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Sample information : FFPE-lung



Estimated Number of Cells
The total number of barcodes identified as cells.
Mean Reads per Cell
The number of reads that mapped to a unique gene in the transcriptome divided by the number of barcodes associated with cell-containing partitions.
Median UMI Counts per Cell
The median number of UMI counts per % cell-associated barcode.
Median Genes per Cell
The median number of genes detected per cell-associated barcode. Detection is defined as the presence of at least 1 UMI count.
9,649

Estimated Number of Cells

6,541

Mean reads per Cell

1,994

Median UMI Counts per Cell

1,107

Median Genes per Cell

Cells


Estimated Number of Cells
The number of barcodes associated with at least one cell.
Fraction Reads in cells
The fraction of valid-barcode, confidently-mapped reads with cell-associated barcodes.
Mean Reads per Cell
The number of reads that mapped to a unique gene in the transcriptome divided by the number of barcodes associated with cell-containing partitions.
Median UMI Counts per Cell
The median number of UMI counts per %s cell-associated barcode.
Median Genes per Cell
The median number of genes detected per cell-associated barcode. Detection is defined as the presence of at least 1 UMI count..
Total Genes Detected
The number of genes with at least one UMI count in any cell.
Barcode Rank Plot
The plot shows the count of filtered UMIs mapped to each barcode.
Sample Name
FFPE-lung
Species
Human
Type
FFPE
Organ
Lung
Estimated Number of Cells
9,649
Fraction Reads in cells
47.74%
Mean Reads per Cell
6,541
Median UMI Counts per Cell
1,994
Median genes per cell
1,107
Total genes detected
34,611
Sequencing & Mapping


Number of Reads
Total number of read pairs that were assigned to this library in demultiplexing.
Valid Barcodes
Fraction of reads with barcodes that match the whitelist after barcode correction.
Valid UMIs
Fraction of reads with valid UMIs; i.e. UMI sequences that do not contain Ns and that are not homopolymers.
Sequencing Saturation
The fraction of reads originating from an already-observed UMI. This is a function of library complexity and sequencing depth. More specifically, this is the fraction of confidently mapped, valid cell-barcode, valid UMI reads that had a non-unique (cell-barcode, UMI, gene).
Q30 Bases in RNA Read
Fraction of RNA read bases with Q-score ≥ 30.
Reads Mapped to Genome
Fraction of reads that mapped to the genome.
Reads Mapped Confidently to Genome
Fraction of reads that mapped uniquely to the genome.
Reads Mapped Confidently to Transcriptome
Fraction of reads that mapped to a unique gene in the transcriptome. These reads are considered for UMI counting.
Reads Mapped to Exonic Regions
Fraction of reads that mapped to an exonic region of the genome.
Reads Mapped to Intronic Regions
Fraction of reads that mapped to an intronic region of the genome.
Reads Mapped to LncRNA Regions
Fraction of reads that mapped to an lncRNA region of the genome.
Sequencing
Number of Reads
356,540,374
Valid Barcodes
81.63%
Valid UMIs
100.0%
Sequencing Saturation
45.37%
Q30 Bases in RNA Read
92.23%
Mapping
Reads Mapped to Genome
77.81%
Reads Mapped Confidently to Genome
51.44%
Reads Mapped Confidently to Transcriptome
45.83%
Reads Mapped to Exonic Regions
15.53%
Reads Mapped to Intronic Regions
32.63%
Reads Mapped to LncRNA Regions
5.16%
Cluster


Left
The figure is automated clustering each cell-barcode by UMAP algorithm. The cells clustered into the same group have similar expression profiles. Each dot represents a cell, and is colored according to different cluster.
Right
This plot shows that the total UMI counts for each cell-barcode. Two-dimensional horizontal and vertical coordinates of each dot are obtained using the uniform manifold approximation and projection (UMAP) algorithm. Each dot represents a cell and is colored according to UMI counts. Cells with greater UMI counts likely have higher RNA content than cells with fewer ones.
Marker


