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Sample GSM4330747

Query DataSets for GSM4330747

Status

Public on Feb 22, 2020

Title

WT_Root_-Fe

Sample type

RNA

Source name

Root, -Fe

Organism

Oryza sativa

Characteristics

cultivar: Nipponbare
genotype/variation: WT
tissue: Root
treatment: -Fe
age: 14-day-old

Treatment protocol

Four-day-old seedlings germinated in wet paper were transferred to solution culture with 0.1 mM Fe(III)-EDTA for five days. Then seedlings were transferred to solution culture without Fe or with 0.1 mM Fe(III)-EDTA for five days. Roots and shoots were separated and used for RNA extraction.

Growth protocol

Plants were grown in a growth chamber at 28°C/20°C (day/night) and 60 % to 70 % humidity, bulb type light with a photon density of ~300 μmol m-2 s-1 and a photoperiod of 14 h.

Extracted molecule

total RNA

Extraction protocol

RNA was prepared using the RNasey Mini Kit (Qiagen p/n 74104) following the manufacturer's recommendations.

Label

Cy3

Label protocol

Quick Amp Labeling Kit, One-Color (Agilent p/n 5190-2305)

Hybridization protocol

Agilent Gene Expression Hybridization Kit (Agilent p/n 5188-5242):

Scan protocol

Agilent Microarray Scanner (Agilent p/n G2505C)

Description

Gene expression after 5 days of -Fe

Data processing

Agilent Feature Extraction

Submission date

Feb 21, 2020

Last update date

Feb 22, 2020

Contact name

Gang Liang

E-mail(s)

lianggang@xtbg.ac.cn

Phone

086-13330436863

Organization name

Xishuangbanna Tropical Botanical Garden,CAS

Street address

Xuefu Road 88, Wuhua district

City

Kunming

ZIP/Postal code

650223

Country

China

Platform ID

GPL8852

Series (1)

GSE145667

Rice gene expression analysis

Data table header descriptions
ID_REF
VALUE	Normalized signal intensity

Data table
ID_REF	VALUE
GE_BrightCorner	10.912529
DarkCorner	2.1910663
Os01g0532600\|mRNA\|AJ491820\|CDS+3'UTR	2.5212767
Os01g0721700\|COMBINER_EST\|CI557169\|4	8.749742
Os06g0215600\|mRNA\|AK104039\|CDS+3'UTR	9.7463
Os09g0379500\|mRNA\|AK069390\|CDS+3'UTR	2.1171827
Os03g0199100\|mRNA\|AK069890\|CDS+3'UTR	10.371555
Os01g0508500\|mRNA\|AK120501\|CDS+3'UTR	8.0275345
Os06g0130000\|mRNA\|AK064427\|CDS+3'UTR	7.841932
Os08g0446400\|mRNA\|AK102368\|5'UTR+CDS	7.701169
Os05g0433800\|COMBINER_EST\|Os05g0433800\|8	2.134205
Os12g0152700\|mRNA\|AK099473\|CDS+3'UTR	15.149514
Os03g0685100\|mRNA\|AK059852\|CDS+3'UTR	6.4436316
Os05g0285900\|mRNA\|AK061533\|CDS+3'UTR	10.884553
Os03g0449000\|COMBINER\|CI260116\|6	8.423784
Os03g0775000\|COMBINER_EST\|AU057613\|7	7.9706573
Os11g0213500\|COMBINER_EST\|Os11g0213500\|8	4.7927012
Os09g0261100\|mRNA\|AK121607\|CDS+3'UTR	7.1110992
Os02g0236600\|COMBINER_EST\|CI552267\|0	10.929682
Os10g0469200\|mRNA\|AK108708\|CDS+3'UTR	5.788551

Total number of rows: 42535

Table truncated, full table size 1920 Kbytes.

Supplementary file	Size	Download	File type/resource
GSM4330747_2.txt.gz	7.7 Mb	(ftp)(http)	TXT
Processed data included within Sample table