Sample information : Dicrostonyx_torquatus

Estimated number of cells: The total number of barcodes identified as cells.
Median UMI counts per cell: Among barcodes identified as cells, the median number of UMI per cell.
Median genes per cell: The median number of genes per cell.
Mean reads per cell: The mean number of reads per cell.

637 Estimated number of cell

19,953

Median UMI counts per cell

2,226

Median genes per cell

123,404

Mean reads per cell

Beads to cells

(left) Beads to cells plot: In library, different mRNAs from the same cell will carry the same cell barcode and random unique molecular identifiers (UMIs). However, some mRNA from dead cells mixed in reflection system was inevitability. This graph shows the distribution of UMI counts in each barcode. Barcodes can be determined to be cell-associated based on their UMI counts or by their expression profiles. Therefore, the graph contains both cell-associated (Colored Regions) and background-associated barcodes (Gray Regions).
(right) Histogram: Histograms of number of beads per droplet.

Summary

Estimated number of cells: The total number of barcodes identified as cells.
Mean reads per cell: The mean number of reads detected per cell.
Mean UMI counts per cell: The average number of UMI counts per cell. This item refers the average abundance of expression in each cell.
Median UMI counts per cell: The median number of UMI counts per cell.
Total genes detected: The total number of genes detected.
Mean genes per cell: The mean number of genes detected per cell. This item refers the activity of gene expression in each cell.
Median genes per cell: The median number of genes detected per cell.
Sequencing saturation: The fraction of UMI originating from an already-observed UMI.
Fraction reads in cells: The fraction of uniquely-mapped-to-transcriptome reads with cell-associated barcode.
Plot: The distribution of nFeature and nCount in violin.

Sample name

Dicrostonyx_torquatus

Species

Dicrostonyx_torquatus

Estimated number of cells

637

Mean reads per cell

123,404

Mean UMI count per cell

21,664

Median UMI counts per cell

19,953

Total genes detected

9,691

Mean genes per cell

2,243

Median genes per cell

2,226

Fraction reads in cells

99.45%

Sequencing saturation

38.22%

Sequencing

Number of reads: Number of raw off-machine reads obtained by this sequencing program.
Reads pass QC: Number of reads after quality control (QC) that can be used for downstream analysis. QC includes filtering low quality reads and invalid barcodes.
Reads with exactly matched barcodes: Number of reads with barcodes that match the barcode whitelist before correction.
Reads with failed barcodes: Number of reads with invalid barcodes that fail to match the barcode whitelist.
Reads filtered on low quality: Number of reads in low quality. The QC will filter the average base quality < Q20 or 2 bases < Q10 in the first 15 bases.
Q30 bases in cell barcode: Fraction of cell barcode bases with Q-score ≥ 30.
Q30 bases in UMI: Fraction of UMI bases with Q-score ≥ 30.
Q30 bases in reads: Fraction of RNA read bases with Q-score ≥ 30.

mRNA

Number of reads

95,918,022

Reads pass QC

97.25%

Reads with exactly matched barcodes

100.0%

Reads with failed barcodes

0.0%

Reads filtered on low quality

0.0%

Q30 bases in cell barcode

87.66%

Q30 bases in UMI

87.80%

Q30 bases in reads

94.09%

Droplet index

Number of reads

218,724,924

Reads pass QC

96.18%

Reads with exactly matched barcodes

90.21%

Reads with failed barcodes

3.26%

Reads filtered on low quality

0.56%

Q30 bases in cell barcode

95.89%

Q30 bases in reads

96.75%

Mapping & Annotation

Reads pass QC: Number of reads after quality control (QC) that can be used for downstream analysis. QC includes filtering low quality reads and invalid barcodes.
Reads mapped to genome: Fraction of reads that mapped to the genome.
Plus strand: The number of reads in plus strand.
Minus strand: The number of reads in minus strand.
Mitochondria ratio: The fraction of reads mapped to mitochondria.
Mapping quality corrected reads: The number of reads that align to a single exonic locus but also align to 1 or more non-exonic loci.
Reads mapped to exonic regionse: Fraction of reads that mapped to an exonic region of genome.
Reads mapped to intronic regions: Fraction of reads that mapped to an intronic region of genome.
Reads mapped antisense to gene: Fraction of reads mapped to transcriptome, but on the opposite strand of their annotated gene. This part of reads will be filtered out cause them are opposite to theoretical direction.
Reads mapped to intergenic regions: Fraction of reads that mapped to intergenic regions of genome.

Reads pass QC

93,279,577

Reads mapped to genome

84.84%

Plus strand

51.98%

Minus strand

48.02%

Mitochondria ratio

0.00%

Mapping quality corrected reads

1.43%

Reads mapped to exonic regions

32.9%

Reads mapped to intronic regions

1.8%

Reads mapped antisense to gene

1.4%

Reads mapped to intergenic regions

65.3%

Include introns

True

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 table shows the top 30 differentially expressed genes for each cluster. Here a differential expression test was performed between each cluster and the rest of the sample for each gene. The p-value is a measure of the statistical significance of the expression difference, the smaller the P value, the closer to the theoretical value. Avg_log2FC is log fold-chage of the average expression between the markers for every cluster compared to all remaining cells.

