
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_03

description:
Sample 079
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_08

description:
Sample 084
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_02

description:
Sample 078
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_07

description:
Sample 083
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_10

description:
Sample 086
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_06

description:
Sample 082
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_04

description:
Sample 080
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_01

description:
Sample 077
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_05

description:
Sample 081
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-low_Liv2-neg_1_02

description:
Sample 103
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_11

description:
Sample 062
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_10

description:
Sample 061
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_06

description:
Sample 057
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_08

description:
Sample 059
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_05

description:
Sample 056
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_1_03

description:
Sample 091
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_07

description:
Sample 058
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_04

description:
Sample 055
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_02

description:
Sample 053
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_03

description:
Sample 054
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_VPR_Pdx1-high_2_01

description:
Sample 094
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_Liver_1_09

description:
Sample 085
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_09

description:
Sample 060
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_3_03

description:
Sample 050
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_2_02

description:
Sample 046
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-pos_1_01

description:
Sample 052
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_2_03

description:
Sample 047
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_3_02

description:
Sample 049
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_3_01

description:
Sample 048
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_1_02

description:
Sample 040
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_1_01

description:
Sample 039
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_1_06

description:
Sample 044
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_1_04

description:
Sample 042
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_2_01

description:
Sample 045
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_3_04

description:
Sample 051
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-low_1_03

description:
Sample 041
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_3_02

description:
Sample 038
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_3_01

description:
Sample 037
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E17.5 D.P. Ins1+ #1

description:
Sample 013
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz

source_name: Dorsal Pancreas


title: E10.5_DPR_Pdx1-low_1_05

description:
Sample 043
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_2_05

description:
Sample 036
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E17.5 V.P. Ins1+ #1

description:
Sample 015
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz

source_name: Ventral Pancreas


title: E17.5 V.P. Ins1+ #2

description:
Sample 016
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_2_02

description:
Sample 033
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5 VPR Pdx1+ #1

description:
Sample 003
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_2_03

description:
Sample 034
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5 VPR Pdx1+ #2

description:
Sample 004
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E17.5 D.P. Ins1+ #2

description:
Sample 014
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_09

description:
Sample 031
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_2_01

description:
Sample 032
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5 DPR Pdx1+ #1

description:
Sample 001
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_04

description:
Sample 026
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_03

description:
Sample 025
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_02

description:
Sample 024
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_05

description:
Sample 027
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_08

description:
Sample 030
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_07

description:
Sample 029
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_06

description:
Sample 028
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E14.5 V.P. Ngn3-L #1

description:
Sample 011
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E14.5 V.P. Ngn3-H #2

description:
Sample 010
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E14.5 D.P. Ngn3-L #1

description:
Sample 007
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_2_04

description:
Sample 035
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E10.5_DPR_Pdx1-high_1_01

description:
Sample 023
processed data file:
Single-cell_RNA-seq_Read_Count.txt.gz
Single-cell_RNA-seq_RPKM.txt.gz


title: E14.5 V.P. Ngn3-L #2

description:
Sample 012
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E14.5 D.P. Ngn3-L #2

description:
Sample 008
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: E14.5 D.P. Ngn3-H #1

description:
Sample 005
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: MEF2C_WT_control_uninduced_1

city: New York

first: Richard

last: Koche

state: New York

country: USA

institute: Memorial Sloan Kettering Cancer Center

library_source: genomic

data_processing:
ATAC-seq reads were filtered for quality and 3' trimmed for adapter sequences.
Reads were aligned to human assembly hg19 using bowtie2 (v2.2.2) with default parameters.
Read count tables were created using HTSeq v0.6.1.
To create density files, the reads were extended to 200 bp, the signal was then normalized to ten million mapped reads and converted to BigWig using BEDTools.
Genome_build: hg19
Supplementary_files_format_and_content: BigWig files containing read densities normalized to 10 million reads.

molecule: genomic DNA

organism: Homo sapiens

growth_protocol: Single-cell clones were cultured in RPMI-1640 medium supplemented with 10% fetal bovine serum (FBS) and antibiotics (100 U / ml penicillin and 100 μg / ml streptomycin) in a humidified atmosphere at 37 °C and 5% CO2.

extract_protocol:
Cell nuclei were fresh prepared from 50,000 cells as previously described (Buenrostro et al. 2013 Nature Methods).
ATAC-seq was performed as previously described (Buenrostro et al. 2013 Nature Methods). For each sample, cell nuclei were prepared from 50,000 cells, and incubated with 2.5 uL transposase (Illumina) in a 50 uL reaction for 30 min at 37°C. Following purification of transposase fragmented DNA, the library was amplified by PCR and subjected to high-throughput sequencing using Illumina HiSeq 2500 platform.

treatment_protocol: For epigenomic profiling, cells (1 million cells in 3 ml) were grown in 600 ng doxycycline or vehicle control for 48 hours before transposase reaction.

tag: cell line

tag: cell type

value: acute myeloid leukemia cell line


title: E14.5 V.P. Ngn3-H #1

description:
Sample 009
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: MEF2C_WT_control_induced_3

value: doxycycline


title: MEF2C_WT_control_uninduced_2


title: MEF2C_WT_control_induced_1


title: MEF2C_S222A_uninduced_1


title: E10.5 DPR Pdx1+ #2

description:
Sample 002
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: MEF2C_S222A_uninduced_3


title: SJMMNORM015805_G1-Sample_254310_12_SCs_P27

city: Memphis

first: David

last: Finkelstein

state: TN

address: 332 N. Lauderdale St.

department: Computational Biology

institute: St Jude Children's Research Hospital

description: labeled supporting cells with tdTomato

data_processing:
Basecalling was performed using Illumina Casava 1.7
FASTQ sequences adapter trimmed (curtadapt) and mapped to the mouse mm9 genome by a pipeline that serially  employs STAR and BWA
Mapped reads were counted with HTSEQ
Genome_build: mm9
Supplementary_files_format_and_content: count files are txt format files that contain raw read counts that map  to  transcripts for each defined gene.

source_name: mouse supporting cells

extract_protocol:
Total RNA was extracted from hand-picked cells using PicoPure RNA Isolation Kit (Thermo Fisher Scientific)
The total RNA was converted into cDNA and amplified using Ovation RNA-Seq System V2 (NuGEN). The amplified product was used for library construction using Ovation Rapid DR Multiplex System (NuGEN).

tag: genotype

value: Fgfr3iCreER+; Rosa26-CAG- loxP-stop-loxP-tdTomato+ mice

tag: expression modification

value: tdTomato OE in supporting cells


title: MEF2C_S222A_uninduced_2


title: SJMMNORM015808_G1-11_SCs_P26

description: labeled supporting cells with tdTomato


title: MEF2C_S222A_induced_3


title: OCIAML2-MRT-3

description:
3' RNA-seq
Controlrep3
Processed data file: Table_AllHTseq_Counts_MRTpos1-3_Cntrl1-3.txt

data_processing:
RNA-seq reads were filtered for quality and 3' trimmed for adapter sequences.
Reads were aligned to human genome assembly hg19 using STAR (v2.4) with default parameters.
Read count tables were created using HTSeq v0.6.1.
Normalization and differential expression analysis were performed with DESeq2.
Genome_build: hg19
Supplementary_files_format_and_content: Table_AllHTseq_Counts_MRTpos1-3_Cntrl1-3.txt: Tab-delimited text file with read counts over all genes.

extract_protocol: Libraries were prepared according to Lexogen 3' mRNA-seq Sample Preparation Kit.

treatment_protocol: For gene expression profiling, cells were treated with 100 nM MRT199665 or vehicle control for 48 hours before RNA extraction.

value: vehicle control


title: MEF2C_S222A_induced_1


title: OCIAML2-MRT-1

description:
3' RNA-seq
Controlrep1
Processed data file: Table_AllHTseq_Counts_MRTpos1-3_Cntrl1-3.txt


title: OCIAML2-MRT+3

description:
3' RNA-seq
MRTrep3
Processed data file: Table_AllHTseq_Counts_MRTpos1-3_Cntrl1-3.txt

value: MARK inhibitor MRT199665


title: MEF2C_WT_control_uninduced_3


title: MEF2C_S222A_induced_2


title: OCIAML2-MRT+1

description:
3' RNA-seq
MRTrep1
Processed data file: Table_AllHTseq_Counts_MRTpos1-3_Cntrl1-3.txt


title: MEF2C_WT_control_induced_2


title: OCIAML2-MRT-2

description:
3' RNA-seq
Controlrep2
Processed data file: Table_AllHTseq_Counts_MRTpos1-3_Cntrl1-3.txt


title: MEF2C S222A induced 2

data_processing:
RNA-seq reads were filtered for quality and 3' trimmed for adapter sequences.
Reads were aligned to human genome assembly hg19 using STAR (v2.4) with default parameters.
Read count tables were created using HTSeq v0.6.1.
Normalization and differential expression analysis was performed with DESeq2.
Genome_build: hg19
Supplementary_files_format_and_content: Tab-delimited text file with read counts over all genes.

extract_protocol: Libraries were prepared according to Illumina's instructions accompanying the TruSeq RNA Sample Preparation Kit

treatment_protocol: For gene expression profiling, cells (1 million cells in 3 ml) were grown in 600 ng doxycycline or vehicle control for 48 hours before RNA extraction.

