Using Small RNA Deep Sequencing Data to Detect Human Viruses

Table 1

The 42 previous studies from the SRA database.

Study ID	Runs	Sample source	Disease
DRP000998	3	Whole saliva, salivary exosome	Healthy
ERP001908	63	Tongue, laryngopharynx, oropharynx	HNSCC
ERP004592	23	Prefrontal cortex	Huntington’s disease
SRP001381	3	HeLa cell line	HPV18(+)
SRP002118	14	Hek293T cell line	NA
SRP002272	15	Liver	HBV(+), HCV(+), HCC
SRP002326	38	Cervical tumor	Cervical cancer
SRP002402	3	Sperm	Healthy
SRP007825	67	Skin	Psoriasis
SRP008258	2	Hek293, HeLa cell line	NA
SRP009246	4	Primary human fibroblast	NA
SRP014020	20	Thyroid tumor	Follicular thyroid adenoma
SRP017809	4	Dorsolateral prefrontal cortex	Healthy
SRP017979	4	Colorectal tumor	Colorectal cancer
SRP018255	35	Plasma, serum, placenta	Healthy
SRP021130	20	Cerebral cortex	FTLD, PSP, BHS, DLB, Alzheimer’s disease
SRP021193	40	Heart	NIC, IC
SRP021911	12	Cumulus granulosa cell, mural granulosa cell	NA
SRP021924	5	Brain frontal cortex	NA
SRP022043	70	Blood	Alzheimer’s disease
SRP022054	26	Sigma, liver, coecum, colon ascendens, lymph node	Colorectal cancer
SRP026081	2	Penicillium marneffei	NA
SRP026558	2	PBMC	Osteopetrosis
SRP026562	11	Prefrontal cortex	Alzheimer’s disease
SRP027589	42	Serum	Breast cancer
SRP028291	78	ACA, ACC tumor, adrenal tissue	ACA, ACC
SRP028738	16	MiRQC, serum, liver	NA
SRP029599	9	FFPE, serum	Nonkeratinizing NPC, NPC
SRP032650	4	Serum	Latent PTB, PTB
SRP032953	12	Alpha cell, beta cell, whole islet	Type 2 diabetes mellitus
SRP033505	3	Plasma	Healthy
SRP033566	185	Connective tissue, plasma, neuronal tissue, primary cell, cardiac muscle, epithelium, skeletal muscle	DCM, IC
SRP034547	4	Primary fibroblast	Microcephaly
SRP034586	24	Serum, PBMC	Healthy
SRP034590	14	Plasma	NA
SRP034654	12	Tensor fascia lata, quadricep vastus, vastus externe, rhomboid, iliopsoas	FSHD
SRP034698	8	Skin, lymph node	MCC, SCC, melanoma, BCC
SRP040421	12	Exosome in human semen	Healthy
SRP041082	2	Seminal fluid	Prostate cancer
SRP046046	12	Lymphoblastoid	DLBCL, Burkitt’s lymphoma, EBV(+)
SRP046234	2	Breast epithelium	Triple negative breast cancer
SRP048290	6	Platelet	Healthy

“Study ID” is uniq for each high-throughput project in the NCBI SRA database. ACA: adrenal cortical adenoma, ACC: adrenal cortical carcinoma, BCC: Basal Cell Carcinoma, BHS: bilateral hippocampal sclerosis, DCM: Dilated Cardiomyopathy, DLB: dementia with Lewy bodies, DLBCL: Diffuse Large B-Cell Lymphoma, FSHD: Facioscapulohumeral Muscular Dystrophy, FTLD: frontotemporal lobar dementia, HCC: HBV-related hepatocellular carcinoma, HNSCC: Head and Neck Squamous Cell Carcinoma, IC: Ischemic Cardiomyopathy, MCC: Merkel Cell Carcinoma, NIC: Nonischemic Cardiomyopathy, NPC: nasopharyngeal carcinoma, PBMC: Peripheral Blood Mononuclear Cell, PSP: Progressive Supranuclear Palsy, PTB: Pulmonary Tuberculosis, and SCC: Squamous Cell Carcinoma.