Antigen

Antigen Class

No description

Antigen

NA

Cell type

Cell type Class

Others

Cell type

Salivary Glands

MeSH Description

Glands that secrete SALIVA in the MOUTH. There are three pairs of salivary glands (PAROTID GLAND; SUBLINGUAL GLAND; SUBMANDIBULAR GLAND).

Sample

ENA first public

2018-12-24

ENA last update

2018-12-14

ENA-CHECKLIST

ERC000011

External Id

SAMEA5176183

INSDC center alias

MDC-Berlin

INSDC center name

MDC-Berlin

INSDC first public

2018-12-24T17:01:59Z

INSDC last update

2018-12-14T14:00:22Z

INSDC status

public

Submitter Id

E-MTAB-7514:Sample 17

age

13

broker name

ArrayExpress

common name

house mouse

developmental stage

adult

disease

cancer

genotype

K14-Cre; -cateninflox/+ Bmpr1aflox/flox; EYFP+/-

growth condition

2D culture

organism part

saliva-secreting gland

sample name

E-MTAB-7514:Sample 17

sampling site

neoplasm

sex

male

strain

C57BL/6

Sequenced DNA Library

library_name

Sample 17_s

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Mouse salivary gland cancer cells were isolated from salivary gland of transgenic mouse that harbor K14-Cre-induced Wnt/β-catenin gain-of-function and Bmpr1a loss-of-function mutations. For sphere culture, 24-well cell culture plates were pre-coated with 250 μl poly-hydroxyethyl-methacrylate (PolyHEMA, 12 mg/ml in 95% ethanol, Sigma). Cells were seeded as single cells in sphere culture medium (F12:DMEM 1:1, containing 1X B-27 supplement, 20 ng/ml EGF, 20 ng/ml FGF, 5 μg/ml insulin and 0.5% methylcellulose). For adherent cells, mouse salivary gland tumor cells were cultured in DMEM/F12 medium supplemented with 20% knockout serum replacement (KSR), non-essential minimal amino acids, penicillin/streptomycin solution, L-glutamine and β-mercaptoethanol (Invitrogen). Anti-H3K4me1 (C15410194), -me2 (C15410035) and -me3 (C15410003-50) antibodies were purchased from Diagenode. ChIP-seq was performed according to the protocols provided by Diagenode using the iDeal ChIP-seq kit for histones and the iDeal library preparation kit. For mRNA-seq, mRNA was extracted according to the standard TRIzol protocol (Invitrogen) and subjected to library preparation using the TruSeq stranded mRNA library preparation kit. Anti-H3K4me1 (C15410194), -me2 (C15410035) and -me3 (C15410003-50) antibodies were purchased from Diagenode. ChIP-seq was performed according to the protocols provided by Diagenode using the iDeal ChIP-seq kit for histones and the iDeal library preparation kit. For mRNA-seq, mRNA was extracted according to the standard TRIzol protocol (Invitrogen) and subjected to library preparation using the TruSeq stranded mRNA library preparation kit.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

34222972

Reads aligned (%)

80.8

Duplicates removed (%)

11.6

Number of peaks

271 (qval < 1E-05)

mm9

Number of total reads

34222972

Reads aligned (%)

80.7

Duplicates removed (%)

11.6

Number of peaks

274 (qval < 1E-05)