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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