cCCLE-ID: ACH-000681 (A549)

A549 LUNG

Lung Adenocarcinoma | Primary Tumor

Order Physical Model PHDAgenome Raw Data

Oncotree & Lineage

Subtype & Code

Lung Adenocarcinoma LUAD

Primary Disease

Non-Small Cell Lung Cancer (NSCLC)

Lineage Context

LUNG (Level 0) NSCLC (Level 1)

Molecular & Clinical

Molecular Subtypes

KRAS-G12S CDKN2A_LoF

Age / Sex

58, Adult / Male

Ancestry

East Asian (Han)

Collection / Site

Primary / Lung

Cross-Reference IDs

Cellosaurus

CVCL_0023

COSMIC ID

905949

Sanger ID

SIDM00903

Source / Catalog

ATCC / CCL-185

Gene	HGVSp (Protein)	HGVSc (DNA)	Variant Type	VAF	Pathogenicity
TP53	p.R249S	c.745G>T	Missense	0.42	Pathogenic
CTNNB1	p.S45F	c.134C>T	Missense	0.38	Likely Pathogenic
AXIN1	p.L396*	c.1187T>A	Nonsense	0.51	Pathogenic

* VAF (Variant Allele Frequency): Calculated based on high-depth WGS/WES data.
* Pathogenicity is annotated using ClinVar and COSMIC databases.

Gene Symbol	Ensembl ID	Expression (TPM)	Percentile (%)
AFP	ENSG00000081051	1452.8	Top 5%
GPC3	ENSG00000147257	842.1	Top 18%
GAPDH	ENSG00000111640	542.4	Top 40%
MYC	ENSG00000136997	124.5	Top 75%

* TPM: Transcripts Per Million.
* Percentile: Expression rank relative to all models in the cCCLE liver cohort.

Fusion ID	5' Partner (Head)	3' Partner (Tail)	Breakpoint 1 : 2	FFPM	Evidence
FUS-0042-01	DNAJB1 Exon 1	PRKACA Exon 2	chr19:14512030 (+) chr19:14125884 (+)	12.4	Validated (RNA-Seq)
FUS-0042-02	SLC34A2	ROS1	chr4:25662141 (-) chr6:117642557 (-)	5.8	Inferred (WGS)

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* FFPM: Fusion Fragments Per Million total reads. High FFPM values (>0.1) indicate high-confidence fusion events.
* Validated indicates the fusion was detected across both DNA-seq and RNA-seq platforms.

Copy Number Variations (CNV)

Gene	Cytoband	Copy Number	Segment Mean	Call
MYC	8q24.21	6.2	1.63	Amplification
PTEN	10q23.31	0.8	-1.32	Deep Deletion

Structural Variations (SV)

SV Type	Breakpoint 1	Breakpoint 2	Size	Tool Support
DEL (Deletion)	chr1:120,443,002	chr1:120,448,500	5.5 kb	Manta, Delly
BND (Translocation)	chr9:133,359,000	chr22:23,288,000	--	Manta

* Copy Number: Discrete copy number estimated from WGS data (normal = 2).
* SV Types: Includes Deletions (DEL), Duplications (DUP), Inversions (INV), and Translocations (BND).

STR Profile (Identity Authentication)

Match Score: 100% (Confirmed)

Locus	HepG2 Alleles	ATCC Standard
Amelogenin	X	X
CSF1PO	10, 11	10, 11
D13S317	11, 13	11, 13
D16S539	12, 13	12, 13
vWA	17, 18	17, 18

Electropherogram Image

Verified by NCRC STR Authentication System

Mycoplasma Detection

✓

NEGATIVE

Method: PCR-based Assay

Sterility Test

✓

PASS

Bacterial & Fungal Free

Morphology (Microscopy)

PHOTO

Epithelial-like

VIEW BRIGHTFIELD IMAGE

Sequencing Data Quality (WGS / RNA-Seq)

Mean Coverage

65.4x

Mapping Rate

98.2%

Q30 Score

94.8%

RIN (RNA)

8.9

Select All Files

Selected: 0 files

Omics Category	File Description	Format	Size	Last Updated
Mutation	Somatic Variant Call (MAF) Reference: hg38 \| Pipeline: cCCLE-WGS-v1.2	.maf	4.2 MB	2024-03-12
Expression	Transcript Abundance (TPM) Normalized by Salmon \| Batch Corrected	.txt	12.8 MB	2024-03-12
Fusion	Gene Fusion Prediction List Detected via STAR-Fusion & Arriba	.csv	1.1 MB	2024-03-12
Copy Number	Gene-level CNV Matrix GISTIC2 Call \| Segments Mean Provided	.csv	2.4 MB	2024-03-12