title: Atlas WT single cell 1290

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1329

status: Public on Nov 06 2017

type: SRA

city: Boston

first: Adam

last: Haber

state: Massachusetts

address: 665 Huntington Ave, HSPH Building 1, Room 305

country: USA

institute: Harvard T. H. Chan School of Public Health

description: Full-length RNAseq (SMART-Seq2)

library_source: transcriptomic

data_processing:
3' polyA RNA-seq
CellRanger 1.0
PCA (prcomp in R)
kNN-based graph clustering (R code)
Full-length RNAseq (SMART-Seq2)
Tophat
Bowtie
RSEM
Genome_build: mm10
Supplementary_files_format_and_content: 3' polyA RNA-seq: UMI count expression values for each gene (rows) in each cell (columns)
Supplementary_files_format_and_content: Full-length RNAseq (SMART-Seq2): Transcripts per million (TPM) expression values (derived from RSEM  for each gene (rows) in each cell (columns)

molecule: total RNA

organism: Mus musculus

source_name: WT Mouse intestinal epithelial cells

extract_protocol:
3' polyA RNA seq
10X Genomics Chromium Prep
Full length RNAseq (SMART-Seq2)

tag: stain

tag: genotype

value: Wild type

tag: treatment


title: Atlas WT single cell 1287

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1286

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1284

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1282

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1285

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1283

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1281

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1301

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1280

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1276

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1278

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1279

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1277

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1274

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1273

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1272

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1270

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1266

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1269

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1267

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1264

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1263

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1260

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1261

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1262

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1258

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1259

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1257

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1265

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1256

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1253

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1251

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1250

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1254

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1255

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1252

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1275

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1249

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1247

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1248

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1268

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1246

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1244

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1271

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1243

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1241

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1235

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1237

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1242

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1236

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1232

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1234

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1228

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1233

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1229

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1231

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1238

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1230

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1227

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1223

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1226

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1221

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1220

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1218

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1225

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1215

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1214

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1224

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1212

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1213

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1209

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1207

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1205

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1204

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1201

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1193

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1245

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1208

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1239

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1194

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1203

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1206

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1240

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1211

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1210

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1222

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1219

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1216

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1192

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1202

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1200

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1190

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1189

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1188

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1217

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1199

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1197

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1198

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1191

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1196

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1186

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1195

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1187

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1184

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1183

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1180

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1182

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1178

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1179

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1185

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1171

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1174

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1176

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1167

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1175

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1168

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1173

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1181

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1177

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1166

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1164

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1165

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1162

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1159

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1161

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1157

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1158

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1160

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1154

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1151

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1170

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1156

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1153

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1152

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1172

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1155

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1148

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1147

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1150

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1169

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1146

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1145

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1142

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1143

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1140

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1139

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1163

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1141

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1138

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1135

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1133

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1132

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1134

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1131

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1149

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1130

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1127

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1128

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1129

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1125

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1124

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1144

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1126

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1119

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1120

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1123

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1118

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1115

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1116

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1137

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1113

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1112

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1114

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1136

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1109

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1111

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1110

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1108

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1107

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1105

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1122

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1106

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1099

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1103

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1101

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1096

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1104

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1098

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1102

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1093

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1117

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1094

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1095

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1092

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1082

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1090

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1085

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1089

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1088

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1087

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1084

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1081

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1100

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1091

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1076

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1074

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1070

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1069

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1075

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1073

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1068

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1077

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1072

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1086

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1066

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1065

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1078

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1071

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1083

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1079

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1080

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1064

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1060

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1062

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1059

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1056

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1058

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1057

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1055

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1063

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1061

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1067

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1054

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1046

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1048

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1044

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1052

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1049

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1053

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1050

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1051

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1042

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1043

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1041

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1040

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1045

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1039

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1038

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1030

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1029

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1034

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1028

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1033

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1035

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1037

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1036

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1027

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1031

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1047

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1026

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1025

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1023

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1024

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1020

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1019

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1018

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1021

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1017

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1016

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1014

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1015

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1032

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1011

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1013

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1012

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1009

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1007

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1010

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1008

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1004

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1006

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1002

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1005

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1000

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1001

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1022

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 999

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 996

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 997

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 998

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 995

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 992

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 990

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 989

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 994

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 991

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 986

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 985

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 988

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 984

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1003

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 987

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 982

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 983

