GSE208092

Transcriptome analysis to explore the shared and distinct immune signature between severe COVID-19 and bacterial sepsis

Whole-study status Exploratory only

Dataset can inform exploration but is not strong enough for primary analysis.

Whole-study downloads — these do not apply your sample requirements.

Selected cohort requirements

Samples meeting selected requirements: 0 cases / 0 controls

View matching samples

15 case / 4 control samples elsewhere in the study have incomplete or conflicting evidence; they are not included above

Patient pairs verified in indexed sample metadata: 0

A case/control comparison meeting these requirements is not confirmed.

Counts describe samples, not independent patients. Pair verification uses explicit subject identifiers in indexed sample metadata. Zero verified pairs does not establish that the study is unpaired; reported matched-normal design alone is insufficient.

Source: GEO
Assay: bulk RNA-seq
Organism: Homo sapiens
Whole-study samples: 19 samples
Specimen: Biofluid
Reported/interpreted study design: Patient biofluid vs healthy control Design classification does not establish patient pairs.

Comparison type: Tumor vs normal
Contributors: Lu Y, Wu H, Wen A
Contact name: Huang Wu
Submission date: 2022-07-13
Last update: 2025-08-25
Organization: Daping Hospital, Army Medical University
Department: Department of Blood Transfusion
Public date: 2025-08-24
Experiment types: Non-coding RNA profiling by high throughput sequencing
Platforms: GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Series type: Series
SubSeries: Not available
BioProject: PRJNA858262

Summary

To profile the landscape of circRNAs in neutrophils of COVID-19 and sepsis patients, we conducted comprehensive expression profiling analysis in a training cohort.

Overall design

Comparative circRNAs expression profiling analysis of RNA-seq data for neutrophils from four healthy donors,five critically ill patients with COVID-19 and ten bacterial sepsis patients.

Source Evidence

4 sources

Source	Contribution	Status
GEO	Original dataset metadata, sample metadata, source links, and GEO data availability flags. Sample records 19 GSM samples	Primary source
recount3	Planned trusted source for processed count availability.	No match found
Expression Atlas	Planned source for curated expression experiment links.	No match found
PubMed	Publication context when PubMed identifiers are already known.	No match found

Metadata Quality Components

Persisted metadata quality

100 pts

Clarity: 100%
Weight: 100 pts

Sample source clarity: All samples have source metadata and clear GSE/GSM accessions. Group clarity: Rule-based grouping found both case and control samples. Disease clarity: Disease or condition metadata normalized. Tissue clarity: Anatomical source metadata normalized. Treatment clarity: No unclear treatment split detected in the sample metadata. Replicate clarity: No pooled sample or technical replicate flags detected. Data availability clarity: Dataset-level processed or raw data availability is explicit.

Analysis Readiness

Review before analysis

97% DE readiness

Contrast completeness

25/25 pts

Both case and control groups are present in the proposed grouping.

Minimum group size

20/20 pts

Each contrast group has at least 2 samples.

Processed data availability

20/20 pts

Processed data is marked available in the GEO index.

Sample decision clarity

15/15 pts

All samples are assigned to a case or control group.

Blocking warnings

7/10 pts

Warnings are present, but none are critical blockers.

Metadata normalization

10/10 pts

Metadata quality is high enough to support downstream handoff.

Blockers

Secondary RNA assay context should be analyzed separately from ordinary bulk RNA-seq.

Next Steps

Review blockers and update sample grouping or dataset selection before analysis.

Analysis Preparation Checklist

5/6 ready

Group labels reviewed

Needs review

Siftome proposed case and control labels, but no reviewer confirmation is stored yet.

Open the sample grouping CSV and confirm group labels before analysis.

Minimum sample count met

Ready

Both groups meet the minimum of 2 samples.

Confirm whether the cohort is large enough for the intended statistical analysis.

Processed counts available

Ready

Processed data availability is marked true in the GEO index.

Verify that downloaded processed files contain usable count or expression identifiers.

Ambiguous samples handled

Ready

No review-needed or unassigned samples are present in the proposed grouping.

