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Sample information : nasopharyngeal cancer



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.
11,398

Estimated Number of Cells

2,785

Mean reads per Cell

1,481

Median UMI Counts per Cell

1,013

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
nasopharyngeal cancer
Species
Human
Type
FFPE
Organ
nasopharynx
Estimated Number of Cells
11,398
Fraction Reads in cells
30.87%
Mean Reads per Cell
2,785
Median UMI Counts per Cell
1,481
Median genes per cell
1,013
Total genes detected
35,777
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
447,452,664
Valid Barcodes
88.78%
Valid UMIs
100.0%
Sequencing Saturation
48.61%
Q30 Bases in RNA Read
91.79%
Mapping
Reads Mapped to Genome
79.23%
Reads Mapped Confidently to Genome
46.89%
Reads Mapped Confidently to Transcriptome
40.78%
Reads Mapped to Exonic Regions
11.39%
Reads Mapped to Intronic Regions
35.09%
Reads Mapped to LncRNA Regions
7.02%
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
LINC0092812.52592776869949e-1968.66943907433927e-2010.8284921467153230.8540.617
MROH816.72859092872305e-1622.30937360266442e-1660.7166393242829610.6510.353
SNORA24B13.1546082811692e-1791.08271838315802e-1830.7162322428079810.7160.421
MYOM3-AS112.75139538568143e-1609.44328454723172e-1650.661349538975060.8050.552
LINP111.88590941201491e-1496.47278079357123e-1540.6582100765806810.8730.691
ENSG0000025947812.46752024631487e-1708.46897393710484e-1750.6549221963265640.7280.429
SLC12A616.47732019613791e-1522.22313296133234e-1560.6544422196918430.640.36
ENSG0000028924917.73331216821811e-1362.65421202917975e-1400.647648611928470.8310.615
ENSG0000024571914.70124629414097e-1331.61355240737952e-1370.6348535994659850.5980.327
ENSG0000027549411.30172800902053e-1334.46776499526542e-1380.6291618199848160.8730.665
AOX111.6192859849316e-865.55768116739292e-910.6089524739064440.6250.406
LINC0225311.09604617154305e-1123.76182788146295e-1170.5883192212070720.8640.722
BRINP3-DT12.65058010335871e-1179.09726833936955e-1220.5825160670896190.6120.364
ENSG0000028284312.74017195078237e-1319.4047636970839e-1360.5589200071139520.6680.416
ENSG0000028736416.15694359670624e-932.11317394175805e-970.5419310802708970.7660.569
KIAA1614-AS111.01822569132666e-1063.49473397627216e-1110.537024834219980.6980.472
ENSG0000028962811.74212793692574e-1265.97929687302902e-1310.536901833351660.7270.465
ENSG0000025770011.76307763946688e-976.05120002562766e-1020.5173366565330660.7620.571
LINC0296312.75229773008818e-1139.44638155576668e-1180.516584683014150.8610.709
SPATA1211.89353857584338e-776.49896545800173e-820.5016201572978330.5620.363
MIR569315.40208874686157e-901.85409416078445e-940.5003063776902790.7450.526
LINC0070713.67481776676003e-1291.26126364866832e-1330.4823628505820650.9860.856
MICU213.41853886473815e-1071.173304113378e-1110.476430627126760.5940.342
ENSG0000027505611.01914141501959e-1183.4978769049272e-1230.4694447800401490.5070.257
ENSG0000028969811.01101823588398e-813.46999669098016e-860.4518267801310910.3590.172
ENSG0000027534516.06344744263748e-672.08108437762132e-710.4302949473992280.8760.721
TRDMT113.87431082745807e-841.32973326038511e-880.4239024177274930.6640.457
ENSG0000027794519.58336330916875e-643.28918290402552e-680.4224868290255410.760.611
ZMYM612.1997141650911e-787.54981522889586e-830.4171578818063550.5230.318
SLC4A1AP13.64107033531966e-651.24968092233651e-690.4122737005442960.9360.884
ENSG0000025922312.53720269547633e-668.70813665388636e-710.4109273696655340.6860.487
ENSG0000028997919.1564596754339e-603.14266188750477e-640.4083887720850250.8390.699
MYL413.77965756930334e-661.29724655728423e-700.4059523283974390.6330.435