Table
The differential expression analysis seeks to find, for each cluster, features that are more highly expressed in that cluster relative to the rest of the sample. Here a differential expression test was performed between each cluster and the rest of the sample for each feature. The Log2 fold-change (L2FC) is an estimate of the log2 ratio of expression in a cluster to that in all other cells. A value of 1.0 indicates 2-fold greater expression in the cluster of interest. The p-value is a measure of the statistical significance of the expression difference that by a negative binomial test, and been adjusted for multiple testing via the Benjamini-Hochberg procedure reported as p_val_adj. The pct.1 is the percentage of cells where the feature is detected in that cluster. And the pct.2 is the percentage of cells where the feature is detected in the rest of the sample. The features were filtered by p_value < 0.01, p_val_adj < 0.1, pct.1 ≥ 0.1, pct.1 ≥ 0.1, and avg_log2FC > 0.25 for each cluster were retained. In this table you can click on a column to sort by that value.
gene cluster p_val_adj p_val avg_log2FC pct.1 pct.2
EPIC1118.86720664103936e-050.6672764670934510.3690.367
ENSG0000022961813.80640823629851e-781.45694259982336e-820.5810385797728860.9120.705
NAALADL213.06726011730733e-271.17402591950828e-310.5343356310857120.6020.557
NLGN4Y110.0002850345536274930.3570213454441190.3270.323
IGF2BP210.001213474318065314.64469998493955e-080.3481085749611550.430.415
ENSG00000287092116.96875750267382e-050.344946677448040.3750.371
FRMD610.02528040218203579.67633858303441e-070.3221899676478150.2840.251
KCNMB2-AS110.007072440482851682.70705063264628e-070.3161192368577530.3150.281
RAD51B110.008496798463294940.2828236036263080.3960.509
DIP2B110.0001559193575165540.281674114039010.5190.571
CDH1326.59114602664892e-2402.52283014110423e-2442.211314573122830.870.351
KRT523.78961105908455e-3031.45051330440349e-3071.523479225327460.8380.23
SDK123.32351686063643e-1481.27211087064091e-1521.342562893810860.8920.516
ENSG0000022961824.74385054915068e-1731.81575845868127e-1771.342179287253750.9660.729
EPIC122.21135816348609e-1848.4642048667461e-1891.24794180064620.8360.33
L3MBTL428.79274602759943e-1573.36551558891504e-1611.168844744670150.8640.439
DIP2B29.88153168779714e-1623.78225969830711e-1661.151571816709920.9110.533
IGF2BP224.03313651451843e-1961.54372522181674e-2001.120135566796690.880.381
NLGN4Y21.26581544247904e-1904.84504111796311e-1951.041199744677320.8080.285
FRMD622.26307679497618e-1868.66216334293877e-1911.038143115232350.7170.221
TP6328.42660441397985e-2393.2253710533491e-2431.028734819898280.7810.213
ENSG0000028792324.8746868180125e-2251.86583741024746e-2291.003644719133980.7780.226
BCL11A22.9701937870667e-1961.13687276546992e-2001.001589624690860.8190.285
GNGT125.97318991194702e-1712.28630096912923e-1750.9926543754588380.7980.292
KCNMB2-AS122.77344124055519e-1981.06156366858883e-2020.986689739275220.7810.249
PTPRF24.06976103719644e-1991.55774364127553e-2030.9526013877625370.8270.293
SOX624.60395260073738e-1381.76221105440457e-1420.9511936266306110.7980.338
ENSG0000028709221.49277150946544e-895.71373922324674e-940.935799424675230.7090.345
LINC0295525.0013781624983e-1491.91432984861759e-1530.8896088406094240.6830.227
IGF1R21.85818290419491e-1197.11238958966128e-1240.870648425249280.8670.456
GSE121.20676912500402e-804.6190351565644e-850.8622213350544980.8030.475
SLCO3A122.99801864638673e-921.14752302165916e-960.8498833088642970.8870.564
ENSG0000025969222.02021254131222e-1247.73257498779843e-1290.8225007155746920.7810.34
NIHCOLE27.82272941094607e-1692.99423157427316e-1730.7953818439517720.6030.158
ABCA1324.24083449917694e-1361.6232237997309e-1400.7792761244727340.6730.229
PARD321.76430912724117e-916.75307788119563e-960.769456623861890.8890.534
PKP121.61346855414341e-2156.17571979692035e-2200.7567435321054920.670.154
FGFR226.32291103704775e-1742.42016039081672e-1780.7542682102553860.5730.14
KC623.44830387499961e-1601.31987440672112e-1640.7525011053127880.6310.177
LINC0112224.63261842472112e-1361.77318319862249e-1400.7490743726851880.5390.15
LINC0047028.15642379753069e-1613.12195659401772e-1650.7415959551356640.670.201
