 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on May 23, 2023 |
| Title |
scRNA-seq analysis of colon and esophageal tumors uncovers abundant microbial reads in myeloid cells undergoing proinflammatory transcriptional alterations |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We profiled cell lines (HCT116, THP1 and Jurkat T) exposed to heat-killed and live Fusobacterium nucleatum using multiple scRNA-seq technologies
|
| |
|
| Overall design |
We profiled cell lines (HCT116, THP1 and Jurkat T) exposed to heat-killed and live Fusobacterium nucleatum using multiple scRNA-seq technologies
|
| |
|
| Contributor(s) |
Robinson W, Stone JK, Schaffer AA, Ruppin E |
| Citation(s) |
38959321 |
| |
| Submission date |
May 09, 2023 |
| Last update date |
Aug 01, 2024 |
| Contact name |
Welles Robinson |
| E-mail(s) |
wir963@gmail.com
|
| Organization name |
National Institutes of Health
|
| Department |
National Cancer Institute
|
| Lab |
Cancer Data Science Laboratory
|
| Street address |
9000 Rockville Pike
|
| City |
Bethesda |
| State/province |
Maryland |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
|
| Samples (184)
|
| GSM7312258 |
P1-SCAF2961_1_Uninfected, HCT116, THP1 and Jurkat T, Uninfected, 10x genomics 3' v3 |
| GSM7312259 |
P1-SCAF2962_2_HK, HCT116, THP1 and Jurkat T, Heat Killed, 10x genomics 3' v3 |
| GSM7312260 |
P1-SCAF2963_3_Live, HCT116, THP1 and Jurkat T, Infected, 10x genomics 3' v3 |
| GSM7312261 |
P1-SCAF2965_5_Live, HCT116, THP1 and Jurkat T, Infected, 10x genomics 5' v2 |
| GSM7312262 |
P1_A02_S2, Jurkat, Uninfected, plexWell |
| GSM7312263 |
P1_A03_S3, Jurkat, Uninfected, plexWell |
| GSM7312264 |
P1_A04_S4, Jurkat, Uninfected, plexWell |
| GSM7312265 |
P1_A05_S5, Jurkat, Uninfected, plexWell |
| GSM7312266 |
P1_A06_S6, Jurkat, Uninfected, plexWell |
| GSM7312267 |
P1_A07_S7, Jurkat, Uninfected, plexWell |
| GSM7312268 |
P1_A08_S8, Jurkat, Uninfected, plexWell |
| GSM7312269 |
P1_A09_S9, Jurkat, Uninfected, plexWell |
| GSM7312270 |
P1_A10_S10, Jurkat, Uninfected, plexWell |
| GSM7312271 |
P1_A11_S11, Jurkat, Uninfected, plexWell |
| GSM7312272 |
P1_A12_S12, Jurkat, Uninfected, plexWell |
| GSM7312273 |
P1_B03_S15, HCT116, Uninfected, plexWell |
| GSM7312274 |
P1_B06_S18, HCT116, Uninfected, plexWell |
| GSM7312275 |
P1_B07_S19, HCT116, Uninfected, plexWell |
| GSM7312276 |
P1_B08_S20, HCT116, Uninfected, plexWell |
| GSM7312277 |
P1_C02_S26, Jurkat, Heat Killed, plexWell |
| GSM7312278 |
P1_C03_S27, Jurkat, Heat Killed, plexWell |
| GSM7312279 |
P1_C04_S28, Jurkat, Heat Killed, plexWell |
| GSM7312280 |
P1_C05_S29, Jurkat, Heat Killed, plexWell |
| GSM7312281 |
P1_C06_S30, Jurkat, Heat Killed, plexWell |
| GSM7312282 |
P1_C07_S31, Jurkat, Heat Killed, plexWell |
| GSM7312283 |
P1_C08_S32, Jurkat, Heat Killed, plexWell |
| GSM7312284 |
P1_C09_S33, Jurkat, Heat Killed, plexWell |
| GSM7312285 |
P1_C10_S34, Jurkat, Heat Killed, plexWell |
| GSM7312286 |
P1_C11_S35, Jurkat, Heat Killed, plexWell |
| GSM7312287 |
P1_C12_S36, Jurkat, Heat Killed, plexWell |
| GSM7312288 |
P1_D04_S40, HCT116, Heat Killed, plexWell |
| GSM7312289 |
