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| Status |
Public on Jul 27, 2023 |
| Title |
The distinct transcriptome of virulence-associated phylogenetic group B2 Escherichia coli |
| Organism |
Escherichia coli |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Strains of urinary tract associated E. coli both recent isolates and from the ECOR collection and non pathogenic E. coli strains were analyzed. Replicates were performed to establish the reproduciblity, then single experiments were performed there on.
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| Overall design |
RNA-Seq
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| Contributor(s) |
Hogins JB, Xuan Z, Zimmern PE, Reitzer LJ |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jun 27, 2023 |
| Last update date |
Jul 27, 2023 |
| Contact name |
Zhenyu Xuan |
| E-mail(s) |
zhenyu.xuan@utdallas.edu
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| Phone |
972-883-2518
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| Organization name |
UT Dallas
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| Street address |
800 West Campbell
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| City |
Richardson |
| State/province |
TX |
| ZIP/Postal code |
75080 |
| Country |
USA |
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| Platforms (2) |
| GPL21222 |
Illumina NextSeq 500 (Escherichia coli) |
| GPL32081 |
NextSeq 2000 (Escherichia coli) |
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| Samples (45)
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| GSM7512435 |
ECOR4 |
| GSM7512436 |
ECOR6 |
| GSM7512437 |
ECOR8 |
| GSM7512438 |
ECOR16 |
| GSM7512439 |
ECOR23 |
| GSM7512440 |
ECOR11 |
| GSM7512441 |
ECOR14 |
| GSM7512442 |
PNK006, rep 1 |
| GSM7512443 |
PNK006, rep 2 |
| GSM7512444 |
PNK006, rep 3 |
| GSM7512445 |
ECOR44 |
| GSM7512446 |
ECOR47 |
| GSM7512447 |
ECOR49 |
| GSM7512448 |
ECOR48 |
| GSM7512449 |
ECOR50 |
| GSM7512450 |
PNK004, rep 1 |
| GSM7512451 |
PNK004, rep 2 |
| GSM7512452 |
PNK004, rep 3 |
| GSM7512453 |
ECOR51 |
| GSM7512454 |
ECOR52 |
| GSM7512455 |
ECOR53 |
| GSM7512456 |
ECOR54 |
| GSM7512457 |
ECOR61 |
| GSM7512458 |
ECOR66 |
| GSM7512459 |
ECOR55 |
| GSM7512460 |
ECOR56 |
| GSM7512461 |
ECOR60 |
| GSM7512462 |
ECOR62 |
| GSM7512463 |
ECOR64 |
| GSM7512464 |
UTI89, rep 1 |
| GSM7512465 |
UTI89, rep 2 |
| GSM7512466 |
UTI89, rep 3 |
| GSM7512467 |
CFT073, rep 1 |
| GSM7512468 |
CFT073, rep 2 |
| GSM7512469 |
CFT073, rep 3 |
| GSM7512470 |
KE4 |
| GSM7512471 |
KE21 |
| GSM7512472 |
KE24 |
| GSM7512473 |
KE25 |
| GSM7512474 |
KE26 |
| GSM7512475 |
LRPF007 |
| GSM7512476 |
LRPF62 |
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| Relations |
| BioProject |
PRJNA988100 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE235964_Ecoli.panRefGene.fa.gz |
9.7 Mb |
(ftp)(http) |
FA |
| GSE235964_Ecoli35_CNT.gene.matrix.gz |
919.5 Kb |
(ftp)(http) |
MATRIX |
| GSE235964_Ecoli35_TPM.gene.matrix.gz |
1.1 Mb |
(ftp)(http) |
MATRIX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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