value: acute myeloid leukemia


title: MEF2C S222A induced 1


title: Wild Type Quiescent 3' RACE

city: Paris cedex 15

first: Alain

last: Jacquier

address: 25-28 rue du docteur roux

department: Génomes & génétique

country: France

institute: Institut Pasteur

description:
Sample 26
3' ending of mRNAs

data_processing:
Duplicated reads were first eliminated from the sequences. Then tagged reads were extracted from the unique reads searching the specific 5'-end tag (NNCGCGCGNN or NNCGCCGGNN)
After removal of the tag, the resultant reads were aligned teh reference genomes using bowtie2
For 3'Race sample, reads without any polyA tail (more than 4 ending A) were discard
For full RNA sample, whole reads were used in wig files. For 3'end RACE samples, only 3' end extremity of each mapped read was conserved and reported in wig files.
Reads count from samples 1 to 12 were normalized together using DESeq2. Reads count from samples 13 to 24 were normalized together using DESeq2.
Reads count from samples 13 to 24 were normalized te second time using an internal spike-in of Schizosaccharomyces pombe mRNAs. The same spike-in has been added to samples 1 to 12. means of the  spike-in reads were used for normalized second set of samples against first set.
Genome_build: S. cerevisiae S88C R64; S. pombe ASM294 v2.19
Supplementary_files_format_and_content: wig: values correspond to the normalized reads count. Positive values correspond to signal on forward strand and negative values correspond to signal on reverse strand. These wig files can be loaded in the IGV genome browser.

organism: Saccharomyces cerevisiae

source_name: yeast cells

extract_protocol:
Total RNA was extracted using the hot acid phenol protocol (2). Poly(A)+-RNA were obtained by two successive rounds of purification using oligo (dT)25 magnetic beads (New England Biolabs) following the manufacturer's protocol. RNAs were incubated with TAP (Tobacco Acid Pyrophosphatase) and biotynilated. After fragmentation the 5'-end RNAs were purified using strepavidin magnetic beads
RNA libraries were prepared for sequencing using standard Illumina protocols with only a first step to add a specific tag (NNNNCGCGCGNN or NNNNCGCCGGNN) at the 5'-end of each sequence to eliminates further contamination

tag: background strain

value: Wild Type (BY4741 can1_delta)

tag: strain id


title: MEF2C S222A uninduced 3


title: upf1∆ Quiescent 2

description:
Sample 17
mRNAs

value: BY4741 can1_delta, upf1_delta ::KANMX6


title: upf1∆ Quiescent 3

description:
Sample 18
mRNAs


title: MEF2C S222A induced 3


title: OCIAML2-MRT+2

description:
3' RNA-seq
MRTrep2
Processed data file: Table_AllHTseq_Counts_MRTpos1-3_Cntrl1-3.txt


title: Wild Type Quiescent 2

description:
Sample 14
mRNAs


title: E14.5 D.P. Ngn3-H #2

description:
Sample 006
processed data file:
Bulk-cell_RNA-seq_Read_Count.txt.gz
Bulk-cell_RNA-seq_RPKM.txt.gz


title: upf1∆ Quiescent 1

description:
Sample 16
mRNAs


title: MEF2C WT induced 2


title: MEF2C WT induced 3


title: Wild Type Quiescent 3

description:
Sample 15
mRNAs


title: MEF2C WT induced 1


title: MEF2C S222A uninduced 2


title: MEF2C WT uninduced 3


title: upf1∆ Expo 3

description:
Sample 6
mRNAs


title: Wild Type Expo 3' RACE

description:
Sample 25
3' ending of mRNAs


title: upf1∆ Expo 2

description:
Sample 5
mRNAs


title: H2030-BrM cells with L1CAM shRNA, tissue culture, biological replicate 2

city: Hangzhou

first: Yilong

last: Zou

state: Zhejiang

address: Shilongshan Road #18, Cloud Town, Xihu District

department: School of Life Sciences

institute: Westlake University

description: translating ribosome affinity purification mRNA product (TRAP mRNA)

data_processing:
Paired end reads in FASTQ format (50bp/50bp) were quality assessed by FastQC v0.11.3 for sequencing integrity and completeness.
RNA-Seq reads were mapped to human genome hg19 (NCBI GRCh37) with STAR2.3.0e using standard settings for paired reads. In average 84% of raw reads were uniquely mapped.
Uniquely mapped reads were counted to each gene with HTSeq v0.5.4 with default settings.
Read counts were normalized by library size through the “DESeq2” package deposited in Bioconductor.
Genome_build: GRCh37/hg19
Supplementary_files_format_and_content: Text files contain normalized read counts of each gene in each sample from RNA-Seq experiments. Read counts were normalized to library size in each experiment.

source_name: H2030, brain metastatic derivative cell line

growth_protocol: For regular tissue culture, metastatic derivatives of H2030 cells H2030-BrM were cultured in RPMI 1640 media with 10% FBS, 2mM L-Glutamine, 100IU Penicillin and 100ug/ml Streptomycin. For organotypic brain slice culture, mouse brains were isolated in Hank's Balanced Salt Solution supplemented with 2.5mM HEPES, pH7.4, 30mM D-Glucose, 1mM CaCl2, 1mM MgSO4 and 4mM MgSO4. Isolated brains were embedded in low melting point agarose (Lonza) and sectioned into 250uM sections using Leica VT100s systems under laminar flow. Sections were cultured on 0.4μm pore size membranes (Millipore) placed on brain slice media: DMEM with complete HBSS, %5 FBS, 1mM L-glutamine, 100 IU Penicillin and 100μg mL-1 Streptomycin. 3x104 cancer cells were introduced onto the brain slice and incubated for 48 hours.

extract_protocol:
Tissue culture cells or brain slices were lysed by pipetting in the TRAP lysis buffer containing 10mM HEPES, pH7.3, 150mM KCl, 5mM MgCl2, 0.5mM DTT, 1% NP-40, 100ug/ml Cycloheximide supplemented with protease inhibitors and RNase inhibitors. Lysates were cleared by centrifuge and the supernatans were supplemented with 1,2-Diheptanoyl-sn-Glycero-3-Phosphocholine (DHPC) at 30mM final concentration. Samples are further centrifuged and incubated with anti-EGFP monoclonal antibody conjugated Dynabeads for immunoprecipitation (IP). IP products were washed and RNA were subsequently purified by RNA mini kit (Ambion) from the beads. RNA samples were subjected to RNA-Seq analysis.
TRAP RNA samples were quantified by Ribogreen and quality assessed by Agilent BioAnalyzer 2000. 100ng RNA with integrity number (RIN) > 9.5 from each sample was used for library construction with TruSeq RNA Sample Prep Kit v2 (Illumina) according to manufacturer’s instructions.  On average 40-45 million raw reads were generated for each sample.

tag: genetic modification

value: L1CAM shRNA

tag: culture condition

value: petri-dish

tag: antibody

value: anti-EGFP monoclonal antibody, 19C8 and 19F7

tag: antibody vendor

value: MSKCC Monoclonal Antibody Core Facility


title: Wild Type Quiescent 1

description:
Sample 13
mRNAs


title: H2030-BrM cells with L1CAM shRNA, brain slice, biological replicate 2

value: mouse organotypic brain slice


title: H2030-BrM cells with L1CAM shRNA, tissue culture, biological replicate 1


title: MEF2C WT uninduced 2


title: H2030-BrM cells with control shRNA, brain slice, biological replicate 2

value: Luciferase shRNA


title: H2030-BrM cells with L1CAM shRNA, brain slice, biological replicate 1


title: Wild Type Expo 3

description:
Sample 3
mRNAs


title: MEF2C WT uninduced 1


title: upf1∆ Expo 1

description:
Sample 4
mRNAs


title: H2030-BrM cells with control shRNA, tissue culture, biological replicate 1


title: Wild Type Expo 2

description:
Sample 2
mRNAs


title: Wild Type Expo 1

description:
Sample 1
mRNAs


title: H2030-BrM cells with control shRNA, tissue culture, biological replicate 2


title: MEF2C S222A uninduced 1


title: H2030-BrM cells with control shRNA, brain slice, biological replicate 1


title: BT474_20_cells_rep1

status: Public on Jul 22 2018

city: Los Angeles

first: Vasu

last: Punj

state: CA

address: Biggy Street

institute: USC

data_processing:
Illumina Casava1.7 software (illumina) or IndexDPGenomic  (Helicos) used for basecalling
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg18 whole genome using BWA (Helicos) or TopHat (Illlumina).
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated. Differential expression was calculated at a significance of p<0.05 after Benjamini and Hochberg correction using a null model.
Genome_build: hg18
Supplementary_files_format_and_content: Table with RPKM values for each Sample.

source_name: tumor

growth_protocol: Breast cancer cell lines were cultured as per ATCC standard protocol.