Review the grouping table for biologically meaningful differences that the automated checks may not detect.

Exclusion decisions recorded

Ready

No hard-excluded samples were detected by the current rules.

Record any manual exclusions in the downstream analysis notes.

Source traceability preserved

Ready

The dataset and sample accessions can be traced back to GEO.

Keep GEO accessions with exported metadata.

Bioinformatician Review

Bioinformatician review required

Ask a bioinformatician to review grouping, count availability, exclusions, and design before DE.

Analysis readiness has blockers that must be resolved before DE.

Assay context may require expert handling before DESeq2-style analysis.

Why This Is Ranked Here

Tumor vs normal

Exploratory only Dataset can inform exploration but is not strong enough for primary analysis.

Applied Review Decisions

No active review decisions affect this ranking.

Derived Classifications

Disease context COVID-19, sepsis Disease context came from Normalization rules.
Likely case group Sepsis 15 samples
Likely control group Healthy control 4 samples

Intent Interpretation

Downgrade or exclusion reason Downgraded for tissue search because it is a biofluid cohort. Derived from current-intent ranking reasons.

Ranking Facts

Supporting evidence

Comparison: Patient biofluid vs healthy control. Specimen: Biofluid. Comparison suitability: 20%.
Prioritized assay: bulk RNA-seq is the active assay expectation.
Interpreted disease metadata: COVID-19, Sepsis.
Processed data is available for downstream review.

Cautions

Downgraded for tissue search because it is a biofluid cohort.
Blood, plasma, or serum cohort downgraded because this ranking targets tissue tumor-vs-normal comparisons.
Overall score capped because comparison suitability is weak for the selected search intent.
Comparison suitability score is below the Phase 1 recommended threshold.

Dataset Warnings

Secondary RNA assay context such as small RNA, miRNA, circRNA, or non-coding RNA was detected.
Multiple disease or phenotype arms were detected. The displayed grouping summarizes the full dataset; select the requested disease-specific contrast before analysis.

Normalized Fields

89 fields

Field Value Source Derived by Confidence Evidence Reason

anatomical_source blood GSM6336976 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336977 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336978 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336979 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336980 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336981 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336982 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336983 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336984 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM6336985 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527887 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527888 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527889 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527890 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527891 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527892 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527893 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527894 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

anatomical_source blood GSM7527895 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence peripheral blood tissue: peripheral blood sample-anatomical-source-v1 sample-local anatomical source

assay_type bulk RNA-seq GSE208092 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence bulk rna-seq dataset_accession: GSE208092 dataset_title: Transcriptome analysis to explore the shared and distinct immune signature between severe COVID-19 and bacterial sepsis organism: Hom... keyword match keyword match: bulk rna-seq

cell_population neutrophils GSM6336976 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils HC1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336977 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils HC2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336978 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils HC3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336979 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils HC4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336980 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336981 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336982 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336983 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336984 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S5 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM6336985 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S6 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527887 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S7 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527888 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S8 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527889 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S9 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527890 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils S10 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527891 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils COVID1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527892 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils COVID2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527893 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils COVID3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527894 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils COVID4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

cell_population neutrophils GSM7527895 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence neutrophils COVID5 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary cell population match: neutrophils

control_type healthy control GSM6336976 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM6336977 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM6336978 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary control type match: healthy control

control_type healthy control GSM6336979 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary control type match: healthy control

disease COVID-19 GSE208092 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence covid-19 dataset_accession: GSE208092 dataset_title: Transcriptome analysis to explore the shared and distinct immune signature between severe COVID-19 and bacterial sepsis organism: Hom... controlled vocabulary controlled vocabulary disease match: covid-19

disease sepsis GSE208092 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence bacterial sepsis dataset_accession: GSE208092 dataset_title: Transcriptome analysis to explore the shared and distinct immune signature between severe COVID-19 and bacterial sepsis organism: Hom... controlled vocabulary controlled vocabulary disease match: bacterial sepsis

disease sepsis GSM6336980 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM6336981 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM6336982 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM6336983 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM6336984 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S5 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM6336985 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S6 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM7527887 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S7 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM7527888 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S8 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM7527889 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S9 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: sepsis