Select:

gene	cluster	p_val_adj	p_val	avg_log2FC	pct.1	pct.2
g7354	0	0.0415021020435318	0.004740701303201481	1.248	0.326	0.172
g225	0	5.7261253299304937e-11	5.445025869421603e-13	1.119	0.961	0.724
g10487	0	0.0011751323953333064	7.347196480985609e-05	1.045	0.605	0.421
g7245	0	1.7343432398667215e-05	6.163896692263755e-07	0.962	0.729	0.497
g6856	0	4.65109372727596e-08	9.011390437964833e-10	0.921	0.946	0.747
g3645	0	0.0415021020435318	0.004740701303201481	0.917	0.395	0.267
g3034	0	0.006689296822165761	0.0005414728558058818	0.868	0.636	0.471
g478	0	0.02869007361300656	0.003069186527006526	0.846	0.457	0.326
g303	0	0.00017416852284866057	8.446541937745575e-06	0.836	0.822	0.706
g2527	0	0.06355764421707903	0.007917319759835829	0.803	0.411	0.267
g1943	0	0.009876300065449562	0.0008698845059429603	0.762	0.519	0.366
g7330	0	0.0007881043809005069	4.665113297140763e-05	0.748	0.713	0.554
g12210	0	3.942243998430236e-07	9.418650228033726e-09	0.745	0.984	0.947
g12243	0	4.0963126614027466e-08	7.839133941350793e-10	0.741	0.946	0.811
g2815	0	0.015838654747552947	0.0015249388262828822	0.739	0.504	0.345
g5013	0	0.005980183453084358	0.00047838624318623235	0.698	0.636	0.483
g2032	0	1.9522253942926004e-05	7.05427932800369e-07	0.695	0.853	0.717
g1741	0	0.010738451035655038	0.000957308721828275	0.69	0.55	0.391
g3355	0	0.017887788436348598	0.0017541216522034464	0.688	0.597	0.499
g9737	0	0.00029771296040149764	1.5535004114615176e-05	0.674	0.775	0.614
g8116	0	0.05329385942449589	0.0064043851037876316	0.666	0.512	0.391
g7755	0	2.9692019444993734e-10	3.3528370941095976e-12	0.663	1.0	0.993
g9887	0	0.0040732528478290165	0.00030356942060962716	0.659	0.667	0.531
g5496	0	2.252068247325536e-05	8.378668268309673e-07	0.651	0.868	0.743
g11005	0	0.07295895234524102	0.00940063049355061	0.636	0.488	0.347
g9777	0	0.008798452795333365	0.0007554831814907763	0.616	0.628	0.506
g11863	0	0.0291679233745545	0.0031341736277899998	0.615	0.558	0.455
g7113	0	0.0024512320978565022	0.00016957293247979132	0.612	0.736	0.625
g10349	0	0.04379089616411175	0.005059402243137599	0.612	0.535	0.421
g9670	0	2.815993867240807e-07	6.359667595099885e-09	0.611	0.984	0.903
g3392	0	0.00041126326631936314	2.243787462743227e-05	0.611	0.853	0.722
g7950	0	0.00010429863846835076	4.698583618151068e-06	0.609	0.845	0.715
g9629	0	0.018381968149956986	0.0018156918498293422	0.609	0.566	0.444
g6848	0	0.0314733269087865	0.0034305290354638323	0.602	0.605	0.515
g11101	0	0.00048181721102167637	2.697443318568995e-05	0.597	0.899	0.772
g7342	0	4.36009866279222e-07	1.052062318491407e-08	0.589	0.992	0.956
g1055	0	1.0103511208925584e-08	1.6933259009372487e-10	0.584	1.0	0.989
g8494	0	3.214962668684381e-05	1.2343194365684715e-06	0.577	0.915	0.828
g4967	0	0.0023081708862185825	0.00015885307775116597	0.577	0.767	0.653
g4793	0	0.004510628019023391	0.0003420635535643556	0.566	0.721	0.637
g8599	0	0.00031591267389835867	1.6747539826300723e-05	0.557	0.891	0.814
g4505	0	0.005021441909571866	0.00038915727148946356	0.557	0.729	0.538
g10187	0	0.00018561654624802025	9.112044882970684e-06	0.555	0.915	0.814
g11840	0	6.507238878014687e-05	2.722629365340746e-06	0.549	0.907	0.832
g7234	0	0.003218616997604376	0.00023107627083716187	0.533	0.767	0.641
g12897	0	4.349550093464381e-05	1.7112814464955548e-06	0.528	0.946	0.878
g2814	0	0.015517551609854296	0.0014866452629909144	0.526	0.667	0.536
g4548	0	0.03132125164785075	0.0034102301806051686	0.521	0.581	0.405
g2965	0	0.000748568887749074	4.3954954302631946e-05	0.516	0.946	0.828
g3604	0	0.005655596904236133	0.0004463706578405792	0.512	0.791	0.683
