Expectations
- Organism
- Homo sapiens
- Assay
- bulk RNA-seq
- Specimen/source
- patient tissue or biopsy
- Controls
- matched normal, adjacent normal, paired normal, healthy tissue control, or otherwise normal tissue control
Siftome Phase 3L
GSE149390Both case and control groups are present in the proposed grouping.
Each contrast group has at least 2 samples.
Processed data is marked available in the GEO index.
Unassigned or review-needed samples remain before analysis.
No dataset warnings are present.
Metadata quality is high enough to support downstream handoff.
Siftome proposed case and control labels, but no reviewer confirmation is stored yet.
Open the sample grouping CSV and confirm group labels before analysis.Both groups meet the minimum of 2 samples.
Confirm whether the cohort is large enough for the intended statistical analysis.Processed data availability is marked true in the GEO index.
Verify that downloaded processed files contain usable count or expression identifiers.0 review-needed samples and 3 unassigned samples remain.
Resolve ambiguous and unassigned samples before finalizing the contrast.No hard-excluded samples were detected by the current rules.
Record any manual exclusions in the downstream analysis notes.The dataset and sample accessions can be linked back to GEO.
Keep GEO dataset and sample links with exported metadata.Ask a bioinformatician to review grouping, count availability, exclusions, and design before DE.
No ranking warnings are active.
No active review decisions affect this ranking.
No active manual corrections are applied to this dataset.
Homo sapiens
dataset_accession: GSE149390 organism: Homo sapiens dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development
bulk RNA-seq
assay_type: bulk RNA-seq experiment_types: Expression profiling by high throughput sequencing platforms: GPL16791 Illumina HiSeq 2500 (Homo sapiens) dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development
Tumor vs unmatched normal
dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development experiment_types: Expression profiling by high throughput sequencing sample_context: GSM4498881: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498882: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498883: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498884: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498885: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498886: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes
Tissue
dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development sample_context: GSM4498881: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498882: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498883: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498884: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498885: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498886: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes
melanoma
dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development sample_context: GSM4498881: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498882: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498883: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498884: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498885: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498886: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes
Eligible for Patient tissue tumor-vs-normal as Not suitable
dataset_accession: GSE149390 dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development organism: Homo sapiens assay_type: bulk RNA-seq sample_context: GSM4498881: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498882: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498883: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498884: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498885: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498886: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes
Eligible for Patient tissue tumor-vs-normal as Not suitable
dataset_accession: GSE149390 dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development organism: Homo sapiens assay_type: bulk RNA-seq sample_context: GSM4498881: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498882: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498883: source_name=Metastatic melanoma line; characteristics=tissue: Metastatic melanoma line GSM4498884: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498885: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes GSM4498886: source_name=Normal epidermal melanocytes; characteristics=tissue: Normal epidermal melanocytes
tumor sample (case)
sample_accession: GSM4498881 sample_title: CtrlM14 1: Control M14 melanoma source_name: Metastatic melanoma line characteristics: tissue: Metastatic melanoma line
Included in derived sample grouping as tumor sample
sample_accession: GSM4498881 sample_title: CtrlM14 1: Control M14 melanoma source_name: Metastatic melanoma line characteristics: tissue: Metastatic melanoma line
