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Sample GSM521

Query DataSets for GSM521

Status

Public on Jul 30, 2001

Title

20 min Nov0 ug/ml, dnaCacrD 30 min after synchr start

Sample type

genomic

Channel 1

Source name

dnaC fully replicated, 2 ug Say3AI, pdN6 RT

Organism

Escherichia coli

Extracted molecule

genomic DNA

Channel 2

Source name

20 min Nov0 ug/ml, 2 ug Say3AI, pdN6 RT

Organism

Escherichia coli

Extracted molecule

genomic DNA

Description

Category: DNA metabolism
Subcategory: Replication
Scanning Software: ScanAlyze
Software version: 2.24
Scanning parameters:
Lot batch = nov0_20

Submission date

Jul 30, 2001

Last update date

Nov 21, 2005

Organization

Stanford Microarray Database (SMD)

E-mail(s)

[email protected]

Phone

650-498-6012

URL

http://genome-www5.stanford.edu/

Department

Stanford University, School of Medicine

Street address

300 Pasteur Drive

City

Stanford

State/province

CA

ZIP/Postal code

94305

Country

USA

Platform ID

Series (1)

GSE8	Topoisomerase function in E. coli replication fork movement

Data table header descriptions
ID_REF
CH1B_MEAN	mean channel 1 background
CH1B_MEDIAN	median channel 1 background
CH1D_MEAN	difference between CH1I_MEAN and CH1B_MEAN
CH2I_MEAN	mean channel 2 signal
CH2D_MEAN	difference of CH2I_MEAN and CH2B_MEAN
CH2B_MEAN	mean of channel 2 background
CH2B_MEDIAN	median of channel 2 background
CH2BN_MEDIAN	normalized CH2B_MEDIAN
CH2DN_MEAN	normalized CH2D_MEAN
CH2IN_MEAN	normalized CH2I_MEAN
CORR	simple correlation coefficient of channel 1 and channel 2 pixels
FLAG	user defined flag (default=0)
VALUE	same as UNF_VALUE but with flagged values removed
PIX_RAT2_MEDIAN
PERGTBCH1I_1SD	standard deviation of fraction of pixels greater than CH1B_MEAN
PERGTBCH2I_1SD	standard deviation of fraction of pixels greater than CH2B_MEAN
RAT1_MEAN	ratio of CH1D_MEAN to CH2D_MEAN
RAT1N_MEAN	ratio of CH1DN_MEAN to CH2DN_MEAN
RAT2_MEAN	ratio of CH2D_MEAN to CH1D_MEAN
RAT2N_MEAN	ratio of CH2DN_MEAN and CH1DN_MEAN
REGR	slope of the simple regression line of channel 2 to channel 1 pixels
TOT_BPIX	total number of background pixels
TOT_SPIX	total number of signal (spot) pixels
TOP	vertical, short-axis spot ellipse minimum pixel coordinate
BOT	vertical, short-axis spot ellipse maximum pixel coordinate
LEFT	horizontal, long-axis spot ellipse minimum pixel coordinate
RIGHT	horizontal, long-axis spot ellipse maximum pixel coordinate
UNF_VALUE	aka LOG_RAT2N_MEAN, or log2 of ratio of CH2DN_MEAN and CH1DN_MEAN

Data table
ID_REF	CH1B_MEAN	CH1B_MEDIAN	CH1D_MEAN	CH2I_MEAN	CH2D_MEAN	CH2B_MEAN	CH2B_MEDIAN	CH2BN_MEDIAN	CH2DN_MEAN	CH2IN_MEAN	CORR	FLAG	VALUE	PIX_RAT2_MEDIAN	PERGTBCH1I_1SD	PERGTBCH2I_1SD	RAT1_MEAN	RAT1N_MEAN	RAT2_MEAN	RAT2N_MEAN	REGR	TOT_BPIX	TOT_SPIX	TOP	BOT	LEFT	RIGHT	UNF_VALUE
1	69	68	465	792	728	64	64	54	614	668	.925	0	.4	1.632	62	67	.639	.758	1.566	1.319	1.374	1142	256	59	77	73	91	.4
2	67	67	508	867	805	62	62	52	678	731	.909	0	.417	1.594	63	65	.631	.749	1.585	1.336	1.341	999	256	59	77	95	113	.417
3	68	67	273	462	400	62	62	52	337	389	.953	0	.304	1.502	58	59	.683	.81	1.465	1.235	1.338	1014	256	59	77	117	135	.304
4	69	69	506	838	774	64	64	54	652	706	.874	0	.366	1.635	60	66	.654	.776	1.53	1.289	1.192	1053	256	58	76	139	157	.366
5	69	68	587	863	800	63	63	53	674	727	.884	0	.2	1.436	61	67	.734	.871	1.363	1.149	1.096	1045	256	58	76	162	180	.2
6	70	69	532	905	843	64	62	52	710	763	.924	0	.417	1.596	62	65	.631	.749	1.585	1.336	1.381	1035	256	58	76	184	202	.417
7	72	71		64		67	65	55	-1	54	.216	0		.7	4	1					.156	1035	256	58	76	206	224
8	71	71		62		66	64	54	-2	52	.011	0		.857	1	0					.009	1057	256	57	75	228	246
9	71	70		63		66	65	55	-2	53	.128	0		.727	3	0					.091	1016	256	57	75	251	269
10	71	70		61		65	65	55	-3	51	.146	0		.923	1	1					.109	997	256	57	75	273	291
11	71	70	1	64		68	64	54	0	54	.13	0		.769	5	1					.106	1035	256	57	75	295	313
12	75	68		62		85	63	53	-1	52	.079	0		.727	2	1					.056	1111	256	56	74	317	335
13	73	66	4	61	3	81	58	49	3	51	-.003	0	-.662	.721	3	4	1.333	1.582	.75	.632	-.003	1088	256	56	74	340	358	-.662
14	65	63	2	58	3	61	55	46	3	49	.034	0	.338	.647	7	6	.667	.791	1.5	1.264	.025	1005	256	56	74	362	380	.338
15	72	63	3	57	1	71	56	47	1	48	.055	0	-1.832	1	4	2	3	3.56	.333	.281	.043	985	256	56	74	384	402	-1.832
16	144	67		59	1	144	58	49	1	50	.067	0		.833	4	2					.05	1022	256	56	74	406	424
17	144	66		55		142	58	49	-3	46	.062	0		.611	5	1					.042	1052	256	55	73	429	447
18	77	66		55		73	58	49	-3	46	.043	0		.625	5	1					.027	1184	256	55	73	451	469
19	78	67		61	1	74	60	51	1	51	.107	0		1	3	2					.085	1007	256	81	99	73	91
20	116	68		58		141	60	51	-2	49	.094	0		.8	1	1					.075	821	256	79	97	95	113

Total number of rows: 4896

Table truncated, full table size 574 Kbytes.

Supplementary data files not provided

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