extract_protocol:
Immunomagnetic Enrichment and Fluorescence Activated Cell Sorting (IE/FACS) cells were spiked into phosphate buffered saline (PBS) and peripheral blood (PB) from healthy female donors.
RNA extracted from cells was polyA+ labelled and used to generate Helicos DGE or Illumina libraries   following the manufacturer’s protocols.  The modified cDNA molecules were subjected to sequencing by the Helicos Heliscope or Illumina Hiseq 2000 system

tag: diagnosis

value: breast cancer


title: BT474_100_cells_rep2


title: BT474_bulk_RNA-rep1


title: BT474_bulk_RNA-rep2


title: BT474_500pg

description: P14.2012-07-13T16_14_50.0232421511010.fc1.ch8_19_20


title: Peripheral_blood_rep1

source_name: Peripheral blood

value: healthy


title: BT474_20_sorted_cells

description: P14.2012-07-13T16_14_50.0232421511010.fc1.ch7_18


title: BT474_20_cells_rep2


title: P7S3

status: Public on Jul 21 2018

city: Chippendale

first: Darya

middle: Pavlovna

last: Vanichkina

state: New South Wales

address: 32 Queen Street

country: Australia

institute: University of Sydney

description: PDGFRA+ cells from P7 spinal cord

data_processing:
Alignment: STAR version 2.5.0a using gencode M8 as reference: --runThreadN 8   --readFilesCommand zcat   --outReadsUnmapped Fastx   --outSAMtype BAM   SortedByCoordinate      --outSAMstrandField intronMotif   --outSAMattributes All      --outSJfilterCountUniqueMin 5   2   2   2      --outSJfilterCountTotalMin 4   6   6   6      --outWigType wiggle      --outWigStrand Stranded      --outFilterScoreMinOverLread 0.54   --outFilterMatchNminOverLread 0.54   --outFilterMismatchNmax 20   --sjdbGTFfile /home/dvanichkina/project/dvanic/Reference/mouse/GRCm38_mm10/gencode.vM8.primary_assembly.annotation.gtf   --quantMode TranscriptomeSAM   GeneCounts
Count table generation:  featureCounts 1.5.0-p1: -p -M --fraction --minOverlap 5 -s 2 -T  -C -R -t exon -g gene_id -a ./mouse/GRCm38_mm10/gencode.vM8.primary_assembly.annotation.gtf -o ${SAMPLE}.multicounts.txt ./${SAMPLE}Aligned.sortedByCoord.out.bam
Differential gene expression analysis: limma with voom normalisation; Genes were tested for differential expression if they displayed 0.7 counts per million in at least three of the libraries, and considered differentially expressed if found to have a Benjamini-Hochberg adjusted p-value < 0.05 and a greater than twofold change in expression between queried samples.
Novel transcript prediction and annotation: mapping with HISAT2 version 2.0.5 to the mm10 mouse genome, using gencode M8 to build an exon and splice junction reference. Stringtie 1.3.1c was then used to assemble novel transcripts from these mapped reads. The minimum isoform abundance of the predicted transcript as a fraction of the most abundant transcript assembled at a given locus was required to be 0.05; transcripts were assembled with a length of 100 nt or greater; junctions with fewer than four bases on both sides were filtered out; and reads mapping closer than this 25 nt were merged together in the same processing bundle. FEELnc was then used to filter, predict the coding potential and annotate the assembled transcripts. First, monoexonic transcripts, transcripts that were less than 200 nt long, and biexonic transcripts in which one of the exons was less than 10 nt long were filtered out. Next, the random forest algorithm of FEELnc was trained on gencode M8 “protein_coding” transcripts as a set of coding genes, and gencode M8 "lincRNA", "Mt_rRNA", "Mt_tRNA", "miRNA", "misc_RNA", "rRNA", "scRNA", "snRNA", "snoRNA", "ribozyme", "sRNA", and "scaRNA" as non-coding transcripts. K-mers of lengths 1,2,3,6,9 and ORF type 3 (containing either a start or a stop codon, or both) were used in training the model transcripts were classified using the FEELnc classifier with a window of 10000 nt proximity, using all transcripts in Gencode M8 for classification
Genome_build: mm10
Supplementary_files_format_and_content: Counts per million mapped reads

source_name: P7_spinal cord_PDGFRA+ cells

extract_protocol:
Qiazol, snap freezing, then RNA was extracted with miRNeasy micro kit from Qiagen, following manufacturer ́s instructions with minor modifications. Briefly, qiazol extracts were thawed and vortexed for 1min. Chloroform was applied and mixture was transferred to a MaxTract High density column. From that point on, the extraction was then performed according to the kit ́s manual for low input samples. RNA was then measured with QuBit RNA HS assay kit and Agilent RNA 6000 Pico Kit. 50 ng of RNA from each E13.5/ P7 sample was used for library preparation.
Illumina’s TruSeq Stranded Total RNA Library Prep Kit

tag: strain

tag: developmental stage

value: postnatal day 7

tag: tissue

value: spinal cord

value: Pdgfra+ FACS-sorted cells


title: BT474_100_cells_rep1


title: Peripheral_blood


title: BT474_10pg

description: P14.2012-07-13T16_14_50.0232421511010.fc1.ch6_17.fa


title: P7B2

description: PDGFRA+ cells from P7 brain

source_name: P7_brain_PDGFRA+ cells

value: brain


title: P7B3

description: PDGFRA+ cells from P7 brain


title: P7B1

description: PDGFRA+ cells from P7 brain


title: E13.5S3

description: PDGFRA+ cells from E13.5 spinal cord

source_name: E13.5_spinal cord_PDGFRA+ cells

value: embryonic day E13.5


title: E13.5B1

description: PDGFRA+ cells from E13.5 brain

source_name: E13.5_brain_PDGFRA+ cells


title: E13.5S2

description: PDGFRA+ cells from E13.5 spinal cord


title: E13.5B3

description: PDGFRA+ cells from E13.5 brain


title: Capan1 Treated (RNA Seq: Sample#10249)

city: Omaha

first: Moorthy Palanimuthu

last: Ponnusamy

state: Nebraska

address: 42nd and Emile

department: Biochemistry and Molecular Biology

institute: University of Nebraska Medical Center

description:
processed data:
et_10249_vs_10248_data_frame_RPKM_5,
UP_et_10249_vs_10248_data_frame_RPKM_5_gene_list_modified_BP_FAT,
DOWN_et_10249_vs_10248_data_frame_RPKM_5_gene_list_modified_BP_FAT

data_processing:
Illumina sequencing and base calls
Raw Reads: FASTQ format: 1.Quality inspection using FastQC;  2.Aligned to human reference genome (hg19)
1.Hierarchical clustering analysis: Gene Cluster and TreeView
2.Differential expression analysis: edgeR
3.DAVID functional annotation of up- and down-regulated genes
Supplementary_files_format_and_content: Comparision between treated and untreated groups; RPKM values
et_*data_frame_RPKM_5: MS Excel worksheet; Fold change (Treatment vs No Treatment); RPKM
*gene_list_modified_BP_FAT: MS Excel worksheet;GO enrichment; (Treatment vs No Treatment) BP_FAT.xlsx

source_name: Pancreas

extract_protocol:
mirVana™ miRNA Isolation Kit was used to isolate RNA. RNA quality was checked with an Agilent Bioanalyzer (Agilent Technologies, Inc.) and all of the RINs (RNA integrity numbers) were 10.
Library preparation was achieved using the Illumina TruSeq RNA Sample Preparation Kit

treatment_protocol: Cigarette smoke extract (CSE) was prepared using two 3R4F research cigarettes (University of Kentucky). The cigarette smoke was bubbled through 10 ml of DMEM medium at a speed of 8 min per cigarette, delivering approximately 0.8 mg of nicotine/cigarette. The resultant cigarette smoke extract was considered 100%. Cells were treated with 1% cigarette smoke extract. 1 million cells were seeded in 100mm plate and cultured for 24hrs. After 24 hrs, the cells were treated with 1% CSE and thus maintained the cells in CSE for 48hrs. After 48hrs, we performed sub-culture and reseeded 1 million cells to continue the treatment. We thus continued upto 40 passages (2 days treatment/passage and thus total number of treatment days are 80).

value: Human Pancreatic Adenocarcinoma Cell Line

tag: tissue origin

value: Liver Metastatic

tag: tissue type

value: Cancer

tag: genotype/variation

value: Kras Mutation

tag: treated with

value: cigarette smoke extract for 80 days


title: HPNE Treated (RNA Seq: Sample#10245)

description:
processed data:
et_10245_vs_10244_data_frame_RPKM_5,
UP_et_10245_vs_10244_data_frame_RPKM_5_gene_list_modified_BP_FAT,
DOWN_et_10245_vs_10244_data_frame_RPKM_5_gene_list_modified_BP_FAT

tag: cell line

value: HPNE

tag: cell type

value: human pancreatic epithelial nestin-expressing (HPNE) cells

value: Ductal

value: Normal

value: Nestin Positive & Immortalized


title: HPNE Untreated ( RNA Seq: Sample#10244)


title: Capan1 Untreated (RNA Seq: Sample#10248)


title: P7S1

description: PDGFRA+ cells from P7 spinal cord


title: E13.5B2

description: PDGFRA+ cells from E13.5 brain


title: P7S2

description: PDGFRA+ cells from P7 spinal cord


title: E13.5S1

description: PDGFRA+ cells from E13.5 spinal cord


title: C7_Mta2_Rep2

status: Public on Jul 20 2018

city: Oxford

first: Guifeng

last: Wei

address: South Parks Road

department: Department of Biochemistry

country: United Kingdom

institute: University of Oxford

data_processing:
The raw sequencing reads were mapped to the mm10 reference genome (conventional ChIP) or mm10 concatenated with dm6 genome (calibrated ChIP) using Bowtie, PCR duplicates were removed by 'picard-tools MarkDuplicates' program, and only unique read pairs were kept for further analysis.
MACS2 (2.0.10) was employed to call the ChIP-seq peaks with the default parameters except (-f BAMPE -g mm -q 0.01)
The metagene binding patterns and heatmap matrix were generated by DANPOS with the key parameters (--flank_up 5000 --flank_dn 5000 --region_size 10000 --bin_size 50 --excludeP 0.01)
The bigwig tracks shown in UCSC Genome Browser were generated using the custom script xbam2wig.py from https://github.com/guifengwei/glib , normalizing to one million mapped reads for PWWP2A and PWWP2B ChIP-seq, whereas 10 million mapped reads for the remaining calibrate ChIP-seq.
Genome_build: mm10 (GRCm38) or mm10+dm6
Supplementary_files_format_and_content: *.bw: bigWig files