DSP22.93981562911178e-1431.12524520749896e-1470.7295886811694990.7090.24
KLF521.28445470525365e-1574.91638484748394e-1620.7286955421329220.680.207
CASC921.25458860382768e-1524.80206921774357e-1570.7255715214153730.6370.187
CCDC144NL-AS127.2315741964179e-1592.76796072740485e-1630.7251420077359380.5280.125
MUC428.28656284694047e-1253.17176867753979e-1290.71946126480430910.981
WWOX21.37568737304763e-405.26558743415614e-450.712194960276030.8330.61
NAALADL221.24406459904755e-694.76178748774227e-740.7109972036506730.8610.543
LINC0187621.7712278435668e-966.77955999221771e-1010.7105368403961490.7440.339
GRHL225.92988674102171e-1472.26972622713837e-1510.7025117683564520.6920.229
PTPRZ122.26533858236874e-2298.67082057095899e-2340.6981428469745010.5890.114
RNF217-AS125.84760962279543e-1312.23823379881935e-1350.687214463613570.6370.204
ACVR1B27.60385896375e-2012.91045661936385e-2050.6867974368374210.6330.147
ENSG0000022508721.03664756320258e-1363.96787706959575e-1410.6797906815848350.6580.212
RAD51B21.75968755701098e-506.73538833733056e-550.6723663778593930.7580.465
MEG323.16881148358981e-1581.21289576804325e-1620.6692191196339850.620.169
SLC2A121.678862708122e-916.42602276705965e-960.6623378129895170.4020.114
DLG121.60960874508999e-926.16094597370431e-970.6610418617551550.8520.481
ARHGAP2429.1476899374686e-673.50137408614736e-710.658283123702730.750.415
CERS626.33346377900535e-1152.42419956327236e-1190.6580721724347570.720.284
LDB23002.877197518840220.8890.179
EPAS13002.702025256396730.8840.302
CALCRL3002.360172791065190.7780.133
BTNL93002.139980257828910.6550.068
ANO23001.968446117847870.7220.12
PTPRB3001.82810285219520.7150.058
GALNT183001.768449748895190.7120.14
TCF431.92775074368776e-2517.37866777802865e-2561.726139983519630.7660.236
FLT13001.67557419654890.5620.065
VWF3001.642014748610050.6520.06
GNA143001.634409625256880.6220.062
PTPRM32.29727334067656e-2208.79305420147196e-2251.618952404754620.7960.302
ST6GALNAC339.15763860284029e-2073.50518204196597e-2111.468403811737450.6230.161
PTPRG32.5103894963737e-1599.60877859746499e-1641.406327867296310.8020.373
TIMP338.09262430858146e-1433.09753667173753e-1471.405311306028620.6310.214
BMPR235.8001104852645e-2142.22005300668472e-2181.377436503630920.7140.225
KIAA121731.25342407767875e-834.79761187200012e-881.361925563276980.660.364
NRG331.09610292838532e-1874.19544870391688e-1921.353836018096380.4920.101
ADGRL235.07715503326608e-2311.94333423917403e-2351.33218487603020.6690.17
RAPGEF433.74922944575819e-2441.43505681916795e-2481.326256328030030.5760.114
STXBP632.2539623115704e-2018.62727670355355e-2061.322989514645160.6110.157
WWTR137.11439746252672e-2032.72311010584349e-2071.309123887623540.5850.141
SHANK33001.283730089707070.6530.061
TMTC131.18778867386263e-2654.54638549285246e-2701.269541531528460.470.063
PRICKLE235.27937820001076e-1632.02073727321854e-1671.24756492593230.6490.208
PRKCE34.43485920336614e-961.6974887864067e-1001.210945139831360.7660.469
FENDRR3001.200724571306750.5510.039
FBXL734.72722538193689e-2331.80939500188965e-2371.197481597531730.5950.123
PECAM13001.162230221085470.6760.117
SORBS131.51531401697488e-2005.80002303060124e-2051.149504365393360.5270.11
TEK3001.13167222898550.5520.026
SMAD632.71358110661865e-2391.03865157567888e-2431.125085695087750.4260.056
SLCO2A13001.121649733481720.5490.057
GRB1033.05883635745836e-2191.17080163724196e-2231.098643899495980.5060.092
RALGAPA235.30552965759325e-1112.03074701737474e-1151.092184805658110.7580.417
PALM2AKAP231.51902638365865e-995.81423250271244e-1041.084285374850670.5890.239
MIR3667HG38.07662855743387e-1323.09141413053428e-1361.074037045139340.7470.308
RIN236.67999236083642e-1242.55683700560224e-1281.056802889151920.6470.26
TTC2835.09021424046246e-1271.94833278743874e-1311.048500938883650.7120.323
ZBTB1634.72319161084982e-1751.80785103377854e-1791.02548163443790.5510.135
HECW237.67576818617603e-2602.93798062702902e-2641.021454837369520.5060.075
MEIS233.3889852730853e-1631.29716959086171e-1671.020243157037860.540.142
ERG32.72484840907156e-2821.04296425364448e-2861.019907165707260.5470.081
SLC6A438.66545272348061e-3013.31679274419376e-3051.017244335526430.3970.035
