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C075 / C078

2020-09-10

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C078

Mouse M-cells and tuft cells from Peyer's patch and small and large intestines

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C078

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C078

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C078

Number of plate-specific marker genes (binomial test, FDR < 0.05)

LC285 LC287 LC288 LC289 LC370 LC371 LC372 LC373 LC374 LC375 LC376 LC377

0 0 0 0 144 0 11642 0 0 0 0 2

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C078

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C078

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C078

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C078

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C078

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C075

Mouse retinal epithelial cells

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C075

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C075

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C075

Number of plate-specific marker genes (binomial test, FDR < 0.05)

LC279 LC280 LC294 LC358 LC392 LC396 LC398

1 44 0 584 0 0 1

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C075

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C075

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C075

Number of plate-group-specific marker genes (binomial test, FDR < 0.05)

LC294_LC358 not_LC294_LC358

4407 1263

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C075

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C075

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C075

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Joint

C075 and C078

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Joint

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Joint

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Joint

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Joint

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Joint

Number of plate-specific marker genes (binomial test, FDR < 0.05)

LC285 LC287 LC288 LC289 LC370 LC371 LC372 LC373 LC374 LC375 LC376 LC377 LC279 LC280 LC294 LC358 LC392 LC396 LC398

0 0 0 0 116 0 468 0 0 0 0 1 0 25 0 0 0 0 1

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Joint

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Joint

Number of project-specific marker genes (binomial test, FDR < 0.05)

C075 C078

15662 2489

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Joint

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Joint

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Joint

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Summary

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Summary

Project

Plate

Issue

Current remedy

Reason

C075

LC294

Expression of C078-specific genes

Discard plate

???

C075

LC358

Expression of C078-specific genes

Discard plate

???

C075

LC392 LC396

Expression of Xist (male mice)

​

???

​

???

C078

LC372

Expression of C075-specific genes

Expression of Xist (unknown sex mouse)

???

???

???

???

C078

LC370

Expression of 'B cell' marker genes

Discard cells labelled as B cells by SingleR

May need to entire discard plate?

FACS issue

Contamination?

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Summary

rpi

sequencing_run

project

plate_number

n

1

NN176

C078

LC372

372

1

NN178

C075

LC398

240

2

NN176

C078

LC377

376

2

NN178

C075

LC392

6

4

NN158

C075

LC279

4

4

NN176

C078

LC370

372

6

NN176

C078

LC376

376

6

NN178

C075

LC392

370

7

NN158

C078

LC285

376

7

NN176

C078

LC371

372

7

NN178

C075

LC294

370

8

NN158

C078

LC288

376

8

NN176

C078

LC374

372

rpi

sequencing_run

project

plate_number

n

8

NN178

C075

LC358

366

9

NN158

C078

LC287

376

9

NN176

C078

LC373

372

9

NN178

C075

LC294

6

10

NN158

C078

LC289

376

10

NN176

C078

LC375

372

10

NN178

C075

LC358

6

3

NN178

C075

LC396

297

5

NN178

C075

LC396

5

12

NN158

C075

LC279

319

39

NN178

C075

LC280

370

41

NN178

C075

LC398

5

47

NN178

C075

LC280

6