GEO DataSets

(Submitter supplied) The cDNA obtained before and after each round of SCOTS (first, second and third) from 2 h post-infection were hybridized to analyse the effect of SCOTS round on transcripts population. The number of detected genes increase with the numer of round of SCOTS. Because the cDNA prepared by 3 round of SCOTS gave the best results, three round of SCOTS were used in the preparation of the other samples. Keywords: Evaluation of SCOTS round

Organism:

Salmonella enterica; Salmonella enterica subsp. enterica serovar Typhi

Type:

Expression profiling by array

Platform:

GPL548

24 Samples

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(Submitter supplied) Global expression profiles of Salmonella typhi grown in the supernatant of infection and within human macrophages at 0h, 2h, 8h and 24h were obtained. Stringent analytical methods were used to compare Salmonella typhi cDNAs and revealed that known virulence factors, such as the SPI-1 and SPI-2 encoded type III secretion systems, were found to be expressed as predicted during infection by Salmonella. more...

Organism:

Salmonella enterica; Salmonella; Salmonella enterica subsp. enterica serovar Typhi

Type:

Expression profiling by array

Platforms:

GPL548 GPL1835

30 Samples

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(Submitter supplied) Genomic DNA from Strain ISP1820 and CT18 were compared to identify missing genes in strain ISP1820. Keywords: Comparative Genomic Hybridization

Organism:

Salmonella enterica subsp. enterica serovar Typhi; Salmonella enterica

Type:

Genome variation profiling by array

Platform:

GPL548

3 Samples

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(Submitter supplied) We applied an RNA capture and amplification technique, Selective Capture of Transcribed Sequences (SCOTS), and microarray hybridization to identify S. Typhi transcripts expressed in the blood of five humans infected with S. Typhi in Bangladesh. In total, we detected the expression of mRNAs for 2046 S. Typhi genes (44% of the S. Typhi genome) in human blood; expression of 912 genes was detected in all 5 patients, and expression of 1100 genes was detected in 4 or more patients. more...

Organism:

Salmonella enterica; Salmonella enterica subsp. enterica serovar Typhi

Type:

Expression profiling by array

Platform:

GPL13884

20 Samples

Download data: TXT

(Submitter supplied) Six sequencing libraries was prepared from S. Typhi planktonic cells and biofilm cells using Illumina HiSeq 2500 sequencing to investigate differential gene expression between the two conditions. The transcriptome was processed using Cufflinks and there were a total of 35 up-regulated genes and 29 down-regulated genes log2-fold change values of greater than 2 and less than negative 2. The differentially expressed genes were identified using BLAST and the functions was analysed. more...

Organism:

Salmonella enterica subsp. enterica serovar Typhi

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22930

6 Samples

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(Submitter supplied) Salmonella enterica var. Typhimurium (S. Typhimurium) is a Gram-negative, facultative intracellular pathogen that infects the intestinal tracts of humans and animals. In the host, S. Typhimurium encounters a wide range of oxygen concentrations going from oxic conditions in the stomach to near anoxic conditions in the distal sigmoid colon-rectal junction. In Escherichia coli, FNR (Fumarate Nitrate Reductase) is one of the main regulatory proteins involved in oxygen sensing and in controlling the transcription of the genes required for the aerobic/anaerobic transition.. more...

Organism:

Salmonella; Salmonella enterica subsp. enterica serovar Typhimurium

Type:

Expression profiling by array

Platform:

GPL1835

6 Samples

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(Submitter supplied) Bacterial transcription is controlled by many transcription factors and promoters. Currently many promoters are mapped only in in vitro conditions. We use an intra-macrophage model to map the promoters and their expression in vivo. InSPI2 is an in vitro growth condition mimicking intra-macrophage condition. We also characterize the transcriptome of Salmonella during growth in an in vitro intra-macrophage growth condition.