LRMDA32.45092212248171e-1029.38116099855205e-1071.014295241282920.7610.394
FLI134.643049020644e-1341.77717561840466e-1381.006114410114030.6010.208
NAV339.9832241591678e-2053.82118355629174e-2091.003184259714320.4290.068
COL4A233.83024731277917e-1081.46606725590568e-1120.9993194513015020.540.179
GRK531.18781215818662e-1224.54647538156096e-1270.9960968618107140.630.228
EGFL73000.9912874082248330.4810.025
FYN41.07149001182326e-2654.10124018917272e-2701.687463369420870.8630.288
PARP841.10338818532325e-2924.22333378750382e-2971.657913708829540.8030.213
PTPRC41.46793100093008e-2915.61865957639929e-2961.632151628703750.8850.263
THEMIS4001.621949246790.6780.067
AOAH49.46156102748841e-2903.62151153161158e-2941.614393705310310.6480.12
SKAP14001.577758881416280.7910.136
ARHGAP1548.7344521956127e-2203.34320301447321e-2241.351727949668890.8560.289
PITPNC145.5535958359818e-2082.12569694403345e-2121.322405580495290.7260.219
PRKCH46.7358414349268e-1782.5782138233663e-1821.238875755094970.7730.291
PPP1R16B45.8415125596524e-2572.23590008407425e-2611.210167022245520.6740.141
PIP4K2A41.87655402382093e-1807.18270697321034e-1851.151648580781570.7310.243
AKNA41.11832987060798e-1914.28052465210129e-1961.069512592010060.6240.16
PPP2R2B43.98906246873257e-3011.52685541940311e-3051.050456343389490.4690.05
CHST1148.02484913849013e-1223.07159501588078e-1261.041382729888270.8080.403
IKZF146.31000405265638e-2212.41522010742417e-2251.033701272940360.6910.165
LINC-PINT42.04640901263898e-1047.83284472417889e-1091.031523641794480.8360.469
GRAP242.82731627205465e-2871.08218490088596e-2911.02975520205650.5360.072
DOCK241.25069299778735e-1614.78715837781271e-1661.016693535896820.7480.253
KLF1245.76985662037976e-1352.20847302318754e-1391.013840113837080.7080.276
BCL11B42.85210570080875e-2211.09167331424969e-2250.9751537544426680.5910.119
PDE3B41.35361321179545e-1195.18109627113011e-1240.9744400875829050.6280.23
CAMK444.27008963680713e-2641.63442150991623e-2680.9742089939217840.5290.076
STAT443.17157560998313e-2631.21395376635655e-2670.9495315055710540.5680.092
CDC42SE244.95833846113763e-1491.89785595236072e-1530.9444462408162750.6260.198
CD9646.97432528632787e-2512.66949601405798e-2550.9437510147204250.5360.086
INPP4B41.1427703766927e-1814.37407324769464e-1860.9329267423402830.5940.141
ANKRD4441.48007833320756e-1355.66515476233469e-1400.9163853267784440.740.291
ZFYVE2844.08607708310758e-2531.56398877865252e-2570.9035196398341940.5340.084
LINC0193444.1860276519171e-2221.60224590519678e-2260.891676715370740.4460.064
SFMBT246.22244066812473e-1552.38170430533749e-1590.8914065796981810.5740.153
CBLB43.09996101039032e-1001.18654252866506e-1040.88810377760560.6930.321
NIBAN145.0777087569258e-1301.94354618270145e-1340.8655458862287480.4970.132
PRKCQ43.36917818004069e-2171.28958821864836e-2210.861332545601190.5430.1
PPP2R5C45.61028223366347e-1042.1473942561676e-1080.8588425456965060.6880.316
PRKCB41.82222516189326e-1376.97475756676588e-1420.8561423624761240.6530.206
DOCK1043.09510719965372e-1341.18468468179351e-1380.8436685613745230.5840.174
SLFN12L4000.8403795132056790.5210.061
FYB144.56754895926947e-1781.74827717954125e-1820.8331639811225380.5710.131
ATXN142.71157504660172e-891.03788373520697e-930.8331583673811750.8550.588
ETS144.80152002564603e-1361.83783205452271e-1400.8328524319017950.6160.188
IFNG-AS148.98344367808184e-573.43850711095531e-610.8294983253822720.2740.079
IQGAP246.54673984904629e-1632.50583321176081e-1670.82802861337230.5660.136
RIPOR242.27996422386311e-1358.72680174486376e-1400.827268409570610.5830.167
CNOT6L45.59834913028915e-952.1428267359294e-990.8133947274392770.5180.184
DOCK841.57118252701606e-1166.01386560137818e-1210.8022725362223330.6510.233
PREX146.90183798450566e-1162.64175074045229e-1200.801659029243850.6340.221
SYTL342.49233470274178e-1389.53967198477295e-1430.800377700335460.4660.11
CD4441.86735231027409e-627.14748645132853e-670.792852079345790.6690.382
RABGAP1L46.60399125663561e-802.52774678735191e-840.7812155306163820.7750.47
TNFAIP844.84707052965092e-881.85526698677598e-920.7626472823186440.5260.197
SLC8A15002.022815081003190.7430.129
KCNMA152.45914576810726e-1979.41263786307609e-2021.781616462396360.480.087