P1_D06_S42, HCT116, Heat Killed, plexWell |
| GSM7312290 |
P1_D07_S43, HCT116, Heat Killed, plexWell |
| GSM7312291 |
P1_D09_S45, HCT116, Heat Killed, plexWell |
| GSM7312292 |
P1_D12_S48, HCT116, Heat Killed, plexWell |
| GSM7312293 |
P1_E02_S50, Jurkat, Infected, plexWell |
| GSM7312294 |
P1_E03_S51, Jurkat, Infected, plexWell |
| GSM7312295 |
P1_E04_S52, Jurkat, Infected, plexWell |
| GSM7312296 |
P1_E05_S53, Jurkat, Infected, plexWell |
| GSM7312297 |
P1_E06_S54, Jurkat, Infected, plexWell |
| GSM7312298 |
P1_E07_S55, Jurkat, Infected, plexWell |
| GSM7312299 |
P1_E08_S56, Jurkat, Infected, plexWell |
| GSM7312300 |
P1_E12_S60, Jurkat, Infected, plexWell |
| GSM7312301 |
P1_F03_S63, Jurkat, Infected, plexWell |
| GSM7312302 |
P1_F04_S64, Jurkat, Infected, plexWell |
| GSM7312303 |
P1_F05_S65, Jurkat, Infected, plexWell |
| GSM7312304 |
P1_F06_S66, Jurkat, Infected, plexWell |
| GSM7312305 |
P1_F07_S67, Jurkat, Infected, plexWell |
| GSM7312306 |
P1_F08_S68, Jurkat, Infected, plexWell |
| GSM7312307 |
P1_F10_S70, Jurkat, Infected, plexWell |
| GSM7312308 |
P1_F11_S71, Jurkat, Infected, plexWell |
| GSM7312309 |
P1_F12_S72, Jurkat, Infected, plexWell |
| GSM7312310 |
P1_G01_S73, HCT116, Infected, plexWell |
| GSM7312311 |
P1_G05_S77, HCT116, Infected, plexWell |
| GSM7312312 |
P1_G08_S80, HCT116, Infected, plexWell |
| GSM7312313 |
P1_G09_S81, HCT116, Infected, plexWell |
| GSM7312314 |
P1_G10_S82, HCT116, Infected, plexWell |
| GSM7312315 |
P1_G12_S84, HCT116, Infected, plexWell |
| GSM7312316 |
P1_H01_S85, HCT116, Infected, plexWell |
| GSM7312317 |
P1_H03_S87, HCT116, Infected, plexWell |
| GSM7312318 |
P1_H04_S88, HCT116, Infected, plexWell |
| GSM7312319 |
P1_H06_S90, HCT116, Infected, plexWell |
| GSM7312320 |
P1_H07_S91, HCT116, Infected, plexWell |
| GSM7312321 |
P1_H08_S92, HCT116, Infected, plexWell |
| GSM7312322 |
P1_H09_S93, HCT116, Infected, plexWell |
| GSM7312323 |
P1_H11_S95, HCT116, Infected, plexWell |
| GSM7312324 |
P1_H12_S96, HCT116, Infected, plexWell |
| GSM7312325 |
P2_A02_S98, Jurkat, Infected, plexWell |
| GSM7312326 |
P2_A03_S99, Jurkat, Infected, plexWell |
| GSM7312327 |
P2_A04_S100, Jurkat, Infected, plexWell |
| GSM7312328 |
P2_A05_S101, Jurkat, Infected, plexWell |
| GSM7312329 |
P2_A06_S102, Jurkat, Infected, plexWell |
| GSM7312330 |
P2_A07_S103, Jurkat, Infected, plexWell |
| GSM7312331 |
P2_A08_S104, Jurkat, Infected, plexWell |
| GSM7312332 |
P2_A09_S105, Jurkat, Infected, plexWell |
| GSM7312333 |
P2_A10_S106, Jurkat, Infected, plexWell |
| GSM7312334 |
P2_A11_S107, Jurkat, Infected, plexWell |
| GSM7312335 |
P2_A12_S108, Jurkat, Infected, plexWell |
| GSM7312336 |
P2_B02_S110, Jurkat, Infected, plexWell |
| GSM7312337 |
P2_B03_S111, Jurkat, Infected, plexWell |
| GSM7312338 |
P2_B04_S112, Jurkat, Infected, plexWell |
| GSM7312339 |
P2_B05_S113, Jurkat, Infected, plexWell |
| GSM7312340 |
P2_B06_S114, Jurkat, Infected, plexWell |
| GSM7312341 |
P2_B07_S115, Jurkat, Infected, plexWell |
| GSM7312342 |
P2_B08_S116, Jurkat, Infected, plexWell |
| GSM7312343 |
P2_B09_S117, Jurkat, Infected, plexWell |
| GSM7312344 |