source_name: embryonic stem cell

extract_protocol:
For crosslinking-ChIP, 40-45 million ES cells were resuspended in 10ml PBS with 2 mM EGS for 45 min, followed by 1% formaldehyde for a further 10 minutes. The reactions were quenched by the addition of glycine to a final concentration of 125 mM. Cells were first lysed for 10 minutes on ice in LB1 (50 mM Hepes pH 7.9, 140 mM NaCl, 1mM EDTA, 10% Glycerol, 0.5% NP40, 0.25% Triton). The nuclei was pelleted and washed for 5 minutes in LB2 (10 mM Tris pH 8.0, 200 mM NaCl, 1 mM EDTA, 0.5 mM EGTA, and pelleted again. The nuclei was suspended in 1 ml of LB3 (10 mM Tris pH 8.0, 100 mM NaCl, 1mM EDTA, 0.5 mM EGTA, 0.1% sodium deoxycholate, 0.5% N-lauroylsarcosine) and sonicated using a BioRuptor sonicator (Diagenode) with for 25 cycles 30 sec on and 30 sec off, followed by centrifugation at maximum speed for 15 min at 4 ºC, and either used freshly or snap freeze and stored at -80 ºC.
For calibrated ChIP-seq of HDAC1, MTA2, Pol II Ser5P, and Pol II Ser2P 40 million ES cells and 10 million Drosophila SG4 Cells were pooled in PBS prior to crosslinking. For each IP, 100 µl of chromatin was diluted with ChIP dilution buffer (1% Triton-X100, 1 mM EDTA, 20 mM Tris-HCl pH 8, 150 mM NaCl) prior to pre-clearing with protein A agarose beads or magnetic Dynabeads (Invitrogen) blocked with 1 mg/mL BSA and 1 mg/mL yeast tRNA at 4 ºC for 1 h. Precleared chromatin samples were further incubated overnight with relevant antibodies at 4 ºC with rotation.
For each calibrated ChIP sample, 5-8 μg antibody plus 2 μg Drosophila-specific H2Av antibody (Active Motif) were used. Antibody-bound chromatin was isolated on blocked protein A beads, and followed by washes with low salt buffer (0.1% SDS, 1% Triton, 2 mM EDTA, 20 mM Tris-HCl (pH 8.1), 150 mM NaCl), high salt buffer ((0.1% SDS, 1% Triton, 2 mM EDTA, 20 mM Tris-HCl (pH 8.1), 500 mM NaCl), LiCl buffer (0.25M LiCl, 1% NP40, 1% sodium deoxycholate, 1 mM EDTA, 10 mM Tris-HCl (pH 8.1)), and twice with TE (10 mM Tris-HCl (pH 8.0), 1 mM EDTA) buffer. The DNA was eluted with 1% SDS and 100 mM NaHCO3, and reversed crosslinked at 65 ºC overnight in the presence of 200mM NaCl, following by treatment with RNaseA and Proteinase K. DNA was purified by ChIP DNA Clean and Concentrator kit (Zymo) and quantified by dsDNA Qubit reagents.
For calibrated native ChIP (H3K27ac and H3K9ac), 40 million ES cells and 10 million Drosophila SG4 Cells were pooled and lysed in RSB (10 mM Tris pH 8, 10 mM NaCl, 3 mM MgCl2) + 0.1% NP40 for 5 min on ice with gentle inversion. Nuclei was resuspended in 1 ml of RSB + 0.25 M sucrose + 3mM CaCl2, treated with 200U of MNase (Fermentas) for 5 minutes at 37ºC, quenched with 4 µl of 1M EDTA, then centrifuged at 5000 rpm for 5 minutes. The supernatant was transferred to a fresh tube as fraction S1. The chromatin pellet was incubated for 1 h in 300 µl of nucleosome release buffer (10 mM Tris pH 7.5, 10 mM NaCl, 0.2 mM EDTA), carefully passed 5 times through a 27G needle using a 1 ml syringe, then centrifuged at 5000 rpm for 5 minutes. The supernatant from this S2 fraction was combined with S1. For each ChIP reaction, 80 µl of chromatin was diluted in Native ChIP incubation buffer (10 mM Tris pH 7.5, 70 mM NaCl, 2 mM MgCl2, 2 mM EDTA, 0.1% Triton) to 1 ml and incubated with antibody overnight at 4ºC. Samples were incubated with 50 µl protein A agarose beads preblocked in Native ChIP incubation buffer with 1 mg/ml BSA and 1 mg/ml yeast tRNA, then washed for a total of 4 times in Native ChIP wash buffer (20 mM Tris pH 7.5, 2 mM EDTA, 125 mM NaCl, 0.1% Triton) and once in TE. The DNA was eluted with 1% SDS and 100 mM NaHCO3, and was purified using ChIP DNA Clean and Concentrator kit (Zymo).
Approximately 5-20 ng of ChIPed DNA were used for library prep using NEBNext Ultra II DNA Library Prep Kit with NEBNext Single index, and then further quantified by qPCR with KAPA Library Quantification DNA standards (KAPA Biosystems) and SensiMix SYBR (Bioline, UK). The libraries were pooled and 2 ÃƒÂ— 42 paired end sequencing was performed on the Illumina NextSeq500.

value: double PWWP2A/B knockout clone C7

value: embryonic stem cells

value: Mta2(Abcam#Ab8106) + H2Av(Active Motif#61686)


title: E14_Mta2_Rep2

value: wild type


title: emf1-1

city: Shanghai

first: Xing

last: Fu

address: 3888 Chenhua Road

institute: Shanghai Center for Plant Stress Biology, Chinese Academy of Sciences

data_processing:
Raw paired-end reads were cleaned by Trimimomatic. After trimming the adapter sequences, removing low-quality bases and filtering short reads (< 36 nt), clear read pairs were retained for further analysis.
The cleaned reads first were mapped to the Arabidopsis genome (TAIR10) by TopHat (version 2.1.1) with default parameters.
Total number of reads mapped to each gene was calculated with the htseq-count script in HTSeq.
The genes with a normalized expression level of at least one count per million mapped reads (CPM) in three or more libraries were kept for further analysis.
EdgeR was used to identify genes that were differentially expressed between wild type and mutants. Genes with at least 1.5-fold change in expression (and FDR <0.05) were considered differentially expressed genes (DEGs).
Genome_build: tair10
Supplementary_files_format_and_content: tab-delimited text files include raw counts of sequencing reads for genes

organism: Arabidopsis thaliana

source_name: whole seedlings

growth_protocol: Seedlings were grown on 1/2 MS media for 3 weeks under short-day condition (8h light/16h dark)

extract_protocol:
WT, lhp1 and ebs shl were extracted using RNeasy Plus Mini Kit (Qiagen),emf1 and ebs shl lhp1 RNAs were extracted using miRNeasy Micro Kit (Qiagen).
cDNA libraries were constructed using KAPA stranded mRNA-seq kit (KAPA)

tag: ecotype

tag: genotype


title: ebs shl lhp1-3

value: ebs shl lhp1


title: emf1-2


title: ebs shl-3

value: ebs shl


title: A1_Mta2_Rep2

value: double PWWP2A/B knockout clone A1


title: lhp1-3


title: ebs shl-1


title: ebs shl lhp1-2


title: ebs shl-2


title: WT-3


title: lhp1-1


title: WT-1


title: WT-2


title: lhp1-2


title: Peripheral_blood_rep2

value: healthy


title: SHL input DNA-2

data_processing:
Raw paired-end reads were cleaned by Trimimomatic. After trimming the adapter sequences, removing low-quality bases and filtering short reads (< 36 nt), clear read pairs were retained for further analysis.
Clean reads from input DNA and ChIP samples were mapped to the Arabidopsis thaliana genome (TAIR10) by Bowtie2 (version 2.2.8) with default parameters
Mapped reads with low mapping quality (MAPQ < 30) or multiple positions on the genome were identified and removed by SAMtools (version 1.3).
Enriched peaks were identified by MACS (version 1.4) with parameters: cut-off p value 1e-2 and without building the shifting model.
Genome_build: tair10
Supplementary_files_format_and_content: The coordinates of peaks detected by MACS in bed format

growth_protocol: Seedlings were grown on 1/2 MS plates for about 10 days under long-day condition (16h light /8h dark)

extract_protocol:
Genomic DNA was sonicated and DNA fragments bound by SHL:HA were immunoprecipiated by anti-HA antibodies.
Genomic DNA libraries were constructed using NEBNext Ultra II DNA Library Prep Kit for Illumina (New England Biolabs)

tag: chip antibody

tag: tag

value: SHL tagged HA driven by its native promoter in ebs shl


title: SHL ChIPSeq-2

value: Anti-HA (Sigma, H 6908)


title: SHL ChIPSeq-1


title: input DNA-2

source_name: whole seeding

growth_protocol: Seedlings were grown on 1/2 MS plates for around 10 days under long-day condition (16h light /8h dark)

extract_protocol:
Genomic DNA was sonicated and DNA fragments bound by EBS:FLAG were precipiated with anti-FLAG antibodies.
Genomic DNA libraries were constructed using NEBNext Ultra II DNA Library Prep Kit for Illumina (New England Biolabs)

tag: background

value: An EBS tagged with FLAG driven by its native promoter was introduced into the ebs shl mutant


title: emf1-3


title: input DNA-1


title: EBS ChIPSeq-3 (EBS.3)

value: Anti-FLAG (Sigma, F7425)