RAD9B16.63915725385595e-842.27867835456341e-880.4043626197164690.3980.202
MIR3913-111.0193734454541e-853.49867327517194e-900.4028865970932690.3350.152
CD5211.0377178653448e-633.56163462844866e-680.3961017376879210.5620.379
TRIM4419.15389760573186e-693.14178253903482e-730.3802171294826380.5370.341
Y_RNA11.16624778653826e-564.00277246889849e-610.3657814019648870.6650.503
BBS411.54358581208786e-515.29786453901653e-560.3655923029089410.5410.366
IGLV1-6211.21880733819082e-574.18316631723921e-620.3653918275394570.8330.698
LOXL1-AS111.50156426650028e-605.15363902560501e-650.3600232307646080.4490.272
U319.21069600542784e-733.16127677286787e-770.3524644530036280.8210.652
ENSG0000027794813.86351778245515e-581.32602889293491e-620.3503731257792710.5220.342
DCST1-AS113.46690797380121e-651.18990526283677e-690.3497208056883460.420.24
IGHV3-33-211.78344339610408e-556.12109897070318e-600.3491691388193430.4730.296
LIMA119.32539781902183e-483.20064450131172e-520.3480526657541170.6010.441
OR52K217.46191889818992e-702.56106497054843e-740.3457973900837830.4560.264
Y_RNA12.61602522368233e-718.97866976826721e-760.3444189056607450.4260.231
RNU6-993P11.36801974025044e-484.69529015736698e-530.3438274488116340.5760.41
DCTPP112.16585334811988e-537.43359880601275e-580.3403944900950230.4120.247
RNU4-80P29.23552348369831e-2173.16979801060486e-2211.051456889259820.6460.27
RNU1-139P21.38410795428795e-704.75050780576588e-750.8369594812631360.8320.687
OR5D3P24.17157483192377e-1761.43175962106115e-1800.7451252254484680.6780.324
RNU2-3P23.01349471889502e-1501.03428566683657e-1540.6605117922462420.6990.352
ENSG0000024790321.0164842287606e-853.4887569630718e-900.6493778428192170.750.528
MIR21725.74697141329918e-1491.97246410396045e-1530.6484733550462320.9280.644
ENSG0000022508729.12447539722225e-1293.13168430711911e-1330.6220118144770130.630.318
ENSG0000022470021.34301197376772e-744.60945899837905e-790.6215579306819990.6790.471
ENSG0000025287022.18616104454098e-1097.50329847796876e-1140.6207970396514620.8710.617
MATN228.06154475362236e-772.76686736464249e-810.6052083410921420.750.528
LINC0233124.85563097109041e-1631.66654000929792e-1670.6043037808685830.5270.202
RNU6-600P21.50723892024375e-1255.17311545937586e-1300.6021358478071270.4960.207
ENSG0000024571929.00695254511702e-653.09134834744544e-690.6019006890724950.5810.355
ENSG0000028736421.84993082071328e-596.34929578773093e-640.5858537840455170.7640.587
ENSG0000029128823.79913606739789e-1161.30393192867857e-1200.5773323425250040.6190.323
LINC0266121.08569553507681e-883.72630263274578e-930.5705692341575210.8410.623
LINC0237128.1212066271356e-792.78734439426675e-830.5574506606197790.6940.455
ANPEP24.27261404690216e-771.46643809956829e-810.5143247719325390.9570.814
DUSP1625.30761223319217e-631.82166811957447e-670.5142800330600750.6710.47
ENSG0000027829127.82282276981806e-882.68493367992108e-920.5092056684681330.3030.106
RNU6-766P22.36555473324201e-188.11900993012771e-230.4907402166712640.4080.29
LINC0170227.09694870669807e-602.43580062695568e-640.4813051696756830.8380.649
ENSG0000022863423.75093203906057e-1381.28738743789833e-1420.480217431260170.4340.151
LINC0158022.41826979879464e-528.2999375301848e-570.4702901142488140.7580.546
RN7SKP13429.78082742827228e-613.35695614644161e-650.456933441654150.4780.266
GC26.36490012915135e-522.18454836942317e-560.446062042918730.460.268
OR51Q125.95283513472937e-1232.04312024118938e-1270.4277067448630590.4030.142
ENSG0000029008121.071964256807e-663.67917441243478e-710.4232910655931270.5380.311
ENSG0000027534522.65381526225728e-509.10837198742889e-550.4228278074158540.8980.732
ENSG0000025805022.42899768755168e-598.33675757671501e-640.4212651411073530.4860.274