g369	1	1.0635903603478118e-25	6.321112328229002e-29	2.47	0.979	0.726
g8423	1	1.002851172464293e-06	2.050284103932704e-08	2.0	0.521	0.173
g275	1	1.1216164443226107e-07	1.6798249374141085e-09	1.964	0.594	0.276
g3470	1	6.7746249169826445e-12	4.912066087435413e-14	1.886	0.938	0.831
g2847	1	0.06595424049302272	0.0066244304310714595	1.86	0.25	0.075
g10070	1	2.59865041298181e-09	2.5946349065787714e-11	1.82	0.771	0.438
g5667	1	2.8438162795174994e-27	3.380264209577439e-31	1.81	1.0	0.904
g10446	1	0.035249840813917056	0.0031675834607537497	1.708	0.312	0.128
g1424	1	1.2863238815499098e-07	1.9570837613026083e-09	1.648	0.656	0.335
g4840	1	0.07669301852208538	0.007930931429242158	1.644	0.26	0.088
g8959	1	3.321654502893041e-07	6.001325144891742e-09	1.63	0.625	0.297
g11100	1	0.00414057389844902	0.0002510035288492809	1.578	0.354	0.115
g1587	1	0.02553284536673813	0.002121414348193267	1.524	0.302	0.103
g11494	1	5.929129603596526e-13	3.805693552766105e-15	1.385	0.906	0.615
g11388	1	0.03106220556429958	0.0027076264085395076	1.384	0.344	0.154
g12580	1	1.3811892941545258e-05	3.7267320786054604e-07	1.383	0.698	0.449
g8584	1	1.310804906751367e-16	3.739369756571117e-19	1.364	0.99	0.88
g368	1	0.013674968148766828	0.0010081768196225473	1.349	0.406	0.199
g8721	1	0.05129341874953535	0.0049324112407433856	1.341	0.312	0.13
g1386	1	0.0015947706163636183	8.359608246955375e-05	1.27	0.469	0.233
g3879	1	0.048927732568588955	0.004635136438507713	1.254	0.333	0.152
g1638	1	2.9547983703834286e-09	3.020476166087898e-11	1.252	0.99	0.981
g12704	1	0.002876530723069424	0.00016651259504752282	1.196	0.469	0.231
g10248	1	0.02301967685099015	0.0018633543249167114	1.192	0.396	0.194
g587	1	3.8763868840488705e-05	1.2302333270427296e-06	1.187	0.625	0.372
g10461	1	1.4298794419544014e-05	3.89210022830807e-07	1.147	0.698	0.47
g12657	1	5.298636406885831e-07	1.0140026881119919e-08	1.07	0.844	0.665
g11308	1	2.2801124860491478e-15	8.543923063092178e-18	1.045	0.99	0.904
g11638	1	2.615288092710878e-13	1.5543136174437644e-15	1.008	0.969	0.904
g5371	1	0.020832547051289087	0.0016615522490687007	1.003	0.438	0.248
g5850	1	1.6616605279213761e-15	5.9253317291859365e-18	0.99	0.99	0.934
g8732	1	0.002219784254746881	0.000122691035119137	0.968	0.604	0.397
g56	1	3.8631307765863483e-07	7.071462493691878e-09	0.962	0.865	0.69
g6177	1	0.02521048368872555	0.0020826442605092425	0.952	0.781	0.675
g10557	1	0.016103310729343238	0.001226937142221445	0.944	0.469	0.267
g4118	1	1.7448317832864312e-05	4.909574882882378e-07	0.924	0.792	0.618
g8383	1	1.216964550326672e-08	1.46099393299648e-10	0.914	0.938	0.855
g7206	1	0.045132561564727336	0.004201303221459623	0.913	0.406	0.22
g3128	1	2.8309152177148567e-05	8.647868904703652e-07	0.907	0.75	0.575
g5600	1	0.013530187087472813	0.000992288771302832	0.893	0.542	0.368
g10985	1	0.00012837963509373362	4.684719835228364e-06	0.892	0.75	0.581
g226	1	0.08251565260770369	0.008680179788163291	0.891	0.396	0.229
g12427	1	4.428292563377678e-05	1.4422348298650705e-06	0.884	0.781	0.583
g334	1	2.4770567569091016e-15	9.716257337216255e-18	0.88	1.0	0.994
g7371	1	0.00033568992612894227	1.3646256357553578e-05	0.858	0.688	0.427
g6706	1	0.030030432027169988	0.0025879071935930396	0.853	0.438	0.254
g10251	1	2.9279536955723863e-06	6.751729667669594e-08	0.848	0.927	0.782
g7537	1	0.02784637298264611	0.0023467346302978834	0.847	0.542	0.382
g1882	1	9.18595123242074e-19	1.5286261411374108e-21	0.844	1.0	0.983
g7544	1	4.7732739526757535e-09	5.163056337733193e-11	0.843	0.969	0.844
g807	2	2.7804088770859026e-09	1.2228114638319076e-11	5.33	0.507	0.018