HS3ST258.48566798845802e-1073.24797825478757e-1111.726360762358950.2550.04
ZEB253.95774850057483e-2321.5148696702805e-2361.611046743587940.7580.21
PLXDC251.33866656453313e-2205.123886414044e-2251.59454887641520.7470.21
LRMDA52.49132992497143e-1489.53582609267177e-1531.479638746735690.8220.393
CD7451.77324349701534e-1286.78727511680065e-1331.457436437231280.7520.34
RBPJ51.51023012352299e-715.78056389620681e-761.404147214815520.4670.175
RBM4755.5856301445766e-1532.13795841099923e-1571.337156240311180.6970.253
ABCA157.57042393070226e-1432.89765901045022e-1471.329817919961630.6310.208
CTSB52.48399484158342e-2479.50775029313105e-2521.304121016886420.5560.094
FMN151.17123723020023e-1844.48303310954694e-1891.234697388366330.540.12
DMXL251.19106282083209e-2684.55891763313208e-2731.231397675665590.5790.095
ABR51.02555998601207e-1433.92543820719618e-1481.182033933582890.6150.2
SLCO2B15001.157151443156810.4720.047
TBXAS157.22626694706783e-2462.76592932215717e-2501.10871388696160.5560.09
CHST1151.31958827076165e-965.05086224742268e-1011.108138185294810.7930.405
FMNL252.98044740286451e-1051.14079744425649e-1091.090546623302620.5490.191
TNS354.79091519630467e-1401.83377294507566e-1441.067128613324020.5720.165
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TIMP3238.12762717983487e-083.11093438713728e-121.733084236412290.6840.242
CD36234.08928026972918e-471.5652148318645e-511.730354977880480.6050.055
PPFIBP1231.45086718491109e-205.55334603426122e-251.716897145586280.7370.176
ITGA9231.44014323838035e-415.51229900627861e-461.695375184128560.7110.085
STOX2233.09927460595342e-321.18627980018121e-361.669802786280950.8160.143
AKAP12237.8172882140903e-352.99214889921546e-391.662751238725430.5260.052
IQSEC1234.27799697892227e-061.6374481278888e-101.63879366604430.6050.233
MAGI1236.51186298774835e-162.49248372799064e-201.593742378680540.8950.324
GALNT18234.06570632378571e-191.55619165727081e-231.573410963154560.7890.179
RHOJ233.55732321121274e-431.36160269892549e-471.562961054156720.6320.063
ASAP1239.27145723838934e-113.54874731623262e-151.472532922923080.8680.404
DYSF231.06723247685001e-304.0849440283626e-351.466914489560340.6050.078
ZDHHC14231.89439530601681e-267.25099634852946e-311.452679250959590.7630.148
FLT4235.55779539437638e-802.12730436897205e-841.451276050684330.6580.039
SEMA3A233.015591156017e-681.15424908367795e-721.450219155881960.7110.053
BACE2234.39957061226302e-141.68398170874341e-181.447427883914790.6320.147
THSD4235.87830296020833e-132.2499819950273e-171.443449168427840.6840.194
FLRT2232.64485210646614e-1351.01234483138105e-1391.432347804811910.6840.024
RALGAPA2231.28195598594128e-084.90682073773744e-131.41899612470330.8950.44
RELN237.28443069135676e-1312.78819210417085e-1351.41850660537240.6050.02
PKHD1L1232.37949120322738e-1519.10775167736117e-1561.412705644996730.7110.023
PDE7B232.10820806110842e-518.06938705162834e-561.412494422481140.6320.054
NDRG1232.8219533482265e-111.08013218564897e-151.409060332096380.6840.199
EFNA5238.09307530223059e-283.09770929427796e-321.407149373441590.6320.093
ST6GALNAC3232.63652797519133e-141.00915868299446e-181.403823530785810.7110.192
CSGALNACT1239.85964767497343e-313.77388336330607e-351.392427965934560.7110.104
ZNF521233.2380824837957e-531.23940996853545e-571.359617577624370.6320.052
CHSY3234.56857421177569e-331.74866960567086e-371.348871196160380.5790.068
PRKG1236.64736172443239e-152.54434728792482e-191.342177129681930.8420.284
RPS6KA2237.73111681516493e-102.95916589419158e-141.341807153784510.6580.219
UNC5B231.15133001747958e-364.40683616887232e-411.337613306760810.5530.056
APP231.55820931424104e-115.96420927138114e-161.322716144080330.6840.205
NFATC1235.065798595436e-121.93898744370971e-161.313607266799530.6050.159
PROX1232.26832967061892e-1438.68226927435856e-1481.310981477018130.6840.023
SHANK3232.55241142956836e-409.76962194583312e-451.308648262533840.7890.101
VAV3234.77100741835211e-181.82615303465977e-221.287562541876050.7110.171
TSPAN18231.24491699023254e-464.76505010423539e-511.259616593622430.5790.049
STK32B238.45327964565872e-553.23558127752382e-591.251039454200960.4210.022
