title: T3BQBC06182008A_3642_CY3_STERNE_CY5_13824017_B

description: T3BQBC06182008A_3642_CY3_STERNE_CY5_13824017_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH820_Cy3_AMES_Cy5_43019

status: Public on Nov 25 2009

type: genomic

city: Rockville

first: Chun-Hua

last: Wan

state: MD

address: 9407 Medical Center Dr

department: PFGRC

country: USA

institute: J Craig Venter Institute

hyb_protocol: Aminosaline coated slides were prehybridized in 5x SSC (1x SSC is 0.15 M NaCl plus 0.015 M sodium citrate) (Invitrogen), 0.1% sodium dodecyl sulfate, and 1% bovine serum albumin at 42 degree Celcius for 45 min.  The slides then were washed at room temperature with distilled water, dipped in isopropanol, and spun dry.  Equal concentrations of DNA probe from the appropriate Cy3 and Cy5 labeled probes were combined, dried and then resuspended in a solution of 50% formamide, 5x SSC, and 0.1% sodium dodecyl sulfate.  Resuspended probes were denatured at 95 degree Celcius prior to hybridization.  The probe mixture then was added to the microarray slide and allowed to hybridize overnight at 42 degree Celcius.   Hybridized slides were washed sequentially in solutions of 1x SSC-0.2% SDS, 0.1x SSC-0.2% SDS, and 0.1x SSC at room temperature

scan_protocol: Scanned on Axon GenePix 4000 scanner.  PMT values were optimized during scanning to balance channel intensities.

data_processing:
Procedures to calculate the value of log2 ratio:
1. Use software suite TM4 (www.tm4.org) to analyze spotted arrays.
2. Use Spotfinder with background correction to compute the spot intensities of the hybridized arrays.
3. Perform the following filtering steps:
All PFGRC arrays used in this study have 3 types of spots.
      (1). Species spot: oligos designed for the species under investigation.
      (2). Reserved spot or control spot: oligos designed from Arabidopsis genes as controls.
      (3). Empty spots: no oligos or any DNA.
Step 1: Identify the replicates.
      Sort the .mev file from Spotfinder by oligo_id.
Step 2: Identify the outliers within each set of replicates for each channel.
      Outliers are identified using the Sprents method (The Handbook of Parametric and Nonparametric Statistical Procedures, Third Edition by David J. Sheskin, PP 400-402).
      |Xi - M|/MAD > Max
      Xi = Each intensity value from the set of replicates.
      M = Median intensity value from the set of replicates.
      MAD = Median absolute deviation.
      Max = the critical value that the result of the inequality must exceed in order to conclude that the Xi value is an outlier. The value of 5 was used for Max.
Step 3: Replace the outliers.
      Replace the outliers by the value closest to them from the tail that they occur. For example, if the outlier identified is the highest value in channel A, that value will be replaced by the next highest value of its replicate set in channel A.
Step 4: Subtract the 95th percentile of the reserved spots.
      Calculate the 95th percentile of all the reserved spots and subtract that value from all the species spots and reserved spots.
Step 5: Replace zero (0) by one (1).
      After subtracting the 95th percentile of the reserved spots, if one of the channel intensities is less than zero (0), replace that value by one (1); If both channels become less than zero (0), set both channels to zero (0).
Step 6. Output the filtered .mev file.
4. Use Midas X for CGH normalization:
    1). Plot the histogram of the Log2 ratio data (Reference/Query) from the filtered .mev file, and identify the central peak containing oligos predicted to be shared by both the reference and query strains.
    2). Fit a Gaussian curve to the central peak by 'tweaking' the log ratio mean and by shrinking or stretching the standard deviation of the curve to find the smallest least sum of squares difference.
    3). Perform Log Mode Centering normalization on the channel that contains the query sample only (Either Cy3 or Cy5).
    4). Output the normalized *.mev file.
5. Calculate the value of log2 ratio (Reference/Query) from the normalized .mev file:
    1). If both channels (QUERY_MEDIAN_INTENSITY and REF_MEDIAN_INTENSITY) are zero, assign the value "null".
    2). If one channel is zero and the other is not zero, substitute the zero with one (1) and then, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE
    3). If neither channel is zero, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE.

molecule: genomic DNA

organism: Bacillus anthracis

source_name: Ames

label_protocol: 4ug of genomic DNA was labeled at 37 degree Celcius overnight using DNA polymerase I Klenow fragment (New England Biolabs), a 25X 2:1 amino allyl dUTP (Ambion) dNTP mix, and random hexamers (Invitrogen).  Labeled DNA was purified with Qiaquick PCR purification kit (QIAGEN).The purified labelled DNA was then dye coupled with the appropriate cye dye (CY3/CY5).