g804	2	7.361038328599482e-37	8.749599820039798e-41	5.238	1.0	0.126
g794	2	8.057712918015866e-35	2.873307827653346e-38	4.983	0.986	0.147
g12170	2	7.2457676177452e-30	6.02880938122149e-33	4.877	0.904	0.086
g12917	2	8.689885049800014e-33	5.164557856769294e-36	4.78	0.945	0.138
g12168	2	3.7651636043649504e-21	4.4754113923272915e-24	4.177	0.781	0.102
g12175	2	1.6242989247707178e-30	1.15842072371619e-33	4.17	0.932	0.134
g12766	2	4.5002719280338223e-20	6.419025690764991e-23	4.095	0.767	0.096
g12167	2	7.725712639232245e-16	1.4692904104090803e-18	3.863	0.699	0.081
g799	2	8.057712918015866e-35	2.2817693262856356e-38	3.761	0.986	0.326
g12762	2	1.0998440029994142e-07	6.839692644215422e-10	3.727	0.493	0.049
g803	2	1.1250208725695981e-33	5.348964091618201e-37	3.645	0.973	0.377
g792	2	1.1076098888990302e-22	1.0532365519068397e-25	3.55	0.849	0.159
g796	2	0.006587387171163487	0.00016051519910715735	3.496	0.301	0.029
g806	2	0.030100426494864378	0.0009990599894282837	3.258	0.274	0.037
g12763	2	1.58597971818926e-11	4.524368624336412e-14	3.242	0.63	0.104
g12767	2	0.03860785183538421	0.0013400086456593595	3.226	0.26	0.029
g8032	2	9.76316870465561e-09	5.3382355927036496e-11	2.926	0.562	0.09
g12400	2	0.001153417484082614	2.0839112989487376e-05	2.755	0.37	0.063
g800	2	0.00043918752273501387	6.682040046366549e-06	2.685	0.397	0.071
g2471	2	1.0696448741775597e-19	1.6528448073586446e-22	2.67	0.89	0.234
g9537	2	4.3532844344080915e-11	1.448852539681761e-13	2.528	0.671	0.149
g9509	2	1.4501779342513133e-10	5.343577316271331e-13	2.525	0.671	0.153
g12665	2	1.3487900698649452e-20	1.763543417153738e-23	2.515	0.932	0.301
g795	2	0.004313500565576623	9.895466648713756e-05	2.398	0.356	0.075
g488	2	2.767493882957706e-05	2.8947992594826833e-07	2.33	0.479	0.112
g5127	2	0.004955417386451197	0.00011662577469598679	2.319	0.37	0.088
g2770	2	1.6406181633043452e-06	1.3305108372705929e-08	2.221	0.548	0.145
g1524	2	5.8338551025756204e-08	3.3311822357336267e-10	2.189	0.616	0.189
g3359	2	7.661691405040442e-13	1.8213934161512995e-15	2.139	0.795	0.234
g11897	2	0.038079494749847106	0.0013080915229651507	2.139	0.315	0.088
g2788	2	5.0350779777948896e-17	8.977317207526845e-20	2.051	0.904	0.405
g2848	2	2.9121548460159535e-12	7.961436046400444e-15	2.027	0.822	0.336
g5023	2	0.029201300426403426	0.0009614596717120825	2.024	0.329	0.09
g7461	2	2.9614395163812164e-14	5.98412834642585e-17	2.019	0.836	0.387
g5923	2	5.2375679723158197e-14	1.1206017294863277e-16	2.019	0.904	0.371
g7968	2	1.0998440029994142e-07	7.025240738906414e-10	1.978	0.658	0.238
g11119	2	0.0035447128699438446	7.836878566617794e-05	1.974	0.384	0.096
g11710	2	1.4366504944024707e-22	1.5368898668277945e-25	1.969	1.0	0.729
g7974	2	0.03702969367706228	0.0012632262076924846	1.923	0.329	0.096
g12976	2	0.06230484154161203	0.002554994690580786	1.907	0.301	0.081
g2673	2	0.04986424736203905	0.0018788739348349437	1.851	0.315	0.09
g381	2	0.08417075192224548	0.0037117970953468526	1.841	0.315	0.11
g8213	2	8.14629281896327e-09	4.163682291874725e-11	1.824	0.712	0.275
g676	2	1.2361853444015364e-09	5.2897506713960905e-12	1.823	0.74	0.218
g7846	2	1.7906749288366474e-11	5.321154549021299e-14	1.809	0.822	0.373
g3034	2	1.180727957177162e-10	4.0700238628477005e-13	1.808	0.89	0.452
g996	2	2.900398416639257e-06	2.620115056039267e-08	1.789	0.616	0.24
g3183	2	0.04550330300015529	0.001672290570839788	1.753	0.329	0.098
g1741	2	1.8009570726819808e-10	6.850187367862045e-13	1.727	0.849	0.365
g3797	3	0.0021537398397867527	5.632030961049395e-06	1.11	0.726	0.517