tumor sample (case)
sample_accession: GSM4498882 sample_title: CtrlM14 2: Control M14 melanoma source_name: Metastatic melanoma line characteristics: tissue: Metastatic melanoma line
Included in derived sample grouping as tumor sample
sample_accession: GSM4498882 sample_title: CtrlM14 2: Control M14 melanoma source_name: Metastatic melanoma line characteristics: tissue: Metastatic melanoma line
tumor sample (case)
sample_accession: GSM4498883 sample_title: CtrlM14 3: Control M14 melanoma source_name: Metastatic melanoma line characteristics: tissue: Metastatic melanoma line
Included in derived sample grouping as tumor sample
sample_accession: GSM4498883 sample_title: CtrlM14 3: Control M14 melanoma source_name: Metastatic melanoma line characteristics: tissue: Metastatic melanoma line
normal tissue (control)
sample_accession: GSM4498884 sample_title: HEMaLP 1: HEMa-LP normal melanocytes source_name: Normal epidermal melanocytes characteristics: tissue: Normal epidermal melanocytes
Included in derived sample grouping as normal tissue
sample_accession: GSM4498884 sample_title: HEMaLP 1: HEMa-LP normal melanocytes source_name: Normal epidermal melanocytes characteristics: tissue: Normal epidermal melanocytes
normal tissue (control)
sample_accession: GSM4498885 sample_title: HEMaLP 2: HEMa-LP normal melanocytes source_name: Normal epidermal melanocytes characteristics: tissue: Normal epidermal melanocytes
Included in derived sample grouping as normal tissue
sample_accession: GSM4498885 sample_title: HEMaLP 2: HEMa-LP normal melanocytes source_name: Normal epidermal melanocytes characteristics: tissue: Normal epidermal melanocytes
normal tissue (control)
sample_accession: GSM4498886 sample_title: HEMaLP 3: HEMa-LP normal melanocytes source_name: Normal epidermal melanocytes characteristics: tissue: Normal epidermal melanocytes
Included in derived sample grouping as normal tissue
sample_accession: GSM4498886 sample_title: HEMaLP 3: HEMa-LP normal melanocytes source_name: Normal epidermal melanocytes characteristics: tissue: Normal epidermal melanocytes
unassigned (unassigned)
sample_accession: GSM4498887 sample_title: RAD6BKOM14 1: RAD6B knockout M14 source_name: RAD6B gene disrupted M14 cells characteristics: tissue: RAD6B gene disrupted M14 cells
Included in derived sample grouping as unassigned
sample_accession: GSM4498887 sample_title: RAD6BKOM14 1: RAD6B knockout M14 source_name: RAD6B gene disrupted M14 cells characteristics: tissue: RAD6B gene disrupted M14 cells
unassigned (unassigned)
sample_accession: GSM4498888 sample_title: RAD6BKOM14 2: RAD6B knockout M14 source_name: RAD6B gene disrupted M14 cells characteristics: tissue: RAD6B gene disrupted M14 cells
Included in derived sample grouping as unassigned
sample_accession: GSM4498888 sample_title: RAD6BKOM14 2: RAD6B knockout M14 source_name: RAD6B gene disrupted M14 cells characteristics: tissue: RAD6B gene disrupted M14 cells
unassigned (unassigned)
sample_accession: GSM4498889 sample_title: RAD6BKOM14 3: RAD6B knockout M14 source_name: RAD6B gene disrupted M14 cells characteristics: tissue: RAD6B gene disrupted M14 cells
Included in derived sample grouping as unassigned
sample_accession: GSM4498889 sample_title: RAD6BKOM14 3: RAD6B knockout M14 source_name: RAD6B gene disrupted M14 cells characteristics: tissue: RAD6B gene disrupted M14 cells
Original dataset metadata, sample metadata, source links, and GEO data availability flags.
Planned trusted source for processed count availability.
Planned source for curated expression experiment links.
Publication context when PubMed identifiers are already known.
No project feedback stored for this dataset.
dataset_accession: GSE149390 dataset_title: Importance of RAD6B in activation of canonical WNT signaling in melanoma development organism: Homo sapiens assay_type: bulk RNA-seq processed_data_available: true raw_data_available: true submission_date: 2020-04-27 last_update_date: 2021-01-26 organization_name: Wayne State University department: Oncology public_date: 2020-10-27 experiment_types: Expression profiling by high throughput sequencing platforms: GPL16791 Illumina HiSeq 2500 (Homo sapiens) sub_series: Not available bioproject: PRJNA628598 supplementary_files: CSV: GSE149390_Melanoma_melanocyte_M14_Rad6BKO_Diff_Expression_mshekhar.csv.gz; CSV: GSE149390_Melanoma_melanocyte_M14_Rad6BKO_HEMaLP_Diff_Expression_mshekhar.csv.gz; CSV: GSE149390_Melanoma_melanocyte_M14_Rad6BKO_HEMaLP_counts_mshekhar.csv.gz; CSV: GSE149390_Melanoma_melanocyte_M14_Rad6BKO_counts_mshekhar.csv.gz series_type: Series
No warnings
Samples currently treated as the comparison case group.
Samples currently treated as controls or baseline.
Samples with no explicit case or control marker.
Samples excluded from grouping by hard exclusion rules.
No samples
Samples that need manual review before trusting grouping.
No samples
No review decisions have been stored for this dataset.