growth_protocol: Cells grown in Lysogeny broth (LB) at 37 degrees Celcius overnight.

extract_protocol: Epicentre MasterPure DNA Extraction Kit

tag: strain

value: Ames

organism: Bacillus cereus


title: T3AQBC07302008_H9311_CY3_STERNE_CY5_13849008_B

address: 9704 Medical Center Dr

department: Pathogen Functional Genomics Resources Center (PFGRC)

institute: The J. Craig Venter Institute

description: T3AQBC07302008_H9311_CY3_STERNE_CY5_13849008_anno_sub_95th_MDS.mev.refIsMEDB.out

hyb_protocol: Aminosaline coated slides were prehybridized in 5x SSC (1x SSC is 0.15 M NaCl plus 0.015 M sodium citrate) (Invitrogen), 0.1% sodium dodecyl sulfate, and 1% bovine serum albumin at 42 degree Celcius for 45 min. The slides then were washed at room temperature with distilled water, dipped in isopropanol, and spun dry. Equal concentrations of DNA probe from the appropriate Cy3 and Cy5 labeled probes were combined, dried and then resuspended in a solution of 35% formamide, 5x SSC, and 0.1% sodium dodecyl sulfate. Resuspended probes were denatured at 95 degree Celcius prior to hybridization. The probe mixture then was added to the microarray slide and allowed to hybridize overnight at 42 degree Celcius. Hybridized slides were washed sequentially in solutions of 1x SSC-0.2% SDS, 0.1x SSC-0.2% SDS, and 0.1x SSC at room temperature.

scan_protocol: Scanned on Axon GenePix 4000 scanner. PMT values were optimized during scanning to balance channel intensities.

data_processing:
Procedures to calculate the value of log2 ratio:
1. Use software suite TM4 (www.tm4.org) to analyze spotted arrays.
2. Use Spotfinder with background correction to compute the spot intensities of the hybridized arrays.
3. Perform the following filtering steps:
All PFGRC arrays used in this study have 3 types of spots.
(1). Species spot: oligos designed for the species under investigation.
(2). Reserved spot or control spot: oligos designed from Arabidopsis genes as controls.
(3). Empty spots: no oligos or any DNA.
Step 1: Identify the replicates.
Sort the .mev file from Spotfinder by oligo_id.
Step 2: Identify the outliers within each set of replicates for each channel.
Outliers are identified using the Sprents method (The Handbook of Parametric and Nonparametric Statistical Procedures, Third Edition by David J. Sheskin, PP 400-402).
|Xi - M|/MAD > Max
Xi = Each intensity value from the set of replicates.
M = Median intensity value from the set of replicates.
MAD = Median absolute deviation.
Max = the critical value that the result of the inequality must exceed in order to conclude that the Xi value is an outlier. The value of 5 was used for Max.
Step 3: Replace the outliers.
Replace the outliers by the value closest to them from the tail that they occur. For example, if the outlier identified is the highest value in channel A, that value will be replaced by the next highest value of its replicate set in channel A.
Step 4: Subtract the 95th percentile of the reserved spots.
Calculate the 95th percentile of all the reserved spots and subtract that value from all the species spots and reserved spots.
Step 5: Replace zero (0) by one (1).
After subtracting the 95th percentile of the reserved spots, if one of the channel intensities is less than zero (0), replace that value by one (1); If both channels become less than zero (0), set both channels to zero (0).
Step 6. Output the filtered .mev file.
4. Use Midas X for CGH normalization:
1). Plot the histogram of the Log2 ratio data (Reference/Query) from the filtered .mev file, and identify the central peak containing oligos predicted to be shared by both the reference and query strains.
2). Fit a Gaussian curve to the central peak by 'tweaking' the log ratio mean and by shrinking or stretching the standard deviation of the curve to find the smallest least sum of squares difference.
3). Perform Log Mode Centering normalization on the channel that contains the query sample only (Either Cy3 or Cy5).
4). Output the normalized *.mev file.
5. Calculate the value of log2 ratio (Reference/Query) from the normalized .mev file:
1). If both channels (QUERY_MEDIAN_INTENSITY and REF_MEDIAN_INTENSITY) are zero, assign the value "null".
2). If one channel is zero and the other is not zero, substitute the zero with one (1) and then, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE
3). If neither channel is zero, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE.