g4963	3	0.005852123794771421	2.8530944891841046e-05	1.103	0.63	0.352
g7481	3	0.0004588434250663052	2.972742723464191e-07	1.018	0.795	0.532
g3217	3	0.07148308726853614	0.0010366024779224305	0.985	0.534	0.322
g2512	3	0.01519019709626698	0.00011265609850083268	0.971	0.644	0.434
g1981	3	0.0009022373192962002	1.608648495119815e-06	0.876	0.89	0.688
g6201	3	0.004734206009285948	2.1383552639113994e-05	0.842	0.849	0.644
g2049	3	0.013522121480869329	8.518631148057464e-05	0.828	0.945	0.813
g6910	3	0.08087822971626511	0.001278593195324291	0.827	0.589	0.375
g5160	3	0.01519019709626698	0.00011301164269259194	0.823	0.726	0.507
g11764	3	0.0007987182612510063	1.3011373490439644e-06	0.818	0.986	0.864
g5728	3	0.0007833650378595894	1.0242500197855086e-06	0.807	0.904	0.758
g10069	3	0.017800169660145172	0.0001481055362189661	0.807	0.849	0.672
g10587	3	0.012179094752486996	7.527789458330249e-05	0.802	0.74	0.511
g8782	3	0.01216033949941606	7.230253214550244e-05	0.79	0.795	0.591
g4938	3	0.003935887493922584	1.590635620983809e-05	0.779	0.973	0.833
g9294	3	0.029353492141134894	0.00028610321592452886	0.768	0.699	0.497
g2340	3	0.07893887819215396	0.001219785351834068	0.758	0.753	0.595
g5038	3	0.002191822648889082	5.992145599007357e-06	0.748	0.904	0.752
g8399	3	0.003111928988407064	1.2206544231241305e-05	0.734	0.863	0.644
g3589	3	0.0025300162440281813	7.665432424555265e-06	0.725	0.973	0.804
g1149	3	0.005962791368375365	3.047664671819098e-05	0.723	0.918	0.727
g2657	3	0.036458830997995	0.0003832452357896932	0.719	0.658	0.426
g5559	3	0.041024667964135654	0.000477881547662581	0.717	0.726	0.511
g11875	3	0.015052589044669802	0.00010377394087612606	0.715	0.781	0.572
g10180	3	0.027248865720719214	0.0002623509001994837	0.712	0.849	0.607
g5727	3	0.003111928988407064	1.2142109487954684e-05	0.705	0.904	0.719
g8005	3	0.0004912639800825739	4.6714749086658644e-07	0.702	1.0	0.986
g8689	3	0.036458830997995	0.0003900267193414418	0.68	0.726	0.595
g12613	3	0.002914075962604937	1.0044954584041742e-05	0.665	0.986	0.876
g132	3	0.029566780561333092	0.0002916965157007782	0.657	0.877	0.758
g8373	3	0.018243487219390155	0.00015659629484612373	0.649	0.836	0.67
g319	3	0.0393311741672557	0.0004356483234065484	0.639	0.781	0.53
g161	3	0.017670003664533897	0.00014492217435550206	0.636	0.849	0.688
g9192	3	0.0023937971556365015	6.828851983273034e-06	0.634	0.932	0.849
g12537	3	0.01519019709626698	0.00011408463643114983	0.631	0.877	0.735
g5106	3	0.01216033949941606	7.371654754192548e-05	0.628	0.932	0.837
g4635	3	0.08051153094937026	0.0012632262076924846	0.628	0.699	0.483
g4970	3	0.0025300162440281813	8.11962897762521e-06	0.624	0.973	0.851
g4490	3	0.017906698945479388	0.000151120364332466	0.611	0.89	0.815
g2559	3	0.041024667964135654	0.0004656328071993795	0.611	0.822	0.735
g9411	3	0.008270661258989632	4.522173040693249e-05	0.606	0.973	0.864
g11625	3	0.02349173723579975	0.000211127724010385	0.603	0.945	0.804
g914	3	0.000131151506386122	5.3509710309595916e-08	0.594	1.0	0.978
g3873	3	0.02349173723579975	0.0002150081739161513	0.593	0.918	0.756
g8866	3	0.0006205274460204315	7.375816546064798e-07	0.586	0.986	0.965
g3213	3	0.013593965723535308	8.725474254973333e-05	0.586	0.959	0.827
g4013	3	0.014933334085112117	0.00010117675536091651	0.579	0.945	0.859
g6885	3	0.000131151506386122	6.235659402644574e-08	0.575	1.0	0.976
g5065	3	0.05015348405522893	0.0006259498188278899	0.573	0.89	0.727
g7050	4	7.066871945590119e-25	1.6799885761536e-28	3.47	0.928	0.283
g12961	4	0.0011800857751558677	1.823501138360428e-05	1.955	0.464	0.192