title: ebs shl lhp1-1


title: EBS ChIPSeq-1 (EBS.1)


title: EBS ChIPSeq-2 (EBS.2)


title: P.PG_glu_Slc17a7 rep4

city: Ashburn

first: Ken

last: Sugino

state: VA

address: 19700 Helix Dr

institute: Janelia Research Campus

data_processing:
Illumina Casava and BCL2FASTQ1.8.3 were used for basecalling
Sequenced reads were trimmed for NuGEN and Illumina adaptor sequences using cutadapt v1.7.1 with parameters --overlap=7 --minimum-length=30. Ribosomal RNA, mitochondrial and phiX sequences were filtered using bowtie2 v2.1.0 with default parameters. Remaining reads were then mapped to mm10 genome using STAR v2.4.0i with parameters  --chimSegmentMin 15 --outFilterMismatchNmax 3.
Uniquely mapped reads were assigned to genes using HTSeq v0.6.1p1 with parameter -s no -m intersection-nonempty and using wgEncodeGencodeVM4Basic annotation downloaded from UCSC with ERCC information added.
Supplementary_files_format_and_content: tab deliminated files include raw counts for each sample
Genome_build: mm10

source_name: Pons (PG)

extract_protocol:
Acutely extracted brain was sliced at 300um thickness, digested with pronase for 1 hour at RT, triturated and GFP labeled cells were sorted manually. RNA was extracted using PicoPure kit (ThermoFisher, KIT0204).
Extracted RNA was amplified using Ovation RNA-Seq System V2 (NuGEN, #7102). 1~1.5 ug of the amplified material was used for library construction using Encore NGS Multiplex System (NuGEN, #0314).
adapters: truseq

value: Pons (PG)

tag: region

value: PG

tag: age (postnatal day)

tag: Sex

value: M

tag: weight (g)

tag: num_cells (# of sorted cells in the sample)

tag: ercc5 (10^-5 dilution of ercc in ul)

tag: ercc_mix (ercc mix used)


title: P.PG_glu_Slc17a7 rep3

tag: tissue

tag: strain


title: P.PG_glu_P162 rep2


title: P.PG_glu_Slc17a7 rep2

value: F


title: P.PG_glu_P162 rep4


title: MY.LRNm_glu_Slc17a7 rep2

source_name: Medulla (LRNm)

value: Medulla (LRNm)

value: LRNm


title: SHL input DNA-1


title: MY.LRNm_glu_Slc17a7 rep1


title: P.PG_glu_P162 rep1


title: P.PG_glu_Slc17a7 rep1


title: P.PG_glu_P162 rep3


title: MY.LRNm_glu_Slc17a7 rep4


title: MY.ECU_glu_Slc17a7 rep2

source_name: Medulla (ECU)

value: Medulla (ECU)

value: ECU


title: MY.LRNm_glu_Slc17a7 rep3


title: CB.CUL4, 5gr_glu_Penk1 rep3

description: CB.CUL4, 5gr_glu_Penk1_f30_1863

source_name: Cerebellum (CUL4, 5gr)

value: Cerebellum (CUL4, 5gr)

value: CUL4, 5gr


title: CB.CUL4, 5gr_glu_Penk1 rep1

description: CB.CUL4, 5gr_glu_Penk1_m30_1861


title: input DNA-3


title: MY.ECU_glu_Slc17a7 rep3


title: chpl__Gng7.KH67 rep1

source_name: Choroid Plexus

value: Choroid Plexus

value: chpl


title: chpl__Drd3.KI198 rep1


title: TH.VPM_glu_Grp.KH288 rep2

source_name: Thalamus (VPM)

value: Thalamus (VPM)

value: VPM


title: TH.VPM_glu_Grp.KH288 rep3


title: TH.VPM_glu_Slc6a5.KF109 rep1


title: TH.PVT_glu_Slc6a5.KF109 rep1

source_name: Thalamus (PVT)

value: Thalamus (PVT)

value: PVT


title: MY.ECU_glu_Slc17a7 rep4


title: MY.ECU_glu_Slc17a7 rep1


title: TH.PVT_glu_Gpr26.KO250 rep1


title: TH.PVT_glu_Gpr26.KO250 rep3


title: TH.PVT_glu_Slc6a5.KF109 rep2


title: CB.CUL4, 5gr_glu_Penk1 rep2

description: CB.CUL4, 5gr_glu_Penk1_m30_1862


title: TH.PVT_glu_Gpr26.KO250 rep2


title: TH.PCN_glu_Grp.KH288 rep2

source_name: Thalamus (PCN)

value: Thalamus (PCN)

value: PCN


title: TH.PCN_glu_Grp.KH288 rep3


title: TH.LGd_glu_Slc6a5.KF109 rep3

source_name: Thalamus (LGd)

value: Thalamus (LGd)

value: LGd


title: TH.LGd_glu_Slc6a5.KF109 rep2

value: M


title: TH.LGd_glu_Gpr26.KO250 rep1


title: TH.PCN_glu_Grp.KH288 rep1

value: F


title: TH.LGd_glu_Slc6a5.KF109 rep4


title: TH.CL_glu_Grp.KH288 rep3

source_name: Thalamus (CL)

value: Thalamus (CL)

value: CL


title: TH.LGd_glu_Gpr26.KO250 rep3


title: TH.CL_glu_Grp.KH288 rep1


title: TH.AV_glu_Slc6a5.KF109 rep3

source_name: Thalamus (AV)

value: Thalamus (AV)

value: AV


title: TH.AV_glu_Slc6a5.KF109 rep2


title: TH.CL_glu_Grp.KH288 rep2


title: TH.VPM_glu_Grp.KH288 rep1


title: TH.LGd_glu_Gpr26.KO250 rep2


title: TH.AV_glu_Slc6a5.KF109 rep1


title: TH.AD_glu_Slc6a5.KF109 rep1

source_name: Thalamus (AD)

value: Thalamus (AD)

value: AD


title: TH.AMd_glu_P084 rep1

source_name: Thalamus (AMd)

value: Thalamus (AMd)

value: AMd


title: STR.islm_GABA_Drd3.KI198 rep2

source_name: Striatum (islm)

value: Striatum (islm)

value: islm


title: STR.islm_GABA_Drd3.KI198 rep1


title: TH.AD_glu_Slc6a5.KF109 rep2


title: STR.isl_GABA_Drd3.KI198 rep3

source_name: Striatum (isl)

value: Striatum (isl)

value: isl


title: STR.isl_GABA_Drd3.KI198 rep1


title: STR.OT_GABA_Adora2a.KG139 rep1

source_name: Striatum (OT)

value: Striatum (OT)

value: OT


title: TH.AD_glu_Slc6a5.KF109 rep3


title: STR.isl_GABA_Drd3.KI198 rep2


title: TH.LGd_glu_Slc6a5.KF109 rep1

value: Thalamus (LGd)

value: LGd


title: STR.OT_GABA_Adora2a.KG139 rep3

value: M


title: STR.OT_GABA_Adora2a.KG139 rep2


title: STR.CP_GABA_PlxnD1.OG1 rep1

source_name: Striatum (CP)

value: Striatum (CP)

value: CP

value: F


title: STR.CP_GABA_Ntsr1.GN209 rep3


title: STR.isl_GABA_Drd3.KI198 rep4


title: STR.CP_GABA_PlxnD1.OG1 rep2


title: STR.CP_GABA_Ntsr1.GN209 rep2


title: STR.CP_GABA_Ntsr1.GN209 rep1


title: STR.CP_GABA_Adora2a.KG139 rep3


title: STR.CEAm_GABA_Orexin-Cre rep3

source_name: Striatum (CEAm)

value: Striatum (CEAm)

value: CEAm


title: STR.CP_GABA_Gng7.KH67 rep1


title: STR.CP_GABA_Adora2a.KG139 rep1


title: STR.CEAm_GABA_Orexin-Cre rep2


title: STR.CP_GABA_Gng7.KH67 rep2


title: STR.CP_GABA_Adora2a.KG139 rep2


title: STR.CEAm_GABA_Crh.ZJH rep2


title: STR.CEAm_GABA_Orexin-Cre rep1


title: STR.CEAm_GABA_Crh.ZJH rep1


title: STR.CEAl_GABA_Gpr26.KO250 rep3

source_name: Striatum (CEAl)

value: Striatum (CEAl)

value: CEAl


title: STR.CEAl_GABA_Gpr26.KO250 rep1


title: STR.ACB_GABA_Gng7.KH67 rep3

source_name: Striatum (ACB)

value: Striatum (ACB)

value: ACB


title: STR.ACB_GABA_Gng7.KH67 rep2


title: STR.CP_GABA_Gng7.KH67 rep3


title: PAL.BST_GABA_P170 rep4

source_name: Pallidum (BST)

value: Pallidum (BST)

value: BST


title: STR.ACB_GABA_Chrnb4.OL57 rep1


title: STR.ACB_GABA_Gng7.KH67 rep1


title: PAL.BST_GABA_P170 rep3


title: PAL.BST_GABA_P170 rep2


title: PAL.BST_GABA_P170 rep1


title: P.PG_glu_Slc17a7.2F8 rep1

source_name: Pons (PG)

value: Pons (PG)

value: PG


title: P.PG_glu_Mpp3.KG118 rep1

extract_protocol:
Acutely extracted brain was sliced at 300um thickness, digested with pronase for 1 hour at RT, triturated and GFP labeled cells were sorted manually. RNA was extracted using PicoPure kit (ThermoFisher, KIT0204).
Extracted RNA was amplified using Ovation RNA-Seq System V2 (NuGEN, #7102). 1~1.5 ug of the amplified material was used for library construction using Encore NGS Multiplex System (NuGEN, #0314).
adapters: solexa


