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數(shù)據(jù)相關(guān)統(tǒng)計(jì)

表1 測(cè)序Reads統(tǒng)計(jì)

Type Number Percent(%)
Number of Reads 1,338,426,735
Valid Barcodes 1,262,816,067 94.35?
Valid UMIs ?1,329,064,839? 99.3?
Final Valid Reads 1,262,615,019 94.34?

?表1 note說(shuō)明

Number of Reads:Reads總數(shù);

Valid Barcodes:包含有效Barcode的Reads數(shù);

Valid UMIs:包含有效UMIs的Reads數(shù);

Final Valid Reads:同時(shí)包含有效barcode與UMI的最終Reads數(shù)。

表2 數(shù)據(jù)比對(duì)

Type Percent(%)
Reads Mapped to Genome 97.63%
Reads Mapped Confidently to Genome 91.24%
Reads?Mapped?Confidently?to?Intergenic?Regions 5.49%
Reads Mapped Confidently to Intronic Regions 6.09%
Reads Mapped Confidently to Exonic Regions 79.66%
Reads Mapped Confidently to Transcriptome 81.42%

?表2 note說(shuō)明

Reads Mapped to Genomes:比對(duì)到參考基因組上的Reads在總Reads中占的比例;

Reads Mapped Confidently to Genome:比對(duì)到參考基因組并得到轉(zhuǎn)錄本GTF信息支持的Reads在總Reads中占的比例;

Reads Mapped Confidently to Intergenic Regions:比對(duì)到基因間區(qū)域的Reads在總Reads中占的比例;

Reads Mapped Confidently to Intronic Regions:比對(duì)到內(nèi)含子區(qū)域的Reads在總Reads中占的比例;

Reads Mapped Confidently to Exonic Regions:比對(duì)到外顯子區(qū)域的Reads在總Reads中占的比例;

Reads Mapped Confidently to Transcriptome:比對(duì)到已知參考轉(zhuǎn)錄本的Reads在總Reads中占的比例。

Spots相關(guān)統(tǒng)計(jì)

Summary

表3 Spots統(tǒng)計(jì)

Tpyes Values
Sequencing Saturation 88.33%
Percent of Spots Under Tissue 39.00%
Fraction Reads in Spots Under Tissue 85.71%

?表3 note說(shuō)明

Sequencing Saturation:測(cè)序飽和度;

Percent of Spots Under Tissue:切片組織下Spots的比例;

Fraction Reads in Spots Under Tissue:切片組織下Reads的比例。

表4 不同水平Spots統(tǒng)計(jì)

Level 13 (100μm) 7 (50μm) 6 (42μm) 5 (35μm) 4 (27μm) 3 (20μm) ?2(10μm) 1 (5μm)
Number of SupSpots 1,991 7,357 10,263 15,315 25,227 49,148 133,376 724,620
Median Genes per SupSpot 8,787 4,377 3,566 2,740 1,929 1,160 498 106
Median UMI Counts per SupSpot 46,584 12,475 8,975 6,021 3,642 1,840 655 120
Total Genes Detected 37,427 37,421 37,419 37,423 37,422 37,419 37,422 37,423

?表4 note說(shuō)明

Level:分辨率水平;

Number of SupSpots:一個(gè)或多個(gè)spot合并成的supspot個(gè)數(shù);

Median Genes per SupSpot:每個(gè)SupSpot中基因數(shù)目的中位數(shù);

Median UMI Counts per SupSpot:每個(gè)SupSpot的UMI中位數(shù);

Total Genes Detected:基因總數(shù)。

組織切片HE染色圖

圖1 組織切片HE染色圖

組織umi-count統(tǒng)計(jì)圖

圖2 組織UMI count統(tǒng)計(jì)圖

 

 

?分辨率水平說(shuō)明

supspot level與spot點(diǎn)數(shù)圖

supspot level分辨率表

SupSpot Level 分辨率 Spot點(diǎn)數(shù)
13 100μm 469
7 50μm 127
6 42μm 91
5 35μm 61
4 27μm 37
3 20μm 19
2 10μm 7
1 5μm 1

 

聚類分析

l13-cluster聚類圖

l7-cluster聚類圖

l5-cluster聚類圖

細(xì)胞分割

Summary

表5 細(xì)胞分割統(tǒng)計(jì)

Type Value
Number of Cells 137,671
Median Genes per Cells 645
Median UMI Counts per Cells 870
Total Genes Detected 37,319

?表5 note說(shuō)明

Number of Cells:分割得到的細(xì)胞數(shù);

Median Genes per Cells:每個(gè)細(xì)胞中基因數(shù)目的中位數(shù);

Median UMI Counts per Cells:細(xì)胞的UMI中位數(shù);

Total Genes Detected:基因總數(shù)。

組織切片熒光圖

組織切片he分割圖

組織切片熒光分割圖

細(xì)胞分割聚類圖

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