LINC0016324.86605266034414e-581.67011692076611e-620.4062244530947180.6090.384
LINC0187222.44334705508849e-458.38600719072107e-500.3983240415857060.5890.394
MYZAP23.62736190040441e-551.24497594055615e-590.3949867524917010.5130.301
ENSG0000028949329.07474695937444e-593.11461661153708e-630.3891089067842780.4680.26
CD6921.91306287990938e-436.56597638628973e-480.383545161942830.5270.344
ENSG0000029001324.185541661122e-661.43655328841365e-700.3817745536515440.5130.287
SLC4A521.03462169320041e-423.55100800796408e-470.3812973041470070.4470.267
ARHGAP2226.06381500899043e-412.08121053301429e-450.3803956938307820.850.717
LINC0288528.38501194577202e-482.87788713130561e-520.3755203859980090.5070.306
ENSG0000028208027.18146737055363e-432.46480895474795e-470.3724901079793850.5630.374
NEK2-DT21.35922688328937e-434.66511148850003e-480.3637118990699370.6310.444
ADAM2026.33243514613862e-322.17340580249129e-360.3623913933740040.6910.524
Y_RNA25.10473220859749e-361.75203604084208e-400.3582882504877880.2780.143
OR1C121.03938263883409e-823.56734843092423e-870.355946268742190.3290.126
ENSG0000025005729.3786557511354e-463.2189235828993e-500.3506486359178360.490.298
TMEM12524.79644940748851e-491.64622783068661e-530.3490686320629190.5120.306
RASGRF127.18228417883513e-312.46508929806258e-350.3486386353174120.4870.333
ENSG0000025708626.83088336727694e-612.34448221007583e-650.3427996029198750.4310.22
LINC0268924.74782828729742e-391.62954018646946e-430.342357241994140.7550.584
RNU6-636P28.96718002850973e-523.07769770336001e-560.3401743078849780.4890.281
SUPT16H34.33028660561858e-211.48623236052258e-250.7567824986741690.4290.298
LINC0158033.6178202077018e-541.24170105975487e-580.6665249555950050.7740.554
MIR569339.79843716301648e-593.36300012459379e-630.6090591503112150.7920.551
MIR21731.82355883861697e-826.25878239503353e-870.5779539116289590.9020.66
AOX136.03415670275527e-232.07103126810656e-270.5398480366560570.5980.439
ENSG0000027534531.01491276019843e-463.48336339991224e-510.4939171090963740.8990.74
KRT139.00223089075159e-323.0897277906204e-360.4418759467405170.3270.169
LYPLAL138.15915801072253e-382.80036999269719e-420.4366264011842670.6480.427
SLC25A1337.84103626636617e-422.69118487999937e-460.4036043918743650.3060.135
WDR1131.38574689120925e-244.75613293248644e-290.3952468121307190.7160.567
ENSG0000025287032.65127876149707e-359.09966625994326e-400.3932342788439630.8150.634
ARHGAP2233.17994882121737e-301.09141571293842e-340.3853754510615290.8560.722
GNRHR34.81018867268557e-261.650943393975e-300.3642559718986660.6580.481
ANPEP34.24782769332635e-341.45793097656726e-380.3554300198933030.9510.821
SYT1731.01482065650082e-313.48304728343225e-360.3519719036928790.7180.512
ENSG0000025460437.17189580848584e-312.46152382224253e-350.3347031833906720.3870.215
ELK431.52205148155957e-215.22395483786234e-260.3221755838850320.6750.505
ENSG0000029047631.98301422292096e-206.80606199519825e-250.3105619496991560.7840.637
LINC0268934.04247515240845e-181.38745028569757e-220.3039243612428490.7360.594
LINC0070732.58560828146636e-248.87427334385763e-290.2991884352037140.9740.875
GATD133.15876250221068e-161.08414418664562e-200.2972176253777740.4190.282
ARID3A31.09248391008621e-173.74960155850566e-220.282784102347020.6020.451
LINC0170235.6750583268127e-181.94778223737394e-220.282714389313860.8010.661
Y_RNA31.536798945447e-215.27457079024918e-260.2790529696999670.5880.419
Y_RNA34.61852184204723e-151.5851598853814e-190.2785847444595430.7590.651
ENSG0000027538939.43445563132733e-163.23807510685315e-200.277421441539060.6150.475
ENSG0000027791632.37966270841489e-138.167431042061e-180.2765997565481550.5920.469