title: P.PG_glu_Mpp3.KG118 rep2


title: P.PG_glu_HSD2-Cre rep2


title: P.PG_glu_HSD2-Cre rep3


title: P.PG_glu_HSD2-Cre rep1


title: P.PBl_glu_Syt17.NO14 rep3

source_name: Pons (PBl)

value: Pons (PBl)

value: PBl


title: P.PBl_glu_Syt17.NO14 rep2


title: P.PBl_glu_ChAT rep2

value: ChAT


title: P.PBl_glu_Syt17.NO14 rep1

value: M


title: P.PBl_glu_ChAT rep1


title: STR.CEAl_GABA_Gpr26.KO250 rep2


title: P.LC_NE_TH-GFP rep1

source_name: Pons (LC)

value: Pons (LC)

value: TH-GFP

value: LC


title: P.LC_NE_TH-GFP rep2


title: P.CSm_5HT_Tph2-EGFP rep1

source_name: Pons (CSm)

value: Pons (CSm)

value: CSm


title: P.PBl_glu_ChAT rep3

value: F


title: P.CSm_5HT_Tph2-EGFP rep3


title: P.CSm_5HT_Tph2-EGFP rep2


title: P.CSm_5HT_Fev rep2

value: Fev


title: STR.ACB_GABA_Chrnb4.OL57 rep2

value: Striatum (ACB)


title: P.PG_glu_Slc17a7.2F8 rep2


title: OLF.MOBmi_GABA_PBAV rep3

source_name: Olfactory (MOBmi)

value: Olfactory (MOBmi)

value: PBAV

value: MOBmi


title: P.PG_glu_Mpp3.KG118 rep3

value: Pons (PG)


title: P.CSm_5HT_Fev rep3


title: OLF.PIR_glu_Ntsr1.GN209 rep1

source_name: Olfactory (PIR)

value: Olfactory (PIR)

value: PIR


title: P.CSm_5HT_Fev rep4


title: OLF.MOBmi_GABA_PBAV rep2


title: OLF.PIR_glu_Ntsr1.GN209 rep2


title: P.CSm_5HT_Fev rep1


title: OLF.MOBgr_GABA_Sla.KJ303 rep2

source_name: Olfactory (MOBgr)

value: Olfactory (MOBgr)

value: MOBgr


title: OLF.MOBgr_GABA_Sla.KJ303 rep3

value: M


title: OLF.MOBmi_GABA_PBAV rep1


title: OLF.MOBgr_GABA_Sla.KJ303 rep1


title: OLF.MOBgr_GABA_Drd3.KI198 rep2


title: OLF.MOBgr_GABA_Drd3.KI198 rep3


title: OLF.MOBgl_glu_Gpr26.KO250 rep2

source_name: Olfactory (MOBgl)

value: Olfactory (MOBgl)

value: MOBgl


title: OLF.MOBgl_glu_Gpr26.KO250 rep1


title: OLF.COAp_glu_Sla.KJ303 rep1

source_name: Olfactory (COAp)

value: Olfactory (COAp)

value: COAp


title: OLF.MOBgl_glu_Cdhr1.KG66 rep2


title: OLF.COAp_glu_Sla.KJ303 rep2


title: OLF.MOBgl_glu_Cdhr1.KG66 rep3


title: OLF.COAp_glu_Sim1.KJ27 rep4


title: OLF.COAp_glu_Sim1.KJ27 rep3


title: OLF.MOBgl_glu_Cdhr1.KG66 rep1


title: OLF.COAp_glu_PBAU rep1

value: PBAU


title: OLF.COAp_glu_Sim1.KJ27 rep2


title: OLF.COAp_glu_PBAU rep2


title: OLF.COAp_glu_PBAU rep3


title: OLF.AOBmi_glu_Rbp4.KL100 rep2

source_name: Olfactory (AOBmi)

value: Olfactory (AOBmi)

value: AOBmi


title: OLF.AOBgr_GABA_Syt17.NO14 rep3

source_name: Olfactory (AOBgr)

value: Olfactory (AOBgr)

value: AOBgr


title: OLF.AOBmi_glu_Rbp4.KL100 rep3


title: OLF.AOBgr_GABA_Syt17.NO14 rep2


title: OLF.AOB_glu_Gpr26.KO250 rep1

source_name: Olfactory (AOB)

value: Olfactory (AOB)

value: AOB


title: OLF.AOB_glu_Rbp4.KL100 rep1

value: F


title: OLF.AOBgr_GABA_Syt17.NO14 rep1


title: OLF.AOB_glu_Rbp4.KL100 rep2


title: OLF.AOB_glu_Gpr26.KO250 rep2


title: OLF.AOB_glu_Rbp4.KL100 rep3


title: OLF.MOBgr_GABA_Drd3.KI198 rep1


title: OLF.AOB_glu_Gpr26.KO250 rep3


title: OLF.AOB@EPlA_glu_Rbp4.KL100 rep1

source_name: Olfactory (AOB@EPlA)

value: Olfactory (AOB@EPlA)


title: MY.VII_ACh_ChAT rep2

source_name: Medulla (VII)

value: Medulla (VII)

value: ChAT

value: VII


title: OLF.COAp_glu_Sim1.KJ27 rep1

value: M


title: MY.VII_ACh_ChAT rep3


title: MY.RPA_GABA,5HT_Fev rep2

source_name: Medulla (RPA)

value: Medulla (RPA)

value: Fev

value: RPA


title: MY.RPA_GABA,5HT_Fev rep1


title: MY.VII_ACh_ChAT rep1


title: MY.RPA_5HT_Tph2-EGFP rep3


title: MY.RPA_5HT_Tph2-EGFP rep2


title: MY.RPA_GABA,5HT_Fev rep4


title: MY.PRP_glu,GABA_P093 rep3

source_name: Medulla (PRP)

value: Medulla (PRP)

value: PRP


title: MY.RPA_5HT_Tph2-EGFP rep1


title: MY.PRP_glu,GABA_P093 rep1


title: MY.PRP_glu,GABA_P093 rep2


title: MY.NTSm_glu_HSD2-Cre rep2

source_name: Medulla (NTSm)

value: Medulla (NTSm)

value: NTSm


title: MY.NTSm_glu_HSD2-Cre rep3


title: MY.NTSm_glu_HSD2-Cre rep1


title: MY.NTSm_glu_HSD2-Cre rep5


title: OLF.AOB@EPlA_glu_Rbp4.KL100 rep2


title: OLF.AOBmi_glu_Rbp4.KL100 rep1

value: Olfactory (AOBmi)

value: AOBmi


title: MY.NTSm_glu_HSD2-Cre rep6


title: MY.NTSge_GABA_GIN rep1

source_name: Medulla (NTSge)

value: Medulla (NTSge)

value: GIN

value: NTSge


title: MY.NTS_GABA_P118 rep3

source_name: Medulla (NTS)

value: Medulla (NTS)

value: NTS


title: MY.NTSge_GABA_GIN rep3


title: MY.NTSm_glu_HSD2-Cre rep4


title: MY.NTSge_GABA_GIN rep2


title: MY.RPA_GABA,5HT_Fev rep3

value: F


title: OLF.AOB@EPlA_glu_Rbp4.KL100 rep3

value: Olfactory (AOB@EPlA)


title: MY.MV_GABA_TH-GFP rep1

source_name: Medulla (MV)

value: Medulla (MV)

value: TH-GFP

value: MV

value: M


title: MY.MV_GABA_P093 rep2


title: MY.NTS_GABA_P118 rep2


title: MY.IO_glu_Gpr26.KO273 rep3

source_name: Medulla (IO)

value: Medulla (IO)

value: IO


title: MY.MV_GABA_TH-GFP rep2


title: MY.IO_glu_Gpr26.KO273 rep1


title: MY.MV_GABA_P093 rep1


title: MY.DMX_ACh_ChAT rep3

source_name: Medulla (DMX)

value: Medulla (DMX)

value: ChAT

value: DMX


title: MY.IO_glu_Crh.ZJH rep3


title: MY.IO_glu_Crh.ZJH rep2


title: MY.IO_glu_Gpr26.KO273 rep2


title: MY.IO_glu_Crh.ZJH rep1


title: MY.DMX_ACh_ChAT rep1


title: MY.DCO_GABA_Slc6a5.KF109 rep2

source_name: Medulla (DCO)

value: Medulla (DCO)

value: DCO


title: MY.DCO_GABA_Slc6a5.KF109 rep1


title: MY.NTS_GABA_P118 rep1


title: MY.DCO_GABA_P093 rep1


title: MY.AP_GABA_GIN rep3

source_name: Medulla (AP)

value: Medulla (AP)

value: GIN

value: AP


title: MY.AP_GABA_GIN rep2


title: MB.VTA_glu,DA_Syt17.NO14 rep2

source_name: Midbrain (VTA)

value: Midbrain (VTA)

value: VTA


title: MY.AP_GABA_GIN rep1


title: MY.DMX_ACh_ChAT rep2

value: F


title: MB.DR_5HT_Fev rep4

source_name: Midbrain (DR)

value: Midbrain (DR)

value: Fev

value: DR


title: MB.DR_5HT_Fev rep3


title: Isocortex_glu_Ntsr1.GN209 rep1

source_name: Isocortex

value: Isocortex

value: M


title: MB.DR_5HT_Fev rep1


title: Isocortex__GFAP rep4

value: GFAP


title: MB.SNc_DA_TH-GFP rep1

source_name: Midbrain (SNc)