g11919	4	0.03920188303051515	0.0014258619050680657	1.671	0.391	0.176
g11571	4	0.00016151810717083032	1.8238702224211198e-06	1.623	0.58	0.313
g8139	4	0.021584272346247678	0.0006567899347009873	1.414	0.464	0.244
g11615	4	0.003958036209067695	8.092026957799163e-05	1.368	0.565	0.321
g3799	4	3.4863168768072575e-07	1.518349210587267e-09	1.277	0.884	0.671
g4816	4	8.386648981845113e-05	8.521385497858296e-07	1.268	0.696	0.436
g559	4	8.386648981845113e-05	8.573063264455958e-07	1.268	0.725	0.414
g4298	4	0.044592364927200576	0.001770337559216093	1.243	0.435	0.224
g10556	4	2.9297022838060994e-12	4.875292044845524e-15	1.242	0.928	0.846
g3798	4	3.327790084812157e-08	1.028438633128683e-10	1.227	1.0	0.992
g12851	4	0.00028084894664065854	3.5051871386270234e-06	1.215	0.71	0.467
g554	4	7.539408713488474e-12	1.344242609085072e-14	1.206	0.986	0.988
g8131	4	1.2625819471332759e-15	1.0505258088592572e-18	1.144	0.986	0.97
g12878	4	3.2478201106316816e-14	3.4744301670848844e-17	1.11	1.0	0.954
g1136	4	5.139555714656567e-05	4.948342005077642e-07	1.081	0.913	0.733
g8184	4	0.06953229926546424	0.0031571779768700035	1.076	0.507	0.347
g4297	4	1.427780899970859e-05	1.069180990112494e-07	1.047	0.884	0.673
g3801	4	0.000425408750182138	5.966745812610517e-06	1.028	0.884	0.76
g5777	4	0.001427360420253511	2.2734612660640732e-05	0.981	0.768	0.541
g4778	4	0.07870477690272674	0.003788830933745909	0.946	0.652	0.558
g10883	4	4.342192611288771e-05	4.0258055827947715e-07	0.943	0.884	0.701
g2752	4	8.541447298407322e-07	4.365651180690774e-09	0.918	0.986	0.911
g12394	4	0.020836158669808477	0.0006216421997054472	0.908	0.652	0.477
g6016	4	0.08041771444165771	0.003909526352863188	0.897	0.58	0.424
g8928	4	0.08450686620144283	0.004218814192868892	0.87	0.536	0.384
g6153	4	6.324472179282711e-07	3.0069997286498087e-09	0.834	0.971	0.911
g1223	4	0.003830507968438266	7.740239565369134e-05	0.826	0.71	0.511
g3609	4	0.001663696328743647	2.8278684774793953e-05	0.823	0.884	0.685
g4619	4	0.019417392648482475	0.0005738602202069271	0.815	0.609	0.436
g5106	4	0.00148182091481131	2.4130448749453166e-05	0.777	0.971	0.832
g11045	4	3.0881215149290966e-05	2.789697315281247e-07	0.764	0.913	0.79
g7818	4	0.05309680838643377	0.0022720612170588563	0.754	0.739	0.618
g7301	4	0.023702760576810544	0.000753983061663137	0.74	0.812	0.729
g8191	4	0.048431495201215154	0.0020121890762959953	0.738	0.623	0.457
g8067	4	1.255591224954687e-09	3.2833717994773703e-12	0.734	0.986	0.968
g12374	4	0.09334114374245646	0.0048928377975066325	0.711	0.551	0.325
g8068	4	8.063138295159652e-08	2.6835596370435067e-10	0.708	0.971	0.964
g3121	4	0.0377926343525664	0.0013611278032601472	0.708	0.797	0.693
g7046	4	1.8471737088564195e-12	2.8543038410951448e-15	0.691	1.0	0.998
g10639	4	6.380504336586393e-15	6.0672809571723695e-18	0.662	1.0	1.0
g8095	4	1.9286766006664726e-25	2.2924956622684806e-29	0.654	1.0	1.0
g11602	4	0.012198928146075818	0.0003117519970767028	0.637	0.841	0.679
g1016	4	0.021917322194633753	0.000672134687533045	0.618	0.768	0.699
g566	4	0.08506265874916219	0.004276893456661786	0.618	0.725	0.618
g8924	4	0.00926232699518725	0.00021697577436675594	0.611	0.812	0.731
g1757	4	0.00015757930947940128	1.7606626757475004e-06	0.592	0.957	0.903
g3002	4	0.017158499548121816	0.00048336674110363375	0.573	0.942	0.891
g4780	4	0.000153898998614978	1.6829558864350383e-06	0.564	1.0	0.98
g676	5	1.7657100444128264e-15	3.1481814651363837e-18	3.321	0.806	0.221
g10487	5	5.032453854730405e-24	5.981759009545233e-28	3.295	0.984	0.398
g9393	5	3.887898320353112e-06	4.390233453388157e-08	3.281	0.484	0.066