ZNF32-AS332.75033153641771e-169.43963322493721e-210.2765422543654440.5460.399
USP3339.4755364510577e-133.25217478413567e-170.2739115261633170.3940.265
NSMCE1-DT38.21556454004498e-122.81972972955964e-160.2697507512224730.4730.357
MIR682035.86707905264201e-152.01368720917148e-190.2607361070553660.5590.413
VPS1832.74948268985067e-119.4367198306242e-160.2605581817113940.6910.574
ENSG0000028792537.81565530390204e-252.68247367651772e-290.2575082763203140.4530.279
GTSF132.19748156642089e-147.54215254812223e-190.2557575672699540.4960.363
PRDM10-DT39.53288556799164e-163.27185803404436e-200.2541306543290520.4460.306
SNORD11232.13333273818962e-177.32198221509341e-220.2539446881071780.4440.299
ENSG0000027459134.05538163747393e-101.3918800238447e-140.2536524654413920.7560.669
LINC0270137.06686369699983e-092.4254749097336e-130.2522425015664160.8210.747
SNORA7042.07832675655465e-1677.13319177840008e-1720.8567170429210860.9980.998
EPB41L341.033095613002e-1393.54577022584433e-1440.78092083609170.9590.85
ENSG0000028564643.91570459463942e-791.34394034686965e-830.6100410070473830.8650.657
CIAO2B48.78268834901019e-723.01437683587665e-760.5430292366062070.7350.463
PARD6A49.86079104886393e-683.3844011013399e-720.5313061741791150.6740.407
ENSG0000028796541.21312343937864e-694.16365815272733e-740.4993354929098830.7110.432
ENSG0000021244542.32142895447775e-727.96756230943765e-770.4762759038429660.5650.288
ENSG0000024134544.13251937531009e-761.41835508488128e-800.4507854111411020.9980.995
CENPT48.95575350128355e-593.07377591340045e-630.4506567506319020.5840.331
C16orf8643.08935698528461e-581.06032296309878e-620.4490283643429740.6140.357
RNU2-3P46.02536014370609e-452.06801213059654e-490.4419602776856350.6030.378
ENSG0000026083449.85403553809859e-463.38208248836443e-500.4264221858884490.5620.341
DUOXA144.69886810861618e-391.61273617127134e-430.4151149581112360.5990.404
P3R3URF41.0661530950002e-453.65922945840265e-500.3927542035768540.5920.365
ENSG0000027625649.14762070781351e-473.13962819460925e-510.3770548766069560.8560.668
CMTM141.08760812639524e-443.73286699064813e-490.3748955528125210.5380.309
ENSG0000026174342.84272548676554e-399.75674590460441e-440.362131982729090.5230.312
GFER45.23174194778091e-441.79562807103958e-480.3331923703322880.4190.213
ENSG0000022590341.91508389672104e-256.57291288001454e-300.3041129340054160.510.335
SUSD441.98100157544286e-326.79915422653371e-370.2998675361317420.410.229
ENSG0000026639743.85847408076736e-251.32429780366809e-290.2971918162733580.6580.471
SPAG641.12391762063499e-203.85748771497456e-250.2886978538897450.8270.718
RN7SL39P44.88466066296643e-251.67650352243494e-290.2690190788766580.4390.268
ENSG0000020104241.10373078190762e-213.78820284839242e-260.2593562051736480.790.654
MIR715846.48996840224567e-202.22747405348904e-240.2590482450500340.4240.274
ENSG0000028792341.38058547640093e-254.73841802718607e-300.2562424191832510.3890.225
MIR55247.53597179631326e-192.58648125903119e-230.2558965565448770.460.309
SLC37A25003.3808817486367710.419
SYT1756.71738402031315e-662.3055271898384e-700.685304896845950.760.511
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KRAS172.53641568719766e-068.70543549971741e-110.4402791268162580.3740.19
P3R3URF170.5442107476077661.86782930947201e-050.4341551221180890.5030.383
ENSG00000259782179.17512558907596e-223.14906836527868e-260.4293322042480870.3040.082
ADARB2-AS1171.2274045923658e-054.21267364211217e-100.4286440526046640.4390.245
CDC42EP2175.8464715644329e-122.00661434803436e-160.4239999158435860.3630.142
ASB13173.48232225037375e-271.19519572019967e-310.4183668356465240.2920.066
RNU6-839P179.17991138230003e-643.15071093571528e-680.4181660632329310.2510.025