label_protocol: 4ug of genomic DNA was labeled at 37 degree Celcius overnight using DNA polymerase I Klenow fragment (New England Biolabs), a 25X 2:1 amino allyl dUTP (Ambion) dNTP mix, and random hexamers (Invitrogen). Labeled DNA was purified with Qiaquick PCR purification kit (QIAGEN). The purified labelled DNA was then dye coupled with the appropriate cyanine dye (Cy3/Cy5).

extract_protocol: Epicentre MasterPure DNA Extraction Kit.

treatment_protocol: None.

organism: Bacillus anthracis str. Sterne

source_name: Sterne reference

value: Sterne


title: T3BQBC06182008A_3609_CY3_STERNE_CY5_13824013_B

description: T3BQBC06182008A_3609_CY3_STERNE_CY5_13824013_anno_sub_95th_MDS.mev.refIsMEDB.out

data_processing:
1. Use software suite TM4 (www.tm4.org) to analyze spotted arrays.
2. Use Spotfinder with background correction to compute the spot intensities of the hybridized arrays.
3. Perform the following filtering steps:
All PFGRC arrays used in this study have 3 types of spots.
(1). Species spot: oligos designed for the species under investigation.
(2). Reserved spot or control spot: oligos designed from Arabidopsis genes as controls.
(3). Empty spots: no oligos or any DNA.
Step 1: Identify the replicates.
Sort the .mev file from Spotfinder by oligo_id.
Step 2: Identify the outliers within each set of replicates for each channel.
Outliers are identified using the Sprents method (The Handbook of Parametric and Nonparametric Statistical Procedures, Third Edition by David J. Sheskin, PP 400-402).
|Xi - M|/MAD > Max
Xi = Each intensity value from the set of replicates.
M = Median intensity value from the set of replicates.
MAD = Median absolute deviation.
Max = the critical value that the result of the inequality must exceed in order to conclude that the Xi value is an outlier. The value of 5 was used for Max.
Step 3: Replace the outliers.
Replace the outliers by the value closest to them from the tail that they occur. For example, if the outlier identified is the highest value in channel A, that value will be replaced by the next highest value of its replicate set in channel A.
Step 4: Subtract the 95th percentile of the reserved spots.
Calculate the 95th percentile of all the reserved spots and subtract that value from all the species spots and reserved spots.
Step 5: Replace zero (0) by one (1).
After subtracting the 95th percentile of the reserved spots, if one of the channel intensities is less than zero (0), replace that value by one (1); If both channels become less than zero (0), set both channels to zero (0).
Step 6. Output the filtered .mev file.
4. Use Midas X for CGH normalization:
1). Plot the histogram of the Log2 ratio data (Reference/Query) from the filtered .mev file, and identify the central peak containing oligos predicted to be shared by both the reference and query strains.
2). Fit a Gaussian curve to the central peak by 'tweaking' the log ratio mean and by shrinking or stretching the standard deviation of the curve to find the smallest least sum of squares difference.
3). Perform Log Mode Centering normalization on the channel that contains the query sample only (Either Cy3 or Cy5).
4). Output the normalized *.mev file.
5. Calculate the value of log2 ratio (Reference/Query) from the normalized .mev file:
1). If both channels (QUERY_MEDIAN_INTENSITY and REF_MEDIAN_INTENSITY) are zero, assign the value "null".
2). If one channel is zero and the other is not zero, substitute the zero with one (1) and then, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE
3). If neither channel is zero, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE.

label_protocol: 4ug of genomic DNA was labeled at 37 degree Celcius overnight using DNA polymerase I Klenow fragment (New England Biolabs), a 25X 2:1 amino allyl dUTP (Ambion) dNTP mix, and random hexamers (Invitrogen). Labeled DNA was purified with the Qiaquick PCR purification kit (QIAGEN). The purified labelled DNA was then dye coupled with the appropriate cyanine dye (Cy3/Cy5).


title: T1QBC_AH817_Cy3_AMES_Cy5_84947

growth_protocol: Cells grown in Lysogeny broth (LB) at 37 degrees Celcius overnight


title: T1QBC_Vollum_Cy3_AMES_Cy5_84929

source_name: AMES

extract_protocol: Cells grown in Lysogeny broth (LB) at 37 degrees Celcius overnight.