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 979

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 978

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 977

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 976

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 980

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 975

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 974

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 973

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 993

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 971

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 970

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 968

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 969

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 967

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1097

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 966

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 965

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 963

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 981

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 961

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 962

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 960

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 959

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 958

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 954

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 955

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 953

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 957

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 952

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 956

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 949

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 950

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 951

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 946

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 972

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 947

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 945

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 944

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 943

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 941

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 964

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 942

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 940

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 939

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 938

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 937

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 935

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 936

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 948

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 925

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 933

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 934

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 924

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 927

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 926

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 922

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 928

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 931

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 932

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1121

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 923

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 930

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 920

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 921

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 919

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 917

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 918

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 916

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 914

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 912

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 910

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 909

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 908

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 907

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 906

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 929

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 904

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 903

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 902

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 915

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 896

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 900

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 891

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 905

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 895

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 898

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 897

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 901

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 889

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 892

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 894

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 885

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 884

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 883

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 882

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 890

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 911

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 888

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 887

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 881

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 880

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 886

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 879

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 893

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 870

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 872

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 868

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 869

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 878

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 877

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 876

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 874

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 863

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 862

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 873

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 860

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 871

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 858

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 875

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 867

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 864

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 865

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 861

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 859

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 913

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 857

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 851

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 866

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 855

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 854

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 853

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 845

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 847

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 843

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 848

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 850

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 844

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 849

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 852

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 842

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 839

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 840

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 837

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 856

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 838

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 836

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 832

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 841

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 831

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 835

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 833

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 827

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 830

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 826

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 829

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 846

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 825

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 828

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 824

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 823

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 821

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 820

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 822

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 817

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 819

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 818

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 816

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 811

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 813

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 809

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 814

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 812

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 834

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 815

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 805

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 807

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 806

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 804

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 803

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 801

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 802

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 797

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 798

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 796

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 794

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 795

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 793

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 789

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 790

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 808

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 787

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 810

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 786

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 791

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 788

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 780

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 799

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 781

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 778

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 783

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 785

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 800

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 776

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 775

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 782

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 773

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 777

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 899

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 772

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 792

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 771

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 768

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 784

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 767

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 766

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 765

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 763

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 764

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 779

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 760

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 761

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 759

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 758

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 756

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 753

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 755

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 757

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 774

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 754

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 752

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 751

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 749

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 750

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 748

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 745

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 746

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 770

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 769

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 744

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 743

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 742

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 740

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 762

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 739

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 738

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 737

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 736

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 735

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 734

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 733

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 731

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 730

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 732

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 729

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 728

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 725

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 727

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 723

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 726

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 724

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 722

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 721

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 720

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 716

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 717

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 719

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 741

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 714

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 718

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 709

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 708

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 712

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 715

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 713

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 707

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 711

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 706

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 710

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 702

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 701

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 703

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 699

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 698

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 696

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 697

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 695

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 694

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 693

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 692

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 691

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 690

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 689

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 688

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 686

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 685

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 687

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 683

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 747

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 705

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 704

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 681

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 700

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 684

description: Full-length RNAseq (SMART-Seq2)


title: RO_RANKL_Day3_Rep1

data_processing:
3' polyA RNA-seq
CellRanger 1.0
PCA (prcomp in R)
kNN-based graph clustering (R code)
Genome_build: mm10
Supplementary_files_format_and_content: 3' polyA RNA-seq. The expression levels for each gene (rows) in each single cell (column) in UMI counts as calculated using the CellRanger pipeline. Each column header provides the sequencing batch id, the cell barcode, and the cell type as identified by cluster analysis. Each ID is seperated by '_'

source_name: Intestinal organoid epithelial cells

extract_protocol:
3' polyA RNA seq
10X Genomics Chromium Prep

tag: strain

value: treated with RANKL (100 ng ml−1)

tag: time point

value: 3 days after RANKL treatment

value: Wild-type


title: RO_RANKL_Day6_Rep1

value: 6 days after RANKL treatment


title: RO_RANKL_Day6_Rep2


title: RO_Control_Rep4


title: RO_Control_Rep3


title: Salmonella/H.poly infection (Salmonella - Mouse1)

value: Infection with 10^8 Salmonella enterica

value: 2 days after infection


title: Salmonella/H.poly infection (Salmonella- Mouse2)