g9809	5	3.621144714252046e-15	6.886760421732168e-18	3.247	0.774	0.147
g12467	5	6.406480197374898e-05	1.058481810810782e-06	3.203	0.435	0.056
g4498	5	2.7418618176412286e-20	2.2813541808497088e-23	3.202	0.903	0.277
g1456	5	8.846448754793861e-08	5.467910795783677e-10	3.134	0.565	0.102
g3034	5	5.0006396101309276e-20	5.349549089644401e-23	3.087	0.968	0.452
g5923	5	5.141746700529367e-22	1.2223336979744128e-25	3.001	0.968	0.375
g7974	5	1.5564929298273978e-06	1.4060794326266758e-08	2.984	0.516	0.078
g959	5	3.338990193805371e-18	4.365730670612039e-21	2.96	0.903	0.317
g2576	5	5.033102005474848e-05	8.01658942985415e-07	2.885	0.452	0.068
g2914	5	0.05064817962539476	0.0031786804757171555	2.831	0.274	0.046
g10256	5	1.319907272666934e-16	1.882668164983146e-19	2.812	0.887	0.363
g1618	5	9.350525884463337e-11	3.2231695073034206e-13	2.697	0.694	0.201
g958	5	0.0005193310428267496	1.1543433377939161e-05	2.53	0.435	0.098
g3014	5	5.3545526746251576e-21	1.9093852399709347e-24	2.513	0.968	0.572
g7978	5	1.6199319641419615e-06	1.4826430671452637e-08	2.506	0.565	0.139
g3359	5	7.830738729584607e-15	1.6635220439844625e-17	2.495	0.839	0.241
g3588	5	9.414409145889699e-21	5.595155798103945e-24	2.409	1.0	0.476
g2471	5	1.0589729516879918e-07	7.048910649533762e-10	2.391	0.677	0.275
g8827	5	7.749583283809954e-21	3.684575435069513e-24	2.363	0.984	0.759
g9509	5	1.3648916405619443e-07	1.0220869292214726e-09	2.304	0.629	0.169
g1400	5	8.884465489217578e-12	2.534496276491405e-14	2.271	0.79	0.251
g5326	5	0.0010379601264627603	2.6525784760429513e-05	2.271	0.419	0.086
g9350	5	0.0497818224586868	0.0030947216386417683	2.258	0.29	0.062
g12040	5	0.002742983903924885	8.610481706006226e-05	2.229	0.403	0.106
g4617	5	1.7022338934851983e-09	7.081681477710916e-12	2.218	0.726	0.233
g4561	5	1.1924982436408921e-06	1.0489108526022348e-08	2.181	0.597	0.165
g2290	5	1.39057219542863e-05	1.801644708210159e-07	2.17	0.532	0.131
g5814	5	1.0341016023643388e-07	6.760440761920674e-10	2.11	0.661	0.203
g8033	5	0.0013560946192481109	3.707378609616849e-05	2.075	0.435	0.114
g11897	5	0.04283251663572814	0.0025405236896741163	2.07	0.323	0.092
g3667	5	0.03162804103600496	0.0017067788696477181	2.029	0.339	0.094
g10642	5	0.02900215300888033	0.001530602155704608	2.019	0.355	0.118
g11005	5	6.952366986225445e-12	1.735405999176683e-14	2.018	0.823	0.325
g7245	5	7.830738729584607e-15	1.6754225262394262e-17	1.987	0.952	0.5
g9265	5	9.549279658009704e-05	1.702593544159581e-06	1.894	0.532	0.155
g8032	5	0.007092084325101306	0.00027650108862869706	1.853	0.403	0.12
g4548	5	1.2686743614338642e-10	4.523978467017226e-13	1.791	0.839	0.396
g7901	5	0.0017084565570960834	4.79253236033134e-05	1.767	0.468	0.145
g12665	5	4.2901017651678036e-08	2.3457111755345175e-10	1.766	0.774	0.335
g5117	5	0.06551437267013187	0.004516621436904372	1.761	0.339	0.12
g11030	5	0.026211572265490195	0.0013615187305383591	1.744	0.371	0.122
g10890	5	6.80949955812691e-05	1.1412569091832808e-06	1.738	0.548	0.157
g12210	5	1.2772471990905893e-20	9.1090968673999e-24	1.726	1.0	0.95
g5628	5	0.08728674328368151	0.006613248820769354	1.686	0.306	0.09
g303	5	8.695737690117337e-12	2.3772966465315435e-14	1.667	0.952	0.705
g501	5	3.735761010878768e-11	1.1989248459969894e-13	1.656	0.887	0.512
g12405	5	3.8482615052499354e-20	3.659347681207593e-23	1.63	1.0	0.924
g7707	6	0.006619092672019338	0.0006624600059241985	3.747	0.306	0.05
g10651	6	0.0014087006988954996	0.00010766605840839251	3.702	0.339	0.048
g6892	6	0.005023160456920892	0.00048422478670662585	3.698	0.323	0.064
g4354	6	6.74489390615438e-05	3.4554252627511445e-06	3.561	0.435	0.1