source_name: Vollum

value: Vollum


title: T1QBC_AH816_Cy3_AMES_Cy5_84946


title: T3AQBC07302008_H9310_CY3_STERNE_CY5_13849007_B

description: T3AQBC07302008_H9310_CY3_STERNE_CY5_13849007_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3ABC01162008A_C1617_CY3_STERNE_CY5_13762185_B

description: T3ABC01162008A_C1617_CY3_STERNE_CY5_13762185_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3584_CY3_STERNE_CY5_13824037_B

description: T3BQBC06182008A_3584_CY3_STERNE_CY5_13824037_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3590_CY3_STERNE_CY5_13824070_B

description: T3BQBC06182008A_3590_CY3_STERNE_CY5_13824070_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_TsianI_Cy3_AMES_Cy5_43020

source_name: TsianI

value: TsianI


title: T3AQBC09112007_F663_Cy3_STERNE_CY5_104026_B

description: T3AQBC09112007_F663_Cy3_STERNE_CY5_104026_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_Sterne_Cy3_AMES_Cy5_84927

source_name: Sterne


title: T3BQBC06182008A_3588_CY3_STERNE_CY5_13824068_B

description: T3BQBC06182008A_3588_CY3_STERNE_CY5_13824068_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH815_Cy3_AMES_Cy5_84945


title: T3BQBC01142008_6047_CY5_STERNE_CY3_13759299_A

description: T3BQBC01142008_6047_CY5_STERNE_CY3_13759299_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3ABC01162008A_C3276_CY3_STERNE_CY5_13762122_B

description: T3ABC01162008A_C3276_CY3_STERNE_CY5_13762122_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3532_CY3_STERNE_CY5_13824011_B

description: T3BQBC06182008A_3532_CY3_STERNE_CY5_13824011_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_Pasteur_Cy3_AMES_Cy5_84928

source_name: Pasteur

value: Pasteur


title: T3BQBC06182008A_3491_CY3_STERNE_CY5_13824062_B

description: T3BQBC06182008A_3491_CY3_STERNE_CY5_13824062_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3488_CY3_STERNE_CY5_13824061_B

description: T3BQBC06182008A_3488_CY3_STERNE_CY5_13824061_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3471_CY3_STERNE_CY5_13824086_B

description: T3BQBC06182008A_3471_CY3_STERNE_CY5_13824086_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07302008_F3920_CY3_STERNE_CY5_13849010_B

description: T3AQBC07302008_F3920_CY3_STERNE_CY5_13849010_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_Aussie_Cy3_AMES_Cy5_84926

source_name: Aussie

value: Aussie


title: T3BQBC06182008A_3585_CY3_STERNE_CY5_13824087_B

description: T3BQBC06182008A_3585_CY3_STERNE_CY5_13824087_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3529_CY3_STERNE_CY5_13824028_B

description: T3BQBC06182008A_3529_CY3_STERNE_CY5_13824028_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3461_CY3_STERNE_CY5_13824081_B

description: T3BQBC06182008A_3461_CY3_STERNE_CY5_13824081_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC08152007_2002734418_Cy3_STERNE_CY5_108056_B

description: T3AQBC08152007_2002734418_Cy3_STERNE_CY5_108056_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3432_CY3_STERNE_CY5_13823993_B

description: T3BQBC06182008A_3432_CY3_STERNE_CY5_13823993_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_BC10987_Cy3_AMES_Cy5_43099


title: T3BQBC06182008A_3594_CY3_STERNE_CY5_13824045_B

description: T3BQBC06182008A_3594_CY3_STERNE_CY5_13824045_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH601_Cy3_AMES_Cy5_43093


title: T3BQBC06182008A_3441_CY3_STERNE_CY5_13824015_B

description: T3BQBC06182008A_3441_CY3_STERNE_CY5_13824015_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3428_CY3_STERNE_CY5_13824046_B

description: T3BQBC06182008A_3428_CY3_STERNE_CY5_13824046_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH831_Cy3_AMES_Cy5_43097


title: T3BQBC06182008A_3438_CY3_STERNE_CY5_13824019_B

description: T3BQBC06182008A_3438_CY3_STERNE_CY5_13824019_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH814_Cy3_AMES_Cy5_43084


title: T3AQBC08152007_2003_I_1253_Cy3_STERNE_CY5_108143_B

description: T3AQBC08152007_2003_I_1253_Cy3_STERNE_CY5_108143_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3410_CY3_STERNE_CY5_13846915_B

description: T3BQBC06182008A_3410_CY3_STERNE_CY5_13846915_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07302008_2002734726_CY3_STERNE_CY5_13849014_B

description: T3AQBC07302008_2002734726_CY3_STERNE_CY5_13849014_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC08152007_2002734893_Cy3_STERNE_CY5_108118_B

description: T3AQBC08152007_2002734893_Cy3_STERNE_CY5_108118_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3401_CY3_STERNE_CY5_13824033_B

description: T3BQBC06182008A_3401_CY3_STERNE_CY5_13824033_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3399_CY3_STERNE_CY5_13824038_B