value: Midbrain (SNc)

value: SNc


title: MB.SCm_glu_P118 rep1

source_name: Midbrain (SCm)

value: Midbrain (SCm)

value: SCm


title: MB.SCm_glu_P118 rep2


title: MB.VTA_glu,DA_Syt17.NO14 rep1


title: MB.VTA_glu,DA_Syt17.NO14 rep3


title: MB.SNc_DA_TH-GFP rep2

value: TH-GFP


title: MB.VTA_DA_TH-GFP rep1


title: MB.PAG_GABA_Slc6a5.KF109 rep2

source_name: Midbrain (PAG)

value: Midbrain (PAG)

value: PAG


title: MB.VTA_DA_TH-GFP rep2


title: Isocortex__GFAP rep3


title: MB.SNc_DA_TH-GFP rep3


title: MB.SCm_glu_P118 rep3


title: Isocortex__GFAP rep2


title: Isocortex__GFAP rep1


title: Isocortex_GABA_X98-GFP rep2

source_name: Isocortex (Isocortex@L5/6)

value: Isocortex (Isocortex@L5/6)


title: Isocortex_GABA_X98-GFP rep1


title: Isocortex.VISp@L6_glu_56L rep4

source_name: Isocortex (VISp@L6)

value: Isocortex (VISp@L6)


title: Isocortex_GABA_GIN rep2

value: GIN


title: Isocortex.VISp@L6_glu_56L rep3


title: Isocortex.VISp6a_glu_Ntsr1.GN220 rep1

source_name: Isocortex (VISp6a)

value: Isocortex (VISp6a)

value: F


title: Isocortex.VISp_glu_P078 rep2

source_name: Isocortex (VISp)

value: Isocortex (VISp)

value: VISp


title: Isocortex.VISp6a_glu_Ntsr1.GN220 rep2


title: Isocortex.VISp_glu_P078 rep3


title: Isocortex.VISp6a_glu_Ntsr1.GN220 rep3


title: Isocortex_GABA_GIN rep1

value: Isocortex


title: Isocortex.VISp@L6_glu_56L rep1

value: M


title: Isocortex.VISp_glu_P078 rep4


title: Isocortex.VISp@L6_glu_56L rep2


title: Isocortex.SSp@L7_glu_Gpr26.KO250 rep4

description: Isocortex.SSp@L7_glu_Gpr26.KO250_m142_1308

source_name: Isocortex (SSp@L7)

value: Isocortex (SSp@L7)


title: Isocortex.SSp@L7_glu_Gpr26.KO250 rep2

description: Isocortex.SSp@L7_glu_Gpr26.KO250_m141_1306


title: Isocortex.VISp_glu_P078 rep1


title: MB.DR_5HT_Tph2-EGFP rep1

value: Midbrain (DR)

value: DR


title: MB.DR_5HT_Tph2-EGFP rep4


title: MB.DR_5HT_Tph2-EGFP rep3


title: MB.PAG_GABA_Slc6a5.KF109 rep4


title: MB.DR_5HT_Tph2-EGFP rep5


title: MB.DR_5HT_Tph2-EGFP rep2


title: MB.DR_5HT_Fev rep2

value: Fev


title: MB.PAG_GABA_Slc6a5.KF109 rep3


title: Isocortex.SSp@L5_glu_P084 rep2

source_name: Isocortex (SSp@L5)

value: Isocortex (SSp@L5)


title: MB.IC_glu_Slc17a6.OX23 rep1

source_name: Midbrain (IC)

value: Midbrain (IC)

value: IC


title: MB.PAG_GABA_Slc6a5.KF109 rep1

value: Midbrain (PAG)

value: PAG


title: MB.IC_glu_Slc17a6.OX23 rep2


title: MB.IC_glu_Slc17a6.OX23 rep3


title: Isocortex.SSp@L5_glu_P084 rep1


title: Isocortex.SSp@L5_glu_Gpr26.KO250 rep4

description: Isocortex.SSp@L5_glu_Gpr26.KO250_m97_1086


title: Isocortex.SSp@L5_glu_Gpr26.KO250 rep3

description: Isocortex.SSp@L5_glu_Gpr26.KO250_m97_1085


title: Isocortex.SSp@L7_glu_Gpr26.KO250 rep3

description: Isocortex.SSp@L7_glu_Gpr26.KO250_m142_1307


title: Isocortex.SSp@L5_glu_P084 rep3


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep2

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_m88_573

source_name: Isocortex (SSp-bfd@L2/3)

value: Isocortex (SSp-bfd@L2/3)


title: Isocortex.SSp@L2/3_GABA_Pvalb-Cre rep1

description: Isocortex.SSp@L2/3_GABA_Pvalb-Cre_m204_474

source_name: Isocortex (SSp@L2/3)

value: Isocortex (SSp@L2/3)


title: Isocortex.SSp@L5_glu_Gpr26.KO250 rep1

description: Isocortex.SSp@L5_glu_Gpr26.KO250_m97_1083


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep4

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_m90_576


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep3

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_m90_575


title: Isocortex.SSp@L2/3_GABA_Pvalb-Cre rep3

description: Isocortex.SSp@L2/3_GABA_Pvalb-Cre_f206_477


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep10

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_m72.5_823


title: Isocortex.SSp@L2/3_GABA_Pvalb-Cre rep2

description: Isocortex.SSp@L2/3_GABA_Pvalb-Cre_f205_475


title: MB.DR_5HT_Tph2-EGFP rep6


title: Isocortex.SSp@L7_glu_Gpr26.KO250 rep1

description: Isocortex.SSp@L7_glu_Gpr26.KO250_m141_1305


title: Isocortex.SSp@L5_glu_Gpr26.KO250 rep2

description: Isocortex.SSp@L5_glu_Gpr26.KO250_m97_1084


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep1

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_f66_556


title: Isocortex.RSPv_glu_P162 rep1

source_name: Isocortex (RSPv)

value: Isocortex (RSPv)

value: RSPv


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep5

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_f97_578

value: F


title: Isocortex.RSPv_glu_P162 rep2


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep8

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_f68_821


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep6

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_f66_588


title: Isocortex.RSPv_glu,GABA_Gng7.KH67 rep3

description: Isocortex.RSPv_glu,GABA_Gng7.KH67_m112_677


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep7

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_f103_819


title: Isocortex.SSp-bfd@L2/3_glu_wt.beads rep9

description: Isocortex.SSp-bfd@L2/3_glu_wt.beads_f69_822


title: Isocortex.RSPv_glu,GABA_Gng7.KH67 rep1

description: Isocortex.RSPv_glu,GABA_Gng7.KH67_m65_675


title: Isocortex.ORBm_glu_P157 rep3

source_name: Isocortex (ORBm)

value: Isocortex (ORBm)

value: ORBm


title: Isocortex.MOp5_glu_Rbp4.KL100 rep1

source_name: Isocortex (MOp5)

value: Isocortex (MOp5)

value: M


title: Isocortex.ORBm_glu_P157 rep4


title: Isocortex.ORBm_glu_P157 rep1


title: Isocortex.MOp5__Cx3cr1-GFP rep3


title: Isocortex.MOp5__Cx3cr1-GFP rep2


title: Isocortex.MOp5__Cx3cr1-GFP rep1


title: Isocortex.MO_glu_Grp.KH288 rep2

source_name: Isocortex (MO)

value: Isocortex (MO)

value: MO


title: Isocortex.ECT@L6_glu_P038 rep1

source_name: Isocortex (ECT@L6)

value: Isocortex (ECT@L6)


title: Isocortex.AI_glu_P157 rep2

source_name: Isocortex (AI)

value: Isocortex (AI)

value: AI


title: Isocortex.ECT@L6_glu_P038 rep3


title: Isocortex.AI_glu_P157 rep1


title: Isocortex.AI_glu_P157 rep3


title: Isocortex.MO_glu_Grp.KH288 rep1


title: Isocortex.ECT_glu_Sla.KJ303 rep1

source_name: Isocortex (ECT)

value: Isocortex (ECT)

value: ECT


title: Isocortex.ECT@L6_glu_P038 rep2


title: Isocortex.ECT_glu_Sla.KJ303 rep2


title: Isocortex.RSPv_glu,GABA_Gng7.KH67 rep2

description: Isocortex.RSPv_glu,GABA_Gng7.KH67_m65_676


title: Isocortex.AI_glu_Grp.KH288 rep1


title: HY.SO_glu_AVP.QZ20 rep6

source_name: Hypothalamus (SO)

value: Hypothalamus (SO)

value: SO


title: HY.SO_glu_AVP.QZ20 rep5


title: HY.SO_glu_AVP.QZ20 rep4


title: HY.SO_glu_AVP.QZ20 rep3


title: HY.SFO_glu,GABA_Grm2.MR90 rep1

source_name: Hypothalamus (SFO)

value: Hypothalamus (SFO)

value: SFO


title: Isocortex.ORBm_glu_P157 rep2


title: Isocortex.AI_glu_Grp.KH288 rep2


title: HY.SCH_GABA_AVP.QZ20 rep2

source_name: Hypothalamus (SCH)

value: Hypothalamus (SCH)

value: SCH


title: HY.SO_glu_AVP.QZ20 rep2


title: HY.SO_glu_AVP.QZ20 rep1

value: F


title: HY.SCH_GABA_AVP.QZ20 rep4


title: HY.PVHp_glu_AVP.QZ20 rep1

source_name: Hypothalamus (PVHp)

value: Hypothalamus (PVHp)