PGM5232.22439800771108e-608.5141162355932e-651.241667026766680.50.028
KCNIP1231.10507145646518e-524.22977668401277e-571.232818754217680.50.032
SEMA3D231.89609606762779e-727.25750619163971e-771.2172018482290.5790.033
RAI14239.69354524854199e-163.71030592074638e-201.193627860479380.6050.135
TSHZ2233.07538356508791e-101.1771352541866e-141.185931179947750.6840.213
PLXNA2231.92119566132795e-137.35357751407774e-181.171178320121510.6840.181
SLC24A3246.11160223075053e-412.33927973312047e-453.750534983093030.9380.156
KIT241.95982700499927e-847.50144302610148e-892.768920764300510.9690.076
ENSG00000285534241.54510426790184e-625.91404833461623e-672.68379952601310.7190.052
NTM242.96313772138005e-191.13417198246193e-232.54294992226870.8440.228
ZNF331243.73338665577365e-121.42899282545114e-162.204729864402420.5620.121
FER242.62785548267357e-281.00583919569531e-322.1987545733310.8750.186
ADAM12249.86194322029498e-783.7747620073088e-822.085907979116240.7810.05
SLC18A224002.070985172115120.8750.003
CPA324002.068327662653770.7810.005
CSF1241.4215165082506e-265.44100324676795e-311.960893715565930.4380.04
GSE1241.21784113612002e-154.66141443818425e-201.9447898543286610.497
GRAP2249.26516702109777e-463.54633966971514e-501.868838203669320.8750.101
BMP2K243.45264189614734e-311.32153482972799e-351.866293796151490.9060.169
MAML3243.56498128291808e-171.36453390603923e-211.727443336829940.9060.305
PDE7B241.47163341956604e-585.63283097131607e-631.674398717948520.7190.054
IL18R1241.64700523433098e-526.30408495112522e-571.666702757225260.7190.06
PRKCA241.32156509635537e-205.05842875432659e-251.638398610240130.7810.167
SAMSN1246.09608032293169e-332.33333856041173e-371.58687017076560.7810.108
CADPS248.84105446106447e-2053.38400614754056e-2091.469986132131420.6880.013
SLC8A3241.3658602312419e-2275.22797302014047e-2321.44415607671420.5620.007
ACSL4241.93567171684872e-147.40898613200917e-191.431827940215530.6560.145
DIP2C242.55522477534964e-139.78039032132602e-181.430958575461390.7810.235
BACE2242.14631707889831e-178.21525330666121e-221.416497723557510.6880.148
KCNQ1248.94980693096701e-153.42563229387086e-191.398023195734650.750.204
SYTL3247.45867539755919e-212.85488608955033e-251.393674493568850.7190.133
GALC243.25834903618139e-541.24716720362145e-581.376565029555530.7190.058
CHN2241.83295601770373e-187.01583104074001e-231.364869800070020.750.156
TNIK245.87603476091694e-182.24911381800388e-221.348926745894630.8440.208
LINC02752241.29249506034494e-2334.9471601483003e-2381.34608021178220.5620.007
RAB27B242.59904420372483e-459.94811377066841e-501.332091623517470.6250.051
ABCC4243.66265661483523e-101.40192016184461e-141.321421123179970.6880.205
TTC7B241.2968168401086e-134.9637022127712e-181.300593142477090.750.197
LRMDA241.71732386001483e-066.57323685223465e-111.298382269761520.8440.419
LMNA2417.25322672610106e-051.274261661257050.4380.193
KCNIP1241.09943152972204e-434.20818927398777e-481.269806336920580.50.033
HS6ST1244.90508762202702e-341.87747363623479e-381.2639826713340.7190.087
DPP6246.88913429836243e-172.63688827159245e-211.247158574299170.7810.178
PLCL1242.62578681068634e-101.00504738983631e-141.24034562729210.5940.14
RGS13247.27169104128152e-2282.78331586973954e-2321.233973877503150.5310.006
ELL2241.35477636792985e-085.18554837299951e-131.230359089049940.5940.154
ITGA9245.79065513189788e-342.21643387120029e-381.220075939935080.7190.086
TPSB224001.187656220934230.5620.001
RAPGEF2241.30480281049823e-084.9942693504487e-131.182869857492390.6880.224
HPGDS24001.162599125135380.6560.004
TPSD124001.147745461131710.6880.001
SEMA4D244.83559347549176e-151.85087402414903e-191.124385324596450.7810.188
RUNX1242.70044349402202e-051.03362301692644e-091.098525055463510.8440.456
ACER3245.15073294541484e-201.97149695529926e-241.095606471228690.6880.12
ARHGEF6247.99824499564497e-283.06141200170136e-321.077166172974180.6560.085
FOSL2246.0807906660099e-072.32748628416516e-111.075257615252910.6880.229
LSAMP253.67027837418282e-311.40483747002328e-353.622386796729180.9350.19
PPARG255.61165278578458e-1262.14791884933958e-1303.3454135087262210.051
MRC1258.46502799752978e-1213.24007808219007e-1252.448853562891880.9350.045
ENSG00000239268253.5308212934462e-841.35145881246505e-882.350186184316750.8060.048
