GSE7822: Melanoma cell line DNA copy number analysis (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE7822)
GSM188311~ GSM188328
Platform: Agilent Human Genome CGH Microarray 244A (G4411B)
Cy3 Channel: WM793B Cell Line
Cy5 Channel: Lymphocyte derived pooled male (Promega, Inc.)

GSM188311

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188313

(I)   (II)    (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188314

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188316

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188318

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188320

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188321

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188322

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188324

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188325

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188326

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188327

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.

GSM188328

(I)   (II)   (III)

(I) 2D density distribution plot. X-axis is the log2 intensity of sample channel, Y-axis is the log2 intensity of reference channel.
(II) The illustration of the simulated data. (a) is the histogram of raw data ratio. (b) is the histogram of normalized ratio using spline curve fitting as the regression method (without moving-median filter). (c) is the histogram of normalized ratio with moving-median filter. (d) is the density plot by using EM algorithm.
(III) The results of aCGH ratio after implementing aCGH normalization.