value: PVHp


title: HY.PVHp_glu_AVP.QZ20 rep3


title: HY.PVHd_glu_MCH rep1

source_name: Hypothalamus (PVHd)

value: Hypothalamus (PVHd)

value: MCH

value: PVHd

value: M


title: HY.PVHp_glu_AVP.QZ20 rep2


title: HY.PVH_glu_Oxytocin-GFP rep1

source_name: Hypothalamus (PVH)

value: Hypothalamus (PVH)

value: Oxytocin-GFP

value: PVH


title: HY.PVH_glu_Oxytocin-GFP rep2


title: HY.PVH_glu_Oxytocin-GFP rep3


title: HY.PVH_glu_Oxytocin-GFP rep4


title: HY.PVH_glu_Crh.ZJH rep2


title: HY.PVHd_glu_MCH rep3


title: HY.PVH_glu_Oxytocin-GFP rep5


title: HY.SFO_glu,GABA_Gng7.KH67 rep2


title: HY.PVH_glu_Crh.ZJH rep1


title: HY.MPN_GABA_P170 rep4

source_name: Hypothalamus (MPN)

value: Hypothalamus (MPN)

value: MPN


title: HY.MPN_GABA_P170 rep1


title: HY.MM_glu_Slc17a6.OX23 rep3

source_name: Hypothalamus (MM)

value: Hypothalamus (MM)

value: MM


title: HY.MPN_GABA_P170 rep3


title: HY.MM_glu_HSD2-Cre rep1


title: HY.SCH_GABA_AVP.QZ20 rep1


title: HY.MPN_GABA_P170 rep2


title: HY.SCH_GABA_AVP.QZ20 rep3


title: HY.MM_glu_Slc17a6.OX23 rep2


title: HY.MM_glu_Slc17a6.OX23 rep1


title: HY.LHA_glu_MCH rep1

source_name: Hypothalamus (LHA)

value: Hypothalamus (LHA)

value: LHA


title: HY.LHA_glu_MCH rep3


title: HY.DMHp_glu_Grp.KH288 rep1

source_name: Hypothalamus (DMHp)

value: Hypothalamus (DMHp)

value: DMHp


title: HY.ARH_glu_Pomc-GFP rep4

source_name: Hypothalamus (ARH)

value: Hypothalamus (ARH)

value: Pomc-GFP

value: ARH


title: HY.ARH_glu_Pomc-GFP rep5


title: HY.ARH_glu_Pomc-GFP rep7


title: HY.ARH_glu_Pomc-GFP rep6


title: HY.SFO_glu,GABA_Gng7.KH67 rep1

value: Hypothalamus (SFO)

value: SFO

value: F


title: HY.PVHd_glu_MCH rep2

value: Hypothalamus (PVHd)

value: MCH

value: PVHd

value: M


title: HY.ARH_glu_Pomc-GFP rep3


title: HY.ARH_glu_Pomc-GFP rep1


title: HY.ARH_GABA_NPY-hrGFP rep4

value: NPY-hrGFP


title: HY.ARH_GABA_NPY-hrGFP rep7


title: HY.ARH_GABA_NPY-hrGFP rep6


title: HY.ARH_GABA_NPY-hrGFP rep5


title: HY.LHA_glu_MCH rep2


title: HY.ARH_glu_Pomc-GFP rep8


title: HPF.SUBd-sp_glu_P162 rep1

source_name: Hippocampus (SUBd-sp)

value: Hippocampus (SUBd-sp)

value: SUBd-sp


title: HY.ARH_GABA_NPY-hrGFP rep2


title: HPF.SUBd-sp_glu_P084 rep1


title: HPF.SUBd-sp_glu_P084 rep2


title: HY.ARH_GABA_NPY-hrGFP rep1


title: HPF.IG_glu_P157 rep2

source_name: Hippocampus (IG)

value: Hippocampus (IG)

value: IG


title: HPF.IG_glu_P157 rep1


title: HPF.IG_glu_Gng7.KH67 rep3


title: HPF.DG_glu_Syt17.NO14 rep3

source_name: Hippocampus (DG)

value: Hippocampus (DG)

value: DG


title: HPF.DG_glu_Syt17.NO14 rep1


title: HPF.IG_glu_Gng7.KH67 rep2


title: HPF.DG_glu_PlxnD1.OG1 rep2


title: HPF.DG_glu_PlxnD1.OG1 rep1


title: HY.ARH_glu_Pomc-GFP rep2

value: Hypothalamus (ARH)


title: HPF.DG_glu_Syt17.NO14 rep2


title: HPF.DG_glu_Ntsr1.GN220 rep2


title: HY.LHA__MCH rep1

value: Hypothalamus (LHA)

value: LHA


title: HY.ARH_GABA_NPY-hrGFP rep3

value: ARH


title: HPF.DG_glu_Grm2.MR90 rep1


title: HPF.DG_glu_Grm2.MR90 rep2


title: HPF.DG_glu_Grm2.MR90 rep3


title: HPF.DG_glu_Gng7.KH67 rep2


title: HPF.DG_glu_Gng7.KH67 rep3


title: HPF.DG__Pomc-GFP rep2

value: Pomc-GFP


title: HPF.DG__Pomc-GFP rep3

value: F


title: HPF.DG_glu_Cnnm2.KD19 rep1


title: HPF.DG_glu_Gng7.KH67 rep1


title: HPF.IG_glu_Gng7.KH67 rep1


title: HPF.CA_GABA_GIN rep3

source_name: Hippocampus (CA)

value: Hippocampus (CA)

value: GIN

value: CA


title: HPF.CA_GABA_GIN rep1

value: M


title: HPF.CA3_glu_Tmem90.TD24 rep2

source_name: Hippocampus (CA3)

value: Hippocampus (CA3)


title: HPF.CA3_glu_Tmem90.TD24 rep1


title: HPF.CA_GABA_GIN rep2


title: HPF.CA3_glu_Tmem90.TD24 rep3


title: HPF.CA3_glu_Tmem90.TD24 rep5


title: HPF.CA3_glu_Tmem90.TD24 rep6


title: HPF.CA3_glu_Tmem90.TD24 rep4


title: HPF.DG_glu_Ntsr1.GN220 rep1


title: HPF.CA3_glu_Grp.KH288 rep2


title: HPF.CA3_glu_Grp.KH288 rep1


title: HPF.CA3_GABA_GIN rep2


title: HPF.CA3_GABA_GIN rep1


title: HPF.CA3_GABA_GIN rep3


title: HPF.DG__Pomc-GFP rep1


title: HPF.CA1sp_glu_P084 rep2

source_name: Hippocampus (CA1sp)

value: Hippocampus (CA1sp)


title: HPF.CA1sp_glu_P084 rep3


title: HPF.CA1_glu_Cnnm2.KD19 rep2

source_name: Hippocampus (CA1)

value: Hippocampus (CA1)


title: HPF.CA1_GABA_SST23.2D2.virus rep2


title: HPF.CA1_GABA_SST23.2D2.virus rep1


title: HPF.CA1sp_glu_P084 rep1


title: HPF.CA1_glu_Cnnm2.KD19 rep1


title: HPF.CA1_GABA_Pvalb-Cre.virus rep1


title: HPF.CA3_glu_Grp.KH288 rep3


title: HPF.CA1_GABA_Pvalb-Cre.virus rep3


title: HPF.CA1_GABA_Pvalb-Cre.virus rep2


title: CTXsp.CLA_glu_Sla.KJ319 rep1

source_name: Cortical Subplate (CLA)

value: Cortical Subplate (CLA)

value: CLA


title: CTXsp.CLA_glu_Sla.KJ319 rep2


title: CB.UVU__Cx3cr1-GFP rep3

source_name: Cerebellum (UVU)

value: Cerebellum (UVU)

value: UVU


title: CTXsp.CLA_glu_Sla.KJ319 rep4


title: CB.UVU__Cx3cr1-GFP rep1


title: CB.NODgr_glu_TCLC rep2

source_name: Cerebellum (NODgr)

value: Cerebellum (NODgr)

value: TCLC

value: NODgr


title: CTXsp.CLA_glu_Sla.KJ319 rep3


title: CB.NODgr_glu_TCLC rep1


title: CB.CUL4, 5pu_GABA_Slc6a5.KF109 rep2

description: CB.CUL4, 5pu_GABA_Slc6a5.KF109_m178_669

source_name: Cerebellum (CUL4, 5pu)

value: Cerebellum (CUL4, 5pu)

value: CUL4, 5pu


title: CB.PYRpu_GABA_Pcp2 rep1

source_name: Cerebellum (PYRpu)

value: Cerebellum (PYRpu)

value: PYRpu


title: CB.UVU__Cx3cr1-GFP rep2


title: CB.CUL4, 5pu_GABA_Slc6a5.KF109 rep3

description: CB.CUL4, 5pu_GABA_Slc6a5.KF109_m88_670


title: CB.CUL4, 5pu_GABA_Slc6a5.KF109 rep1

description: CB.CUL4, 5pu_GABA_Slc6a5.KF109_m178_668


title: CB.CUL4, 5pu_GABA_PlxnD1.OG1 rep2

description: CB.CUL4, 5pu_GABA_PlxnD1.OG1_f52_169

value: F


title: CB.CUL4, 5pu_GABA_PlxnD1.OG1 rep3

description: CB.CUL4, 5pu_GABA_PlxnD1.OG1_f52_170


title: CB.CUL4, 5pu_GABA_PlxnD1.OG1 rep1

description: CB.CUL4, 5pu_GABA_PlxnD1.OG1_f51_168