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4k Pan T Cells from a Healthy Donor

Pan T cells isolated from mononuclear cells of a healthy donor (same donor as t_3k). T cells are primary cells with relatively small amounts of RNA (~1pg RNA/cell).

CellRanger Metadata

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Accession Estimated No. of Cells Mean Reads per Cell Median Genes per Cell No. of Reads % Valid Barcodes % sequencing Saturation % Q30 Bases in Barcode % Q30 Bases in UMI % Reads Mapped to Genome % Reads Mapped Confidently to Genome % Reads Mapped Confidently to Intergenic Regions % Reads Mapped Confidently to Intronic Regions % Reads Mapped Confidently to Exonic Regions % Reads Mapped Confidently to Transcriptome % Reads Mapped Antisense to Gene % Fraction Reads in Cells Total Genes Detected Median UMI Counts Per Cell
4790 69979 1015 335198537 98.4 89.9 97.7 97.8 95.4 93.2 3.2 22.3 67.7 63.8 1.1 89.3 18752 3564

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Top 10 Marker Genes per Cluster

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Accession Seurat Cluster Gene Symbol P Value Average Log Pct 1 Pct 2 Adjusted P Value
0 LMNA 1.70268539321227e-271 2.08817473762331 0.728 0.191 5.71046627175531e-267
0 ANXA1 1.04043296455266e-167 1.22851430948185 0.923 0.598 3.48940407651672e-163
0 NFKBIA 2.1366654999158e-117 0.843803380278489 0.955 0.664 7.1659487536176e-113
0 RGCC 3.38220542696804e-96 0.840537902545099 0.918 0.629 1.13432405609654e-91
0 TNFAIP3 3.57652849767563e-96 0.81193793328121 0.875 0.57 1.19949612755045e-91
0 AC020916.1 1.2795229004642e-93 0.776528182329228 0.603 0.258 4.29126390357685e-89
0 PPP1R15A 4.56848601458675e-88 0.714975137761425 0.928 0.642 1.5321788395721e-83
0 S100A4 7.20975525808534e-87 0.651413779100269 0.943 0.683 2.41800771845666e-82
0 SRGN 5.65423591584576e-85 0.702811655145573 0.932 0.652 1.89631764145635e-80
0 GPR183 1.98765602759212e-84 0.815524715691263 0.712 0.367 6.66620078533844e-80
1 S100A4 9.00988486016586e-148 -1.92964947484947 0.54 0.79 3.02173518440243e-143
1 YPEL5 2.85757734990619e-146 0.968627845682318 0.971 0.67 9.58374291611536e-142
1 GPR183 4.15862048884992e-84 0.842149579775512 0.702 0.371 1.39471813955049e-79
1 CCL5 1.17858260843511e-75 -2.99037611825076 0.055 0.339 3.95273035216966e-71
1 MYO1F 3.92616279851158e-73 -1.28498172072574 0.022 0.296 1.31675647936481e-68
1 ZNF331 1.25861887131635e-72 0.758573589384709 0.75 0.449 4.22115597062077e-68
1 CCR7 3.91089941469152e-71 0.714934700280158 0.62 0.319 1.31163744569924e-66
1 SELL 4.77837482007355e-56 0.548202320299313 0.642 0.361 1.60257134715627e-51
1 RGCC 1.32105725095121e-50 0.519189920441609 0.893 0.636 4.43056180824016e-46
2 LINC02446 0 2.01799262804215 0.72 0.061 0
2 CD8B 8.84802014620496e-304 1.68562541451301 0.854 0.152 2.96744899663422e-299
2 CD8A 2.62547956922199e-136 0.889183446749208 0.589 0.133 8.8053333792567e-132
2 YBX3 3.22921243512301e-114 0.768361882670716 0.329 0.05 1.08301326649156e-109
2 YPEL5 5.80053598289824e-103 0.923545746388085 0.987 0.697 1.94538375794441e-98
2 AIF1 2.31799916441234e-92 0.872062015265366 0.589 0.194 7.77410559760611e-88
2 NELL2 2.32607135170754e-61 0.6332759125834 0.401 0.126 7.80117809935674e-57
2 ZNF331 3.04784949528558e-61 0.710594097779192 0.831 0.467 1.02218776372888e-56
2 CD55 2.07421439492873e-45 0.602824300587559 0.522 0.235 6.95650023771196e-41
2 CD7 2.58834142853814e-45 0.582282802229834 0.862 0.549 8.68077948303121e-41
3 YPEL5 8.73123439102115e-115 -1.87444324612815 0.373 0.781 2.92828139006067e-110
3 NFKBIA 5.17845884360207e-109 -1.90130743504638 0.364 0.773 1.73675152696726e-104
3 ZFP36 2.51472080517536e-94 -1.59505380210625 0.484 0.829 8.43387063639714e-90
3 SRGN 6.11653554819983e-89 -1.39929761181464 0.357 0.758 2.05136369215526e-84
3 TNFAIP3 4.7947018895385e-81 -1.45389441610359 0.271 0.683 1.60804711971342e-76
3 NR4A2 4.34120494354347e-79 -1.54866015404714 0.182 0.612 1.45595331396561e-74
3 PPP1R15A 9.57118917033438e-76 -1.2777442150629 0.396 0.743 3.20998542394674e-71
3 RGCC 4.47575341108662e-73 -1.56634110420737 0.436 0.724 1.50107817901023e-68
3 ANXA1 6.07278218166967e-63 -1.36524823583716 0.371 0.706 2.03668968808837e-58
