Sample 8
Homo sapiens
Protocols: Samples were obtained during surgical treatment of HNSCC patients. Tissue was cut into 2 small pieces, one deposited in 700 microliters of G2 buffer compatible with EZ1 DNA isolation on Qiagen EZ1 biorobot, and the other in 700 microliters of RNAlater solution. Tumor grading was scored by collaborating pathologists. Tumor tissue was further cut to approx 20mg pieces. The DNA was isolated with the EZ1 Biorobot using EZ1 DNA tissue kit (Qiagen) following the manufacturer's protocol. The total RNA was isolated using miRNeasy mini kit (Qiagen) following the manufacturer's protocol. Both DNA and RNA quality and quantity were analyzed on nanospectrofotometer (Implen). Furthermore, RNA quality was assessed by Agilent Bioanalyser RNA6000 Nano kit to determine RIN number. NGS libraries were constructed with Illumina TrueSeq Small RNA Library prep kit according to the manufacturer's protocol. For multiplexing and library pooling, index pools A (1-12) and B (13-22) were used. Agilent Bioanalyser was used for quality control of indicated steps as recommended by the manufacturer. QBit was used to quantify final libraries before normalization and pooling.
ENA-FIRST-PUBLIC
2018-12-25T17:01:49Z
ENA-LAST-UPDATE
2018-07-19T16:29:38Z
External Id
SAMEA4799021
INSDC center name
Ruđer Boskovic Institute
INSDC first public
2018-12-25T17:01:49Z
INSDC last update
2018-07-19T16:29:38Z
INSDC status
public
Submitter Id
E-MTAB-7030:Sample 8
age
52
broker name
ArrayExpress
clinical history
primary tumor
clinical information
HPV negative
cohort
O-
common name
human
disease
head and neck squamous cell carcinoma
disease staging
T2N0
environmental history
smoker; alcohol drinking
histology
moderately differentiated histopathology evaluation
organism part
mouth floor
sample name
E-MTAB-7030:Sample 8
sampling site
neoplasm
scientific_name
Homo sapiens
sex
male