SLC8A1252.46220939793078e-309.42436422694165e-352.246263288474870.9030.166
MSR1254.1591433601478e-751.5919556610839e-792.158496748416450.8710.064
ABCG1251.33697568657453e-205.11741440164791e-252.101951942894780.8060.181
FN1252.61043761910201e-149.99172326074412e-192.097368888224760.9030.286
PLXDC2252.45428610017673e-209.39403697533772e-252.078291428234970.9030.242
MARCO256.04423443501467e-1932.31349400406287e-1972.056712236361170.7740.018
RBM47254.84543524363148e-211.85464106393305e-252.037715988893670.9680.279
ENSG00000237356251.1734657419017e-344.49156297137601e-392.004049458479170.710.086
STAC252.21413683210135e-1538.47484051175589e-1581.994004029527670.8710.03
COLEC12252.09142709170841e-348.00515613453421e-391.957177018714490.7740.101
ZEB2251.4261676517966e-205.45880598559519e-251.904066748773550.9030.243
INHBA251.96922877045194e-1387.53742926759529e-1431.874062145314910.710.021
SLC16A10257.64676911270977e-422.92688092808305e-461.83935351860650.7420.077
CD74257.72719471867185e-152.9576646707004e-191.784511476734590.9680.365
MITF256.89499379953014e-342.63913105700457e-381.777130796531290.7740.098
FMNL2251.58811088116948e-246.07866064904493e-291.770290293794720.9350.212
SLC11A1251.41631022053157e-2075.4210756355032e-2121.7582371904095110.028
OLR1252.19198899903637e-2868.39006736215406e-2911.706570703697680.9680.018
MMP19257.71157658484574e-1372.95168666648004e-1411.691982161973410.6770.02
FRMD4A254.88762475093638e-291.87078953951481e-331.673329562844630.8390.142
TFRC258.40741413465303e-273.21802577304334e-311.62680462447190.8710.172
FNDC3B252.59345561383595e-089.92672285782726e-131.626578343753210.9680.557
LRMDA258.05854713792387e-103.08449327793151e-141.611337670911360.9350.419
FTL257.45001756953267e-302.85157221523872e-341.598644015025290.9350.169
ANPEP251.42894318853997e-1195.46942964303746e-1241.595321405338680.6130.018
TCF7L2251.14994057472889e-234.40151793129026e-281.5881295130245210.244
ENSG00000285534257.89964062663425e-403.02367014722278e-441.572392299954870.6130.053
DOCK10256.88586432626713e-232.63563665554127e-271.55921142682250.9350.199
MOB3B257.16604880914319e-452.74288019947301e-491.521771128667280.8390.091
ITGB8253.91406335554498e-171.49814872370244e-211.502700636020750.5810.096
GPCPD1254.73100481733332e-291.81084162035264e-331.498751466939140.9030.164
ALOX5254.63697449789838e-691.77485053123264e-731.455533794901160.8710.065
KCNMA1254.46230962919149e-171.7079957242561e-211.40484930674430.6450.11
C5AR1253.33615620653913e-931.27694871260014e-971.398376663366160.710.032
CCDC88A253.47228358768844e-591.32905289278437e-631.379676609547470.8390.072
PDE4B254.06849763862647e-361.55726006224698e-401.377740037440170.9030.127
LRRFIP1251.5680124647364e-176.00173185614483e-221.36201996013840.9680.285
UBE2E2259.54287264259105e-153.65263440350266e-191.355460488601670.8390.231
SDC2252.98319056871239e-091.1418474197016e-131.344398230646190.3550.056
TNS3251.22709344497798e-204.69682861891593e-251.309135980868010.8710.189
GLIPR2258.14997377395313e-763.11948777997134e-801.30716191478730.8060.051
SCD256.51603557020994e-272.49408082760849e-311.306868041986790.6450.082
DOCK8254.67623652743809e-151.78987848405347e-191.30566378896120.9030.26
CTSB253.9351200287987e-311.50620838582205e-351.303787351003880.8390.121
RASAL2252.54501761569808e-089.7413213492233e-131.302593368920910.7740.289
SVIL251.34517389000619e-105.14879388351141e-151.252005456797430.8710.336
SFTPA2261.73714091638421e-176.64908871003677e-224.4958807214107910.612
SFTPA1262.75232173892948e-191.05347995825211e-234.12038619337710.469
SLC34A2268.09374194935704e-283.0979644604444e-323.0321975477429710.255
SFTPB268.0378989952356e-163.07658998516252e-203.0152100332210210.61
SFTPC268.20027114815512e-283.13873962648516e-322.885339357377910.8970.168
DMBT1262.14597064292034e-218.21392728668889e-262.505847452511090.7590.135
ENSG00000280441264.12715393707722e-151.5797113745224e-192.4013903833378710.999
ABCA3268.04978271365918e-393.08113860279384e-432.380766385991190.9310.135
LAMP3262.39015070629106e-309.14855204122738e-352.090159342262880.8620.136
MUC1265.24820684063531e-292.00880610910025e-332.035200140676420.8280.136