disease sepsis GSM7527890 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence sepsis S10 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: sepsis

disease COVID-19 GSM7527891 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence covid-19 COVID1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: covid-19

disease COVID-19 GSM7527892 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence covid-19 COVID2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: covid-19

disease COVID-19 GSM7527893 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence covid-19 COVID3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: covid-19

disease COVID-19 GSM7527894 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence covid-19 COVID4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: covid-19

disease COVID-19 GSM7527895 Runtime Siftome inference UNRESOLVED / UNREVIEWED medium confidence covid-19 COVID5 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary disease match: covid-19

normal_tissue_type healthy donor tissue GSM6336976 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM6336977 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM6336978 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary normal tissue type match: healthy control

normal_tissue_type healthy donor tissue GSM6336979 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary normal tissue type match: healthy control

organism Homo sapiens GSE208092 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence homo sapiens dataset_accession: GSE208092 dataset_title: Transcriptome analysis to explore the shared and distinct immune signature between severe COVID-19 and bacterial sepsis organism: Hom... keyword match keyword match: homo sapiens

sample_type normal tissue GSM6336976 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM6336977 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM6336978 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary sample type match: healthy control

sample_type normal tissue GSM6336979 Runtime Siftome inference UNRESOLVED / UNREVIEWED high confidence healthy control HC4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary sample type match: healthy control

tissue blood GSE208092 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood dataset_accession: GSE208092 dataset_title: Transcriptome analysis to explore the shared and distinct immune signature between severe COVID-19 and bacterial sepsis organism: Hom... controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336976 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood HC1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336977 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood HC2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336978 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood HC3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336979 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood HC4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: healthy control controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336980 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336981 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336982 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336983 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336984 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S5 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM6336985 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S6 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527887 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S7 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527888 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S8 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527889 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S9 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527890 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood S10 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: sepsis Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527891 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood COVID1 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527892 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood COVID2 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527893 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood COVID3 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527894 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood COVID4 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

tissue blood GSM7527895 Runtime Siftome inference UNRESOLVED / UNREVIEWED low confidence blood COVID5 peripheral blood tissue: peripheral blood; cell type: neutrophils; disease state: COVID-19 Processed_data_20230628.xlsx controlled vocabulary controlled vocabulary tissue match: blood

Sample Group Preview

19 rows shown Show Hide

Study totals: Case 15 | Control 4 | Unassigned 0 | Excluded 0 | Ambiguous 0 19 rows shown

Group	Role	Accession	Title	Source / characteristics	Reason
Sepsis	Case	GSM6336980	S1	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM6336981	S2	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM6336982	S3	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM6336983	S4	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM6336984	S5	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM6336985	S6	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM7527887	S7	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM7527888	S8	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM7527889	S9	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
Sepsis	Case	GSM7527890	S10	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Sepsis	Case marker detected.
COVID-19	Case	GSM7527891	COVID1	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: COVID-19	Case marker detected.
COVID-19	Case	GSM7527892	COVID2	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: COVID-19	Case marker detected.
COVID-19	Case	GSM7527893	COVID3	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: COVID-19	Case marker detected.
COVID-19	Case	GSM7527894	COVID4	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: COVID-19	Case marker detected.
COVID-19	Case	GSM7527895	COVID5	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: COVID-19	Case marker detected.
Healthy control	Control	GSM6336976	HC1	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Healthy control	Sample-local control marker detected.
Healthy control	Control	GSM6336977	HC2	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Healthy control	Sample-local control marker detected.
Healthy control	Control	GSM6336978	HC3	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Healthy control	Sample-local control marker detected.
Healthy control	Control	GSM6336979	HC4	Peripheral blood Tissue: Peripheral blood; Cell type: Neutrophils; Disease state: Healthy control	Sample-local control marker detected.

Use as Discovery Cohort

External Validation Finder

Carry Siftome's disease, organism, specimen, assay, data type, and accession into a validation project. Uncertain fields remain Unknown.