g171	6	0.00968454001589622	0.001018758815412832	3.52	0.29	0.04
g12360	6	9.84223815979178e-07	3.0884950364733504e-08	3.36	0.516	0.112
g5502	6	2.6246640306360648e-06	9.265722299998945e-08	3.34	0.516	0.129
g4104	6	0.032965789783281366	0.004361217642789987	3.306	0.29	0.084
g10692	6	0.0013126598532219598	9.92335274752367e-05	3.271	0.371	0.08
g9916	6	0.03806501032007852	0.005189654919425896	3.241	0.274	0.07
g2081	6	0.00011557640604683922	6.346879780534854e-06	3.216	0.452	0.133
g6437	6	0.002007075392130356	0.0001636578769762777	3.213	0.339	0.048
g5603	6	1.0416116767286737e-07	2.4638146162962805e-09	3.133	0.565	0.125
g5729	6	0.0010478349972653186	7.672249593669753e-05	3.123	0.403	0.116
g3885	6	1.0490339493368297e-11	1.0224745494546539e-13	3.042	0.774	0.325
g7181	6	0.00029240523579276517	1.8664163986772244e-05	3.033	0.435	0.129
g6623	6	0.0021154951781414727	0.00017425866616570075	2.983	0.387	0.118
g5523	6	0.008725503835176935	0.0009095764725365711	2.954	0.339	0.098
g218	6	0.0839386075738674	0.01374865104442996	2.925	0.242	0.058
g5319	6	0.03442715510715303	0.004587286446584874	2.916	0.274	0.062
g5498	6	0.001259697349828908	9.493024126845687e-05	2.864	0.419	0.137
g6296	6	0.08554583562376397	0.014052578727212862	2.832	0.258	0.078
g9146	6	5.857537898146148e-06	2.3463571516406182e-07	2.806	0.548	0.183
g6297	6	0.05345322231078421	0.00779592342509595	2.799	0.258	0.054
g1027	6	0.01566971188107485	0.0018029574587995313	2.763	0.323	0.09
g9123	6	0.0001733627470852552	1.0200232949863464e-05	2.752	0.484	0.203
g8574	6	0.0021427412118701574	0.00017803115500977535	2.748	0.403	0.153
g8815	6	3.7739454314714337e-07	1.0362313023533832e-08	2.704	0.645	0.299
g9646	6	1.4330524595076762e-08	2.674304482856355e-10	2.646	0.661	0.281
g5194	6	0.000804440527211573	5.746686756854337e-05	2.643	0.403	0.108
g3463	6	0.016371947772141095	0.0018934868872332446	2.643	0.306	0.074
g2897	6	1.909471419543288e-07	4.799754421232552e-09	2.623	0.597	0.197
g5402	6	0.026910620116210735	0.003438597007598543	2.615	0.339	0.125
g12720	6	0.016649889260452914	0.0019335482951934504	2.609	0.339	0.112
g1559	6	0.005465868776354168	0.0005327484127671957	2.594	0.355	0.102
g1291	6	4.093523284019366e-18	3.4059982156347986e-21	2.59	0.952	0.502
g1385	6	0.061084119476446486	0.00926463050659048	2.585	0.258	0.06
g9527	6	0.0035911869369530352	0.0003274028741998072	2.576	0.387	0.131
g2076	6	7.429904252167648e-06	3.082178276484618e-07	2.558	0.548	0.193
g5876	6	2.2482926194028632e-13	1.5767177528202654e-15	2.547	0.871	0.446
g5022	6	0.0766683426583341	0.012257092698854078	2.538	0.29	0.11
g1222	6	0.07688844607080386	0.012328837959053181	2.535	0.242	0.05
g12840	6	0.0035778074410042025	0.000325332543963891	2.533	0.371	0.108
g9880	6	0.0002352255740336159	1.4343363779774748e-05	2.49	0.468	0.163
g3053	6	0.04982794646515694	0.007160583296847111	2.488	0.306	0.106
g2021	6	4.681883877522882e-10	6.399817495722471e-12	2.474	0.742	0.331
g1699	6	0.014119474166944673	0.001599412680506154	2.473	0.339	0.11
g6741	6	0.021624343746196102	0.0026320370849999774	2.466	0.323	0.098
g618	6	6.544947731263516e-08	1.4469990229585333e-09	2.452	0.645	0.265
g4385	6	1.182778266582804e-06	3.7537358513919965e-08	2.452	0.597	0.217

Saturation

Left: The plot shows the Sequencing Saturation metric as a function of downsampled sequencing depth in mean reads per cell, up to the observed sequencing depth. 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, up to the observed sequencing depth. 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.