ENSG00000278996261.10001905578081e-164.21043809148287e-211.971712926323650.9660.363
C3263.85695741980795e-311.47629082898567e-351.963328627023690.9660.165
SERPINA1265.768990547304e-442.20814152465131e-481.845673357426440.8620.095
DHCR24261.42187537656753e-315.44237685281916e-361.744242443437770.8970.143
PGC264.12177631915164e-571.5776530349658e-611.720686874982050.7240.051
PIGR263.17217272459501e-511.21418231822514e-551.639481406162720.7240.057
CD74262.67780967232445e-121.02495968472956e-161.589943187823480.8970.365
FASN267.91570993967819e-283.02982084501194e-321.565525578356440.7590.112
NAPSA268.6319338629987e-443.30396304945215e-481.492680499214820.7240.066
ANKRD30BL265.95728129368532e-172.28021177895021e-211.438592482483160.9310.283
HHIP261.19661200646081e-354.58015772204243e-401.26870481555890.6210.056
EEF2261.71268096387262e-106.55546568120884e-151.229238134651960.7590.221
ATP1A1262.24775471168494e-108.60351646514943e-151.174156754618070.7240.21
LRRK2265.17995147287252e-091.9826806525578e-131.173896206368190.7590.243
EEF1A1260.0002457951407324799.40806632214954e-091.159823538354740.6210.237
UNC45B261.83833954141623e-137.03643704132369e-181.13810742969230.6550.142
LPCAT1262.93934515841497e-131.12506512991463e-171.094119723843560.7930.205
MT-ND1265.11316776099431e-061.95711848771121e-101.0917225039846310.949
SORCS2261.453566753471e-055.56367891552858e-101.066092192725670.7930.372
TPT1268.28073736350357e-113.16953891277026e-151.046935657732770.690.179
GPRC5A261.22384412291328e-154.68439149855808e-201.03684252207860.8280.178
LAMB4265.62545919270416e-082.1532033961204e-120.99258218058949510.943
RN7SL1264.78416957803856e-211.83119098906781e-250.9923295727352410.690.106
STEAP4264.16564477365364e-261.5944441451633e-300.9751246731255550.6550.078
ALPL268.47867315996923e-303.24530091095814e-340.9747876694384530.690.079
FTH1267.07698926614265e-072.70879172706984e-110.9509399958971160.6550.186
FTL262.60005215006034e-109.95197179078443e-150.9182054451141970.690.17
TFPI262.547541505724e-109.75098180251092e-150.9156801805779170.7240.186
HSPA5261.23281165190754e-214.71871565454925e-260.889830807313920.5860.076
MT-CYB260.0006569430916235082.51451845526873e-080.8819949136602420.9660.921
ACTB260.0005370576972939652.05564455827132e-080.8568486602846930.7930.357
MT-CO3260.0007861753805032453.00916856963655e-080.85263563473875110.877
CTSE264.44824972162395e-211.7026141474485e-250.8350124112699040.3790.033
SFTPD262.05936093237284e-287.88241955283183e-330.8270417001613250.4830.041
HFM1265.41015630753006e-122.07079396292202e-160.8145426800096830.4830.079
NPC2262.77611063871864e-231.06258540868049e-270.8129618846271250.4830.048
APLP2265.42688848365266e-082.07719837849371e-120.7832952339714940.6210.161
MALL261.97015976117387e-247.54099273204419e-290.760095214592410.5520.06
CALR265.5812556660943e-072.13628403356591e-110.7591546388940310.5860.156
AQP4263.73158284787623e-241.42830239909524e-280.7550014376911640.5520.06
Gene Body Coverage


geneBody
This plot illustrating the coverage profile along the gene body. Scaleing all transcripts to 100 nt and calculates the number of reads covering each nucleotide position. The coverage was calculaterd for each position as (NUMi - min(NUMs))/(max(NUMs) - min(NUMs)). Here, NUMi denotes the number of covered reads of position i, min(NUMs) and max(NUMs) are the minimum and maximum number of covered reads in each nucleotide position.
Saturation


Left
The plot shows the Sequencing Saturation metric as a function of downsampled sequencing depth in mean reads per cell. Sequencing Saturation is a measure of the observed library complexity, and approaches 1.0 (100%) when all converted mRNA transcripts have been sequenced. The slope of the curve near the endpoint can be interpreted as an upper bound to the benefit to be gained from increasing the sequencing depth beyond this point.
Right
The plot shows the Median Genes per Cell as a function of downsampled sequencing depth in mean reads per cell. The slope of the curve near the endpoint can be interpreted as an upper bound to the benefit to be gained from increasing the sequencing depth beyond this point.