P2_B10_S118, Jurkat, Infected, plexWell |
| GSM7312345 |
P2_B11_S119, Jurkat, Infected, plexWell |
| GSM7312346 |
P2_B12_S120, Jurkat, Infected, plexWell |
| GSM7312347 |
P2_C02_S122, Jurkat, Infected, plexWell |
| GSM7312348 |
P2_C03_S123, Jurkat, Infected, plexWell |
| GSM7312349 |
P2_C04_S124, Jurkat, Infected, plexWell |
| GSM7312350 |
P2_C06_S126, Jurkat, Infected, plexWell |
| GSM7312351 |
P2_C07_S127, Jurkat, Infected, plexWell |
| GSM7312352 |
P2_C08_S128, Jurkat, Infected, plexWell |
| GSM7312353 |
P2_C09_S129, Jurkat, Infected, plexWell |
| GSM7312354 |
P2_C10_S130, Jurkat, Infected, plexWell |
| GSM7312355 |
P2_C11_S131, Jurkat, Infected, plexWell |
| GSM7312356 |
P2_C12_S132, Jurkat, Infected, plexWell |
| GSM7312357 |
P2_D02_S134, HCT116, Infected, plexWell |
| GSM7312358 |
P2_D03_S135, HCT116, Infected, plexWell |
| GSM7312359 |
P2_D07_S139, HCT116, Infected, plexWell |
| GSM7312360 |
P2_D09_S141, HCT116, Infected, plexWell |
| GSM7312361 |
P2_D10_S142, HCT116, Infected, plexWell |
| GSM7312362 |
P2_D11_S143, HCT116, Infected, plexWell |
| GSM7312363 |
P2_D12_S144, HCT116, Infected, plexWell |
| GSM7312364 |
P2_E02_S146, HCT116, Infected, plexWell |
| GSM7312365 |
P2_E03_S147, HCT116, Infected, plexWell |
| GSM7312366 |
P2_E04_S148, HCT116, Infected, plexWell |
| GSM7312367 |
P2_E07_S151, HCT116, Infected, plexWell |
| GSM7312368 |
P2_E08_S152, HCT116, Infected, plexWell |
| GSM7312369 |
P2_F03_S159, HCT116, Infected, plexWell |
| GSM7312370 |
P2_F05_S161, HCT116, Infected, plexWell |
| GSM7312371 |
P2_F07_S163, HCT116, Infected, plexWell |
| GSM7312372 |
P2_F08_S164, HCT116, Infected, plexWell |
| GSM7312373 |
P2_F10_S166, HCT116, Infected, plexWell |
| GSM7312374 |
P2_F11_S167, HCT116, Infected, plexWell |
| GSM7312375 |
P2_G01_S169, HCT116, Infected, plexWell |
| GSM7312376 |
P2_G02_S170, HCT116, Infected, plexWell |
| GSM7312377 |
P2_G05_S173, HCT116, Infected, plexWell |
| GSM7312378 |
P2_G06_S174, HCT116, Infected, plexWell |
| GSM7312379 |
P2_G08_S176, HCT116, Infected, plexWell |
| GSM7312380 |
P2_G09_S177, HCT116, Infected, plexWell |
| GSM7312381 |
P2_G10_S178, HCT116, Infected, plexWell |
| GSM7312382 |
P2_G12_S180, HCT116, Infected, plexWell |
| GSM7312383 |
P1_A01_S1, Empty Well, Empty Well, plexWell |
| GSM7312384 |
P1_B01_S13, Empty Well, Empty Well, plexWell |
| GSM7312385 |
P1_B02_S14, HCT116, Uninfected, plexWell |
| GSM7312386 |
P1_B04_S16, HCT116, Uninfected, plexWell |
| GSM7312387 |
P1_B05_S17, HCT116, Uninfected, plexWell |
| GSM7312388 |
P1_B09_S21, HCT116, Uninfected, plexWell |
| GSM7312389 |
P1_B10_S22, HCT116, Uninfected, plexWell |
| GSM7312390 |
P1_B11_S23, HCT116, Uninfected, plexWell |
| GSM7312391 |
P1_B12_S24, HCT116, Uninfected, plexWell |
| GSM7312392 |
P1_C01_S25, Empty Well, Empty Well, plexWell |
| GSM7312393 |
P1_D01_S37, Empty Well, Empty Well, plexWell |
| GSM7312394 |
P1_D02_S38, HCT116, Heat Killed, plexWell |
| GSM7312395 |
P1_D03_S39, HCT116, Heat Killed, plexWell |
| GSM7312396 |
P1_D05_S41, HCT116, Heat Killed, plexWell |
| GSM7312397 |
P1_D08_S44, HCT116, Heat Killed, plexWell |
| GSM7312398 |