HELLPAR172.46776767242014e-418.46982314806473e-460.4149930352827380.2690.042
Y_RNA173.37598636278265e-081.15869932824775e-120.4116666311537820.4680.243
SNX20173.24803208517391e-141.11478311544959e-180.4109068216565480.3390.12
CLCNKA172.09382551563563e-067.18638631121509e-110.409552631946020.4330.232
ENSG00000260436171.89623032337863e-136.50820402038243e-180.4089684728256670.3450.127
TEKT5173.87209051062942e-101.32897120765699e-140.4083165215263520.3570.149
ZNF195182.37956220331682e-528.16708609046135e-571.767028773829340.9550.282
NIM1K189.54073584526467e-893.27455239060429e-931.244722872235420.8660.108
ENSG00000260600185.66485481902995e-741.94428020971648e-781.216429303982710.7610.097
ENSG00000236664187.94562327650836e-872.7270810257099e-911.136492102451660.8060.093
ENSG00000201042182.33055923035469e-147.99889906079999e-190.9041851883128780.9550.665
ENSG00000258868181.48447995604723e-735.09500259489027e-780.8848896408265450.6270.064
ENSG00000287548181.31646093898118e-324.51833106459768e-370.8378398659871030.6570.137
ENSG00000266397181.10758878259492e-113.80144420165745e-160.7780489968102220.8660.485
Metazoa_SRP181.77743963054975e-596.1004929659176e-640.6716496390811140.5520.058
ENSG00000289249180.4307711456780681.47848416281599e-050.5123070117440720.8510.66
RNU2-3P180.09961827546468283.41907864719532e-060.5081952626126270.6720.396
MIR4453HG182.41514001664864e-108.28919555412081e-150.4971920389817590.3280.079
MICOS10186.56188533806963e-102.25215724123752e-140.4969372140499340.3880.106
CD1B186.74856415592093e-062.31622877399812e-100.4744916957194570.5970.263
LINC023711810.002475007937582680.4718197968611240.6420.485
ENSG00000256686182.7100425339945e-079.30135411173292e-120.4617432029774690.3880.12
CGRRF1180.06061908785896662.08055628291346e-060.4254240520203930.5820.342
GFER180.001680770354852455.76870659957597e-080.4107584890930810.5070.23
SUSD4180.0006055823115108092.07846757108323e-080.4106419566278020.5370.244
LINC015801810.002899879773155030.4018323147999730.6870.573
MFRP182.32661286995769e-077.98535444109584e-120.3934788865775850.3880.118
MIR6889189.31927307435848e-203.19854237862386e-240.3860583454684670.3430.055
ARF3189.89076266305589e-053.39468789918173e-090.3783758400870580.4180.157
SNORA70180.001309268610457144.4936456976151e-080.36737417128035610.998
ENSG000002900811810.006478598520819130.3647268265859180.4780.34
SNORA24B1810.00115310434677320.3561705476784270.6420.483
DUOXA1180.303545050762881.04182128899945e-050.3490430702281070.6870.419
ENSG00000241345180.008899357679030233.05441985139698e-070.33447659462834310.995
MIR2171810.0002438159375856110.3338559947037440.8660.681
LINC00235184.17530323336772e-051.43303927559298e-090.3180989089416110.2990.088
P3R3URF1810.0007092949392051480.3126264562566510.5670.384
ENSG00000287923180.1715000706246135.88619133115777e-060.3041768009042880.4780.239
MIGA11818.75543983739443e-050.3040993562251440.3130.149
LIMA11810.006366531974076280.2938059096504310.6120.474
SPAG61810.004184095166004710.2900705392488890.8660.727
GPS21810.0006271635550176390.286211238603750.6120.423
KLK7180.004905257583950651.68357275671014e-070.2852914743556110.2690.087
TTLL10180.5141608233471751.76469255679288e-050.2786258155968420.4630.239
ENSG000002621981810.003875514898872770.2726722669836760.4630.314
RNU6-600P1810.000297928201813760.2666338375034710.4330.244
NBPF41810.0003489746872071650.2621683600964860.3280.169
UBXN10180.8984569942348553.08366623501804e-050.2606163065994320.2690.109
ENSG000002873841810.002854474028852310.2551686005375480.4030.253
ENSG000002493411810.0004968681440485130.2518589767399480.3880.216
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.