3 CYCS 5.37541504968732e-58 -1.13389701031029 0.298 0.639 1.80280669936413e-53
4 YPEL5 3.7001958816496e-94 -1.73954798417865 0.407 0.773 1.24097169478764e-89
4 ZNF331 1.30617460004989e-54 -1.25796413179011 0.177 0.553 4.38064837364732e-50
4 RGCC 3.45920450920284e-49 -1.15883323050031 0.439 0.721 1.16014800829645e-44
4 KLRB1 1.05421230316449e-47 0.936094757292074 0.516 0.226 3.53561722235308e-43
4 NR4A2 4.39987871479891e-42 -0.979899159616248 0.252 0.599 1.47563132336926e-37
4 TUBA1A 2.81430524704068e-40 -0.925498341505536 0.399 0.682 9.43861693752503e-36
4 CCR7 2.40767496686211e-38 -1.01173822679691 0.116 0.414 8.07486030386214e-34
4 CYCS 3.13192631287917e-38 -0.892777356911289 0.329 0.631 1.05038544681342e-33
4 SELENOK 6.37422547768608e-34 -0.820579001046386 0.289 0.579 2.13778774070636e-29
4 SBDS 7.36585144510797e-30 -0.724803879383101 0.343 0.617 2.47035925766031e-25
5 GZMK 0 2.38803541532374 0.728 0.068 0
5 NKG7 1.03027656316018e-248 1.71323273234354 0.875 0.133 3.45534153752661e-244
5 CCL5 1.37501061540894e-228 2.49689469358287 0.959 0.227 4.6115106019585e-224
5 GZMA 2.8532969146979e-164 1.73929475062977 0.73 0.146 9.56938719251381e-160
5 CST7 2.30983299481709e-138 1.44402921475853 0.597 0.106 7.74671789801755e-134
5 LYAR 2.33148411611499e-126 1.53890805517753 0.699 0.186 7.81933142862644e-122
5 GNLY 1.4264424547659e-101 1.48367307590568 0.577 0.134 4.78400270479386e-97
5 CTSW 3.7862199112456e-88 1.32990555854463 0.67 0.229 1.26982243383355e-83
5 TRGC2 9.15684531029366e-77 1.14258220165187 0.423 0.093 3.07102278016629e-72
5 KLRG1 2.47812822627684e-70 1.07080728523541 0.472 0.127 8.31114644528725e-66
6 RPS15A 1.59768491908461e-181 -2.04328470230499 0.668 1 5.35831568162598e-177
6 RPS12 7.41512892754256e-181 -2.13580305724005 0.656 1 2.48688593971922e-176
6 RPS14 2.29747284214826e-177 -1.9868828783775 0.665 1 7.70526441799685e-173
6 RPS3 4.08539707034113e-177 -1.88954797322837 0.665 0.999 1.37016046945101e-172
6 RPS3A 7.42664342363315e-175 -2.04115332045658 0.647 0.999 2.49074767141809e-170
6 RPS4X 2.51276247780182e-172 -1.97468955201846 0.549 0.998 8.42730279805174e-168
6 RPS29 4.87954632359519e-172 -1.86146067567285 0.724 1 1.63650224600735e-167
6 RPL34 1.14445842770149e-169 -1.96774389556513 0.736 1 3.83828467482526e-165
6 RPS27A 2.16362981684228e-168 -1.71424844515889 0.718 1 7.25638167972564e-164
6 RPL27A 4.55764095897859e-168 -1.76304895895064 0.641 1 1.52854162482224e-163
7 GNLY 0 4.35457787980161 0.927 0.115 0
7 NKG7 0 4.21536550845096 0.99 0.133 0
7 GZMH 0 3.86748376693663 0.944 0.018 0
7 CCL4 0 3.6460300555953 0.678 0.043 0
7 FGFBP2 0 2.95649538302877 0.734 0.008 0
7 CST7 0 2.59003554127545 0.87 0.092 0
7 GZMB 0 2.39775840748975 0.555 0.005 0
7 FCRL6 0 1.61926080949384 0.452 0.009 0
7 FCGR3A 1.46195903863146e-284 1.45018798324556 0.322 0.003 4.90311822376219e-280
7 CCL5 8.49563399270993e-251 3.11726850189821 0.993 0.232 2.84926572847506e-246
8 HLA-DRA 1.63510967452148e-164 3.79922733200819 0.568 0.034 5.48383082641015e-160
8 HLA-DRB1 7.73577454718723e-148 3.01240413976832 0.636 0.049 2.59442406763565e-143
8 HLA-DQA2 3.16230151594085e-129 1.24362033820871 0.331 0.012 1.06057268241624e-124
8 DUSP4 5.39117744422696e-128 1.56197480251187 0.415 0.022 1.80809309124484e-123
8 HLA-DQB1 2.36693555135074e-102 1.91501216503677 0.339 0.019 7.93822845212011e-98
8 MIR4435-2HG 4.60897057309192e-99 0.790912558712851 0.347 0.02 1.54575655080357e-94
8 CYTOR 2.84122782898676e-63 1.00541211701184 0.627 0.104 9.52890989285578e-59
8 PTTG1 3.41778468061152e-60 1.09036269837169 0.297 0.025 1.14625662618349e-55
8 ANXA2 9.70412694244661e-55 1.41009825215706 0.661 0.145 3.25457009395774e-50
8 HLA-DPB1 3.67436180532345e-54 2.86031902050232 0.644 0.144 1.23230746226938e-49



SkewC Quality Control Output Plots


Gene Body Coverage

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Gene Body Coverage of All Cells.

Typical Coverage
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Gene Body Coverage of Typical Cells.
Skewed Coverage
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Gene Body Coverage of Skewed Cells.

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Cell Clustering Result.
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Mean Gene Body Coverage.