title: RO_Control_Rep2


title: Salmonella/H.poly infection (H.poly day3 - Mouse2)

value: Infection with 200 third-stage larvae of H. polygyrus

value: 3 days after infection


title: Salmonella/H.poly infection (H.poly day10 - Mouse2)

value: 10 days after infection


title: RO_Control_Rep1


title: SH_Control_Rep4 Salmonella/H.poly infection (Control-Mouse4) [Atlas batch 8]


title: Atlas WT single cell 682

description: Full-length RNAseq (SMART-Seq2)


title: SH_Control_Rep2 Salmonella/H.poly infection (Control-Mouse2) [Atlas batch 4]


title: Atlas10 Small intestinal atlas - Batch 10


title: SH_Control_Rep1 Salmonella/H.poly infection (Control-Mouse1) [Atla sbatch 3]


title: SH_Control_Rep3 Salmonella/H.poly infection (Control-Mouse3) [Atlas batch 7]


title: Atlas5 Small intestinal atlas - Batch 5


title: Salmonella/H.poly infection (H.poly day10 - Mouse1)


title: RO_RANKL_Day3_Rep2


title: Atlas6 Small intestinal atlas - Batch 6


title: Atlas1 Small intestinal atlas - Batch 1


title: Salmonella infection M4

description:
3' polyA RNA-seq. The expression levels for each gene (rows) in each single cell (column) in UMI counts as calculated using the CellRanger pipeline. Each column header provides the sequencing batch id, the cell barcode, and the cell type as identified by cluster analysis. Each ID is seperated by '_'
SalmonellaInfect_UMIcounts.txt

data_processing:
3' polyA RNA-seq
CellRanger 1.0
PCA (prcomp in R)
kNN-based graph clustering (R code)
Supplementary_files_format_and_content: UMI count expression values for each gene (rows) in each cell (columns)

source_name: Intestinal epithelial cells extracted from WT mouse small intestine during infection with Salmonella Enterica

tag: agent

value: Salmonella Enterica

tag: tissue

value: small intestine


title: Atlas9 Small intestinal atlas - Batch 9


title: Salmonella infection M3


title: Atlas2 Small intestinal atlas - Batch 2


title: Salmonella infection M2


title: Salmonella infection M1


title: Salmonella/H.poly infection (H.poly day3 - Mouse1)


title: Atlas WT single cell 1521

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1522

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1520

description: Full-length RNAseq (SMART-Seq2)


title: Large cell sort M2_B7

description:
3' polyA RNA-seq. The expression levels for each gene (rows) in each single cell (column) in UMI counts as calculated using the CellRanger pipeline. Each column header provides the sequencing batch id, the cell barcode, and the cell type as identified by cluster analysis. Each ID is seperated by '_'
LargeCellSort_UMIcounts.txt

source_name: Intestinal epithelial cells extracted from WT mouse small intestine, isolated using a FACS sorting protocol designed to enriched for large cells, particularly Paneth cells

value: Large cell sort


title: Regional - Ileum M1

description:
3' polyA RNA-seq. The expression levels for each gene (rows) in each single cell (column) in UMI counts as calculated using the CellRanger pipeline. Each column header provides the sequencing batch id, the cell barcode, and the cell type as identified by cluster analysis. Each ID is seperated by '_'
Regional_UMIcounts.txt
EEC_UMIcounts.txt

