2024-04-29
ENA first public
ERC000011
ENA-CHECKLIST
SAMEA114630172
External Id
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, CB10 1SA, UK University of Cambridge, Department of Haematology, Cambridge, CB2 0AW, UK Wellcome Trust – Medical Research Council Cambridge Stem Cell Institute, Cambridge, CB2 0AW, UK
INSDC center name
2023-11-16T14:17:22Z
INSDC last update
public
INSDC status
ERS17014170
SRA accession
E-MTAB-13530:P10_T3
Submitter Id
74
year
age
ArrayExpress
broker name
not collected
collection date
human
common name
Protocols: Tissues were frozen in dry-ice cooled isopentane and stored in air-tight tissue cryovials at -80°C. Prior to undertaking any spatial transcriptomics protocol, the tissues were embedded in an optimal cutting temperature compound (OCT) and tested for RNA quality with RNA integrity number (RIN). Tissues with RIN values >7 were cryosectioned in a pre-cooled cryostat at 10 μm thickness. Two consecutive sections were cryosectioned at 10 μm thickness in a pre-cooled cryostat and transferred to the four 6.5mm x 6.5mm capture areas of the gene expression slide. Slides were fixed in methanol for 30 minutes prior to staining with H&E and then imaged using the Nanozoomer slide scanner. The tissues underwent permeabilization for 24 minutes. Reverse transcription and second strand synthesis was performed on the slide with cDNA quantification using qRT-PCR using KAPA SYBR FAST-qPCR kit (KAPA Biosystems) and analysed on the QuantStudio (ThermoFisher). Following library construction, these were quantified and pooled at 2.25 nM concentration. Reverse transcription and second strand synthesis was performed on the slide with cDNA quantification using qRT-PCR using KAPA SYBR FAST-qPCR kit (KAPA Biosystems) and analysed on the QuantStudio (ThermoFisher). Following library construction, these were quantified and pooled at 2.25 nM concentration.
description
adult
developmental stage
lung adenocarcinoma
disease
T3N0M2
disease staging
not collected
geographic location (country and/or sea)
Patient 10
individual
not applicable
isolate
Homo sapiens
organism
Homo sapiens
organism
lung
organism part
TB20.0240
original source name
tumor
sampling site
Homo sapiens
scientific_name
female
sex
P10_T3
title