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17562

6 Samples

Download data: GR

(Submitter supplied) We were able to obtain distinct gene expression profile between children with typhoid fever and other bacteremic infections.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4133

6 Samples

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(Submitter supplied) Macrophages provide a crucial environment for Salmonella enterica serovar Typhi (S. Typhi) to multiply during typhoid fever, yet our understanding of how human macrophages and S. Typhi interact remains limited. In this study, we delve into the dynamics of S. Typhi replication within human macrophages and the resulting heterogeneous transcriptomic responses of macrophages during infection. Our study reveals key factors that influence macrophage diversity, uncovering distinct immune and metabolic pathways associated with different stages of S. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

18 Samples

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(Submitter supplied) In this work, we applied an RNA analysis method, Selective Capture of Transcribed Sequences (SCOTS), and cDNA hybridization-microarray technology to identify S. Paratyphi A transcripts expressed by bacteria in the blood of three patients in Bangladesh. In total, we detected 1798 S. Paratyphi A mRNAs expressed in the blood of infected humans (43.9% of the ORFeome). Of these, we identified 868 in at least two patients, and 315 in all three patients. more...

Organism:

Salmonella enterica; Salmonella enterica subsp. enterica serovar Paratyphi A

Type:

Expression profiling by array

Platform:

GPL10883

15 Samples

Download data: TXT

(Submitter supplied) PCR product array of whole ORF's from S. Typhimurium LT2. For description of PCR amplification and printing procedures see Eriksson et al., Molecular Microbiology(2003) 47(1): 103-118.

Organism:

Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

1 Series

24 Samples

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(Submitter supplied) Gene expression in Salmonella enterica sv Typhi TY2 after exposure to 2mM hydrogen peroxide Keywords: time-course

Organism:

Salmonella enterica; Salmonella enterica subsp. enterica serovar Typhi

Type:

Expression profiling by array

Platform:

GPL224

24 Samples

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(Submitter supplied) comparative hybridization of Typhimurium LT2 gDNA from logarithmic and stationary cultures on STv2 Keywords: repeat sample

Organism:

Salmonella enterica

Type:

Genome variation profiling by array

Platform:

GPL224

6 Samples

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(Submitter supplied) comparative hybridization of gDNA from logarithmic and stationary CT18 cultures on STv2 Keywords: repeat sample

Organism:

Salmonella enterica

Type:

Genome variation profiling by array

Platform:

GPL224

6 Samples

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(Submitter supplied) comparative DNA hyb of CT18 and LT2 gDNA to the Salmonella chip STv2 Keywords: repeat sample

Organism:

Salmonella enterica

Type:

Genome variation profiling by array

Platform:

GPL224

6 Samples

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(Submitter supplied) Patient Selection: Three hospitals were involved in the study: Dong Thap Provincial and An Giang Provincial hospitals, both located in the Mekong Delta Region of Vietnam where most of the Typhoid patients were admitted, and the Hospital for Tropical Diseases, Ho Chi Minh City, where the malarial patients were admitted. Infection status of each patient was determined by blood culture for the Typhoid patients and by microscopic examination of stained thick and thin peripheral-blood slides for the patients suspected of having Malaria. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL4857 GPL4858

183 Samples

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(Submitter supplied) In the present study, we employed Affymetrix Staphylococcus aureus GeneChip arrays to investigate the dynamics of global gene expression profiles during the cellular response of Staphylococcus aureus to hydrogen peroxide-induced oxidative stress, which involved initial growth inhibition and subsequent recovery. Keywords: Time course

Organism:

Staphylococcus aureus

Type:

Expression profiling by array

Dataset:

GDS1666

Platform:

GPL1339

12 Samples

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Analysis of Staphylococcus aureus cells exposed for 10 or 20 minutes to hydrogen peroxide to induce oxidative stress. Macrophages and other lymphocytes use reactive oxygen species such as H2O2 to destroy the bacteria. Results provide insight into mechanisms involved in S. aureus-host interactions.

Organism:

Staphylococcus aureus

Type:

Expression profiling by array, count, 2 agent, 2 time sets

Platform:

GPL1339

Series:

GSE3415

12 Samples

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