source_name: Intestinal epithelial cells extracted from from WT mouse ileum

value: Regional - Ileum


title: Large cell sort M1_B1


title: Large cell sort M2_B6


title: Large cell sort M1_B2


title: Large cell sort M1_B4


title: Large cell sort M1_B3


title: Large cell sort M1_B5


title: Regional - Ileum M2


title: Atlas WT single cell 1517

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1519

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1518

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1516

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1508

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1507

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1510

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1511

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1506

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1503

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1505

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1513

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1502

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1515

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1514

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1501

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1499

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1500

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1512

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1495

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1497

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1494

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1487

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1509

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1491

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1496

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1498

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1492

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1488

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1493

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1490

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1483

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1486

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1480

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1504

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1477

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1482

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1484

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1489

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1479

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1478

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1481

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1485

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1475

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1476

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1474

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1473

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1471

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1470

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1469

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1467

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1463

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1462

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1466

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1465

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1461

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1457

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1453

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1456

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1458

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1454

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1455

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1452

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1459

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1448

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1451

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1447

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1450

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1446

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1449

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1445

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1472

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1444

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1468

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1464

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1438

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1442

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1440

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1441

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1437

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1460

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1439

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1436

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1428

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1434

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1435

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1432

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1426

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1433

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1424

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1431

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1423

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1425

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1421

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1427

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1419

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1420

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1422

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1429

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1443

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1416

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1417

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1418

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1415

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1414

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1413

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1412

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1430

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1411

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1410

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1409

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1407

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1408

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1403

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1402

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1406

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1398

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1405

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1404

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1400

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1401

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1397

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1396

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1395

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1399

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1393

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1394

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1392

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1391

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1390

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1389

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1387

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1385

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1384

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1386

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1383

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1377

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1382

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1379

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1381

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1378

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1375

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1376

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1371

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1372

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1369

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1374

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1370

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1373

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1368

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1367

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1364

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1365

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1366

description: Full-length RNAseq (SMART-Seq2)


title: Salmonella/H.poly Cell 384

description: Full-length RNAseq (SMART-Seq2) reads

value: H. polygyrus (Day 3)


title: Atlas WT single cell 1388

description: Full-length RNAseq (SMART-Seq2)


title: Atlas WT single cell 1363

description: Full-length RNAseq (SMART-Seq2)


title: Salmonella/H.poly Cell 386

description: Full-length RNAseq (SMART-Seq2) reads

value: Salmonella


title: Salmonella/H.poly Cell 387

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 374

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 372

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 385

description: Full-length RNAseq (SMART-Seq2) reads


title: Atlas WT single cell 1380

description: Full-length RNAseq (SMART-Seq2)


title: Salmonella/H.poly Cell 383

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 367

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 366

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 382

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 364

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 380

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 361

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 378

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 381

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 379

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 360

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 375

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 377

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 376

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 356

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 357

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 365

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 352

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 369

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 373

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 362

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 368

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 351

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 343

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 344

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 340

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 359

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 358

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 371

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 336

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 334

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 370

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 355

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 329

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 327

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 363

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 353

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 354

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 326

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 349

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 347

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 346

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 324

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 342

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 323

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 322

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 332

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 341

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 321

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 339

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 338

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 350

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 319

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 318

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 317

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 316

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 335

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 314

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 312

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 348

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 313

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 333

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 310

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 345

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 309

description: Full-length RNAseq (SMART-Seq2) reads

value: H. polygyrus (Day 10)


title: Salmonella/H.poly Cell 330

description: Full-length RNAseq (SMART-Seq2) reads

value: Wild type


title: Salmonella/H.poly Cell 331

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 328

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 303

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 302

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 301

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 325

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 299

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 337

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 320

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 315

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 295

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 311

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 308

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 294

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 307

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 286

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 306

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 297

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 283

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 305

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 304

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 293

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 278

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 279

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 300

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 298

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 290

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 296

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 274

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 273

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 292

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 289

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 291

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 288

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 287

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 285

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 271

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 282

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 280

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 268

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 267

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 281

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 263

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 266

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 261

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 275

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 272

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 258

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 257

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 277

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 276

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 270

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 265

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 264

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 262

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 269

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 260

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 259

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 245

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 253

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 256

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 252

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 284

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 242

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 254

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 244

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 239

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 255

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 249

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 248

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 247

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 236

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 235

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 251

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 246

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 243

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 240

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 241

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 238

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 234

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 233

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 232

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 225

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 230

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 227

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 228

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 226

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 250

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 229

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 231

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 217

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 219

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 211

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 224

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 222

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 223

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 221

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 220

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 209

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 205

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 204

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 218

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 237

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 215

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 216

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 214

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 213

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 210

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 208

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 212

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 203

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 202

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 195

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 200

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 194

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 198

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 199

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 192

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 207

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 206

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 196

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 197

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 193

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 201

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 187

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 191

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 190

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 189

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 188

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 183

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 181

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 180

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23625_MeA

city: Atlanta

first: Donna

middle: L

last: Maney

state: GA

address: 1510 Clifton Rd NE Rm 2006

institute: Emory University

description:
NCBI_plus_Zal2m_minqual0_htseq-count_table.txt
Male MeA 10W 9T NCBI_2m_MinQual0 VST_13426.csv