P1_D10_S46, HCT116, Heat Killed, plexWell |
| GSM7312399 |
P1_D11_S47, HCT116, Heat Killed, plexWell |
| GSM7312400 |
P1_E01_S49, Empty Well, Empty Well, plexWell |
| GSM7312401 |
P1_E09_S57, Jurkat, Infected, plexWell |
| GSM7312402 |
P1_E10_S58, Jurkat, Infected, plexWell |
| GSM7312403 |
P1_E11_S59, Jurkat, Infected, plexWell |
| GSM7312404 |
P1_F01_S61, Empty Well, Empty Well, plexWell |
| GSM7312405 |
P1_F02_S62, Jurkat, Infected, plexWell |
| GSM7312406 |
P1_F09_S69, Jurkat, Infected, plexWell |
| GSM7312407 |
P1_G02_S74, HCT116, Infected, plexWell |
| GSM7312408 |
P1_G03_S75, HCT116, Infected, plexWell |
| GSM7312409 |
P1_G04_S76, HCT116, Infected, plexWell |
| GSM7312410 |
P1_G06_S78, HCT116, Infected, plexWell |
| GSM7312411 |
P1_G07_S79, HCT116, Infected, plexWell |
| GSM7312412 |
P1_G11_S83, HCT116, Infected, plexWell |
| GSM7312413 |
P1_H02_S86, HCT116, Infected, plexWell |
| GSM7312414 |
P1_H05_S89, HCT116, Infected, plexWell |
| GSM7312415 |
P1_H10_S94, HCT116, Infected, plexWell |
| GSM7312416 |
P2_A01_S97, Empty Well, Empty Well, plexWell |
| GSM7312417 |
P2_B01_S109, Empty Well, Empty Well, plexWell |
| GSM7312418 |
P2_C01_S121, Empty Well, Empty Well, plexWell |
| GSM7312419 |
P2_C05_S125, Jurkat, Infected, plexWell |
| GSM7312420 |
P2_D01_S133, Empty Well, Empty Well, plexWell |
| GSM7312421 |
P2_D04_S136, HCT116, Infected, plexWell |
| GSM7312422 |
P2_D05_S137, HCT116, Infected, plexWell |
| GSM7312423 |
P2_D06_S138, HCT116, Infected, plexWell |
| GSM7312424 |
P2_D08_S140, HCT116, Infected, plexWell |
| GSM7312425 |
P2_E01_S145, Empty Well, Empty Well, plexWell |
| GSM7312426 |
P2_E05_S149, HCT116, Infected, plexWell |
| GSM7312427 |
P2_E06_S150, HCT116, Infected, plexWell |
| GSM7312428 |
P2_E09_S153, HCT116, Infected, plexWell |
| GSM7312429 |
P2_E10_S154, HCT116, Infected, plexWell |
| GSM7312430 |
P2_E11_S155, HCT116, Infected, plexWell |
| GSM7312431 |
P2_E12_S156, HCT116, Infected, plexWell |
| GSM7312432 |
P2_F01_S157, Empty Well, Empty Well, plexWell |
| GSM7312433 |
P2_F02_S158, HCT116, Infected, plexWell |
| GSM7312434 |
P2_F04_S160, HCT116, Infected, plexWell |
| GSM7312435 |
P2_F06_S162, HCT116, Infected, plexWell |
| GSM7312436 |
P2_F09_S165, HCT116, Infected, plexWell |
| GSM7312437 |
P2_F12_S168, HCT116, Infected, plexWell |
| GSM7312438 |
P2_G03_S171, HCT116, Infected, plexWell |
| GSM7312439 |
P2_G04_S172, HCT116, Infected, plexWell |
| GSM7312440 |
P2_G07_S175, HCT116, Infected, plexWell |
| GSM7312441 |
P2_G11_S179, HCT116, Infected, plexWell |
|
| Relations |
| BioProject |
PRJNA970826 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE232107_RAW.tar |
385.7 Mb |
(http)(custom) |
TAR (of H5) |
| GSE232107_plexWell-P1-barcodes.tsv.gz |
439 b |
(ftp)(http) |
TSV |
| GSE232107_plexWell-P1-features.tsv.gz |
522.8 Kb |
(ftp)(http) |
TSV |
| GSE232107_plexWell-P1-matrix.mtx.gz |
2.4 Mb |
(ftp)(http) |
MTX |
| GSE232107_plexWell-P2-barcodes.tsv.gz |
436 b |
(ftp)(http) |
TSV |
| GSE232107_plexWell-P2-features.tsv.gz |
522.8 Kb |
(ftp)(http) |
TSV |
| GSE232107_plexWell-P2-matrix.mtx.gz |
2.6 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...