GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM143430

Query DataSets for GSM143430

Status

Public on Mar 01, 2008

Title

Bronchoalveolar lavage sample Viro3P10-192

Sample type

RNA

Source name

amplified RNA from a BAL sample from a patients at Stanford with critical respiratory illness

Organism

Viruses

Characteristics

HMPV

Extracted molecule

total RNA

Extraction protocol

RNA extraction using Zymo(TM) kit from bronchoalveolar lavage fluid

Label

Cy3

Label protocol

labeling of aminoallyl dNTP with Cy3/Cy5; Cy3 for amplified sample RNA, Cy5 for Probe70 (internal reference)

Hybridization protocol

65 degree incubation overnight in standard microarray hybridization chamber

Scan protocol

microarray scanned with GenePix scanner

Description

amplified RNA from a BAL sample from a patient at Stanford with critical respiratory illness

Data processing

Median feature intensity minus median background intensity

Submission date

Nov 01, 2006

Last update date

Mar 02, 2007

Contact name

Joe DeRisi

E-mail(s)

joe@derisilab.ucsf.edu

Phone

415-476-4132

URL

http://derisilab.ucsf.edu

Organization name

University of California, San Francisco

Department

Biochemistry and Biophysics

Lab

Joseph DeRisi Laboratory

Street address

City

San Francisco

State/province

ZIP/Postal code

94107

Country

USA

Platform ID

GPL3429

Series (1)

GSE6214

Human metapneumovirus strain associated with critical respiratory illness in an elderly male with leukemia Stanford HMPV

Data table header descriptions
ID_REF
VALUE	Channel 1 net intensity median (same as CH1_NET_MEDIAN)
CH1_MEDIAN	Channel 1 intensity median
CH1_MEAN	Channel 1 intensity mean
CH1_SD	Channel 1 intensity standard deviation
CH1_BGD_MEDIAN	Channel 1 background intensity median
CH1_BGD_MEAN	Channel 1 background intensity mean
CH1_BGD_SD	Channel 1 background intensity standard deviation
CH1_NET_MEDIAN	Channel 1 net intensity median
CH1_NET_MEAN	Channel 1 net intensity median
FLAG	GenePix spot flag

Data table
ID_REF	VALUE	CH1_MEDIAN	CH1_MEAN	CH1_SD	CH1_BGD_MEDIAN	CH1_BGD_MEAN	CH1_BGD_SD	CH1_NET_MEDIAN	CH1_NET_MEAN	FLAG
1	52	106	108	27	54	56	14	52	54
2	55	109	105	27	54	55	14	55	51
3	69	122	128	27	53	55	15	69	75
4	47	102	97	26	55	57	18	47	42
5	55	111	110	30	56	56	15	55	54
6	45	100	104	25	55	56	16	45	49
7	42	96	98	24	54	55	16	42	44
8	53	105	109	27	52	53	15	53	57
9	48	105	110	30	57	57	16	48	53
10	54	112	112	31	58	57	16	54	54
11	43	102	105	29	59	61	17	43	46
12	37	95	96	23	58	58	14	37	38
13	49	103	102	24	54	56	15	49	48
14	41	97	101	26	56	57	15	41	45
15	35	95	94	28	60	61	16	35	34
16	25	80	85	30	55	56	15	25	30
17	43	103	100	29	60	63	16	43	40
18	50	114	115	23	64	65	18	50	51
19	48	109	109	30	61	63	17	48	48
20	55	115	115	25	60	62	18	55	55

Total number of rows: 21888

Table truncated, full table size 740 Kbytes.

Supplementary file	Size	Download	File type/resource
GSM143430.gpr.gz	1.6 Mb	(ftp)(http)	GPR