data_processing:
The reference genome (Zonotrichia albicollis 1.0.1, GCA_000385455.1), was generated from a bird homozygous for the ZAL2 haplotype.  In order to eliminate potential mapping bias against reads that originated from the ZAL2m chromosome, we created an enhanced reference genome that contained sequences representing both ZAL2 and ZAL2m haplotypes within the inversion. To create this enhanced version of the white-throated sparrow genome, we first performed a ~30x whole-genome shotgun sequencing of a ‘superwhite’ bird homozygous for the ZAL2m chromosome (Horton et al., 2013, SRA accession pending). Novoalign (novocraft.com, version 3.00.05) was used to map the reads to the reference genome using ‘-r RANDOM –I PE 510,150 -0 SAM’ option. To identify single nucleotide substitutions (SNPs) between the ZAL2 and ZAL2m chromosomes, Samtools (Li et al., 2009) was used to call SNPs between the reference genome and the superwhite genome. High-quality (genotype quality score = 99) homozygous non-reference SNPs were then used to generate alternative contigs representing ZAL2m sequences within the inversion (Supplemental File 1). To create these ZAL2m contigs, we first identified NCBI genome contigs that mapped to ZAL2 via orthology with zebra finch chromosome 3 (Davis et al., 2011; Romanov et al., 2011) based on sequence similarity and gene annotations. We then created ZAL2 m versions of the contigs that mapped within the inversion using the GATK tool FastaAlternativeReferenceMaker (McKenna, et al., 2010). We also generated assemblies of rRNA and the mitochondrial genome derived from these whole-genome shotgun sequences (Supplemental Files 2-3). Our final enhanced reference genome was composed of the NCBI reference genome (Zonotrichia albicollis 1.0.1) plus ZAL2m versions of contigs located within the inversion, rRNAs, and a mitochondrial genome.
Sequenced reads were mapped to the enhanced reference genome using the STAR aligner (Dobin et al, 2013), with the parameter outFilterMultimapNmax=2. Reads that did map within the inversion to both the reference and alternative contigs were then filtered to retain just the primary mapping location. All other dual mappings were excluded. Retained mappings to the alternate contigs were relabeled to conform to the unmodified reference contig names.
Reads were assigned to genes using htseq-count (Anders et al., 2015) based on NCBI RefSeq annotations.
Samples were divided into two datsets based on morph. Within each dataset, genes with 0 reads in more than half the samples were removed. Reads were then transformed using the 'varianceStabilizingTransformation' function in DeSeq2 implemented in R.
Supplementary_files_format_and_content: Tab delineated text file containing gene read counts for each sample and comma delineated text files containing variance stabilizing transformed read counts for each sample.

organism: Zonotrichia albicollis

source_name: Medial amygdala

extract_protocol:
Brains were quickly removed and flash frozen on dry ice. Brains were cryosectioned at 300um thickness and regions of interest (HYP and MeA) regions were micro dissectied from frozen setions using a 1mm punch tool. A total of 4 punches were collected from each bird and region and were pooled for RNA extraction. RNA was extracted using the Qiagen Allprep DNA/RNA micro kit with modification, as follows. Punches were homogenized in RLT plus + β-mercaptoethanol using a pellet mixer. An equal volume of phenol:chloroform:isoamyl alcohol (25:24:1) pH 7.5 was added to each sample. Samples were further homogenized by passing them through a Qiashredder column (Qiagen). Phases were separated by spinning for 15 min at 4°C, and the aqueous phase was collected and further processed according to the manufacturer’s protocol.
Libraries were prepped using Illumina TruSeq RNA Sample Preparation Kit v2. Libraries were constructed using 250 ng total RNA.

tag: Sex

value: M

value: Medial amygdala

tag: morph

value: WS

tag: Stage

value: E

tag: age

value: ASY


title: Salmonella/H.poly Cell 185

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 184

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 186

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 182

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23710_MeA

value: SY


title: Sample_23617_MeA

value: I


title: Salmonella/H.poly Cell 179

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 178

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23604_MeA


title: Sample_23601_MeA


title: Sample_23600_MeA


title: Sample_23602_MeA


title: Salmonella/H.poly Cell 177

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 175

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23599_MeA


title: Salmonella/H.poly Cell 176

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 171

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 172

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23540_MeA

value: L


title: Sample_23596_MeA


title: Sample_23711_MeA

value: TS


title: Salmonella/H.poly Cell 170

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23626_MeA

value: L/I


title: Salmonella/H.poly Cell 169

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23623_MeA


title: Salmonella/H.poly Cell 168

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23620_MeA


title: Salmonella/H.poly Cell 167

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23610_MeA


title: Sample_23608_MeA


title: Sample_23615_MeA


title: Salmonella/H.poly Cell 163

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 164

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23607_MeA


title: Sample_23710_Hyp

description:
NCBI_plus_Zal2m_minqual0_htseq-count_table.txt
Male Hyp 10W 9T NCBI_2m_MinQual0 VST_13605.csv

source_name: Hypothalamus

value: Hypothalamus


title: Salmonella/H.poly Cell 162

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23625_Hyp


title: Salmonella/H.poly Cell 161

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 165

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 173

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23617_Hyp


title: Salmonella/H.poly Cell 174

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 160

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23705_MeA


title: Sample_23604_Hyp


title: Salmonella/H.poly Cell 159

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 158

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23601_Hyp


title: Salmonella/H.poly Cell 157

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 155

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23599_Hyp


title: Sample_23596_Hyp


title: Sample_23540_Hyp


title: Salmonella/H.poly Cell 166

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 154

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 153

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23711_Hyp


title: Salmonella/H.poly Cell 152

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 150

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 149

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23620_Hyp


title: Sample_23623_Hyp


title: Sample_23615_Hyp


title: Salmonella/H.poly Cell 148

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23626_Hyp


title: Salmonella/H.poly Cell 151

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 146

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23610_Hyp


title: Salmonella/H.poly Cell 147

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23608_Hyp


title: Sample_23602_Hyp


title: Sample_23600_Hyp


title: Salmonella/H.poly Cell 156

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 145

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 144

description: Full-length RNAseq (SMART-Seq2) reads


title: Sample_23607_Hyp


title: Salmonella/H.poly Cell 142

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 143

description: Full-length RNAseq (SMART-Seq2) reads


title: whole5

city: Seattle

first: Jay

last: Parrish

state: Washington

department: Department of Biology

institute: University of Washington

description: Larvae were homogenized with a pipette tip and snap frozen in lysis buffer

data_processing:
Bases were called and reads were demultiplexed with Illumina CASAVA 1.8.2
Reads were aligned to the transcriptome using STAR version 2.5.2b with the option ‘--quantMode TranscriptomeSAM’
Transcript expression per sample, in transcripts per million (TPM), was calculated with Salmon version 0.7.2 in alignment based mode
Gene expression per sample, in transcripts per million (TPM), was calculated by summing the transcript expression for all transcripts of a given gene
Genome_build: FlyBase genome release 6.10
Supplementary_files_format_and_content: Tab delimited text files showing tpm for all genes for each sample

organism: Drosophila melanogaster

source_name: whole larva

extract_protocol:
Total RNA was isolated with the RNAqueous Micro Kit (Ambion AM1931), converted to cDNA, and pre-amplified as described in the SMARTer Ultra-low input kit (Clontech PN 634833) but with modified procedures for low cell number analysis (Fluidigm)
RNA libraries were prepared for sequencing following Illumina protocols.  cDNA libraries were diluted to 0.25ng/ul, fragmented with the Nextera XT DNA kit (Illumina PN FC-131-1024), multiplexed, and sequenced on a Hi-Seq2500

tag: developmental stage

value: third instar

value: ppk-Gal4 > UAS-Red Stinger

tag: quantity

value: Single larva


title: whole4


title: Salmonella/H.poly Cell 141

description: Full-length RNAseq (SMART-Seq2) reads


title: whole3


title: whole2


title: Sample_23705_Hyp


title: whole1


title: Salmonella/H.poly Cell 137

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 136

description: Full-length RNAseq (SMART-Seq2) reads


title: Salmonella/H.poly Cell 138

description: Full-length RNAseq (SMART-Seq2) reads


title: c4da4

description: Cells were isolated by FACS on an AriaII and snap frozen in lysis buffer

source_name: class IV da sensory neurons

value: 100 neurons


title: Salmonella/H.poly Cell 134

description: Full-length RNAseq (SMART-Seq2) reads

value: H. polygyrus (Day 10)