description: T3BQBC06182008A_3399_CY3_STERNE_CY5_13824038_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3409_CY3_STERNE_CY5_13823992_B

description: T3BQBC06182008A_3409_CY3_STERNE_CY5_13823992_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3397_CY3_STERNE_CY5_13824067_B

description: T3BQBC06182008A_3397_CY3_STERNE_CY5_13824067_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC08152007_579_Cy3_STERNE_CY5_108073_B

description: T3AQBC08152007_579_Cy3_STERNE_CY5_108073_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH830_Cy3_AMES_Cy5_84930


title: T1QBC_AH813_Cy3_AMES_Cy5_124101


title: T3BQBC06182008A_3407_CY3_STERNE_CY5_13824085_B

description: T3BQBC06182008A_3407_CY3_STERNE_CY5_13824085_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3647_CY3_STERNE_CY5_13824075_B

description: T3BQBC06182008A_3647_CY3_STERNE_CY5_13824075_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH828_Cy3_AMES_Cy5_84934


title: T3AQBC08152007_525_Cy3_STERNE_CY5_108075_B

description: T3AQBC08152007_525_Cy3_STERNE_CY5_108075_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH826_Cy3_AMES_Cy5_84931


title: T1QBC_AH811_Cy3_AMES_Cy5_43082


title: T3BQBC06182008A_3651_CY3_STERNE_CY5_13824089_B

description: T3BQBC06182008A_3651_CY3_STERNE_CY5_13824089_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3664_CY3_STERNE_CY5_13824079_B

description: T3BQBC06182008A_3664_CY3_STERNE_CY5_13824079_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH827_Cy3_AMES_Cy5_84933


title: T3BQBC06182008A_3663_CY3_STERNE_CY5_13823995_B

description: T3BQBC06182008A_3663_CY3_STERNE_CY5_13823995_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07302008_03BB102_CY3_STERNE_CY5_13849012_B

description: T3AQBC07302008_03BB102_CY3_STERNE_CY5_13849012_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3656_CY3_STERNE_CY5_13824065_B

description: T3BQBC06182008A_3656_CY3_STERNE_CY5_13824065_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07302008_03BB108_CY3_STERNE_CY5_13849013_B

description: T3AQBC07302008_03BB108_CY3_STERNE_CY5_13849013_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC08152007_264_Cy3_STERNE_CY5_108144_B

description: T3AQBC08152007_264_Cy3_STERNE_CY5_108144_anno_sub_95th_MDS.mev.refIsMEDB


title: T3BQBC06182008A_3665_CY3_STERNE_CY5_13824073_B

description: T3BQBC06182008A_3665_CY3_STERNE_CY5_13824073_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07302008_03BB87_CY3_STERNE_CY5_13849011_B

description: T3AQBC07302008_03BB87_CY3_STERNE_CY5_13849011_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH810_Cy3_AMES_Cy5_43081


title: T3BQBC06182008A_3705_CY3_STERNE_CY5_13824057_B

description: T3BQBC06182008A_3705_CY3_STERNE_CY5_13824057_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3674_CY3_STERNE_CY5_13824055_B

description: T3BQBC06182008A_3674_CY3_STERNE_CY5_13824055_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3703_CY3_STERNE_CY5_13824056_B

description: T3BQBC06182008A_3703_CY3_STERNE_CY5_13824056_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01142008A_G9842_CY3_STERNE_CY5_13734707_B

description: T3AQBC01142008A_G9842_CY3_STERNE_CY5_13734707_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3709_CY3_STERNE_CY5_13823996_B

description: T3BQBC06182008A_3709_CY3_STERNE_CY5_13823996_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH825_Cy3_AMES_Cy5_84932


title: T3BQBC06182008A_3711_CY3_STERNE_CY5_13824058_B

description: T3BQBC06182008A_3711_CY3_STERNE_CY5_13824058_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC03102008_Tsiankoffski_CY3_STERNE_CY5_13786927_B

description: T3AQBC03102008_Tsiankoffski_CY3_STERNE_CY5_13786927_anno_sub_95th_MDS.mev.refIsMEDB.out

source_name: Tsiankoffski

value: Tsiankoffski


title: T1QBC_AH823_Cy3_AMES_Cy5_84949


title: T3BQBC06182008A_3677_CY3_STERNE_CY5_13824047_B

description: T3BQBC06182008A_3677_CY3_STERNE_CY5_13824047_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC03102008_Vollum_CY3_STERNE_CY5_13786923_B

description: T3AQBC03102008_Vollum_CY3_STERNE_CY5_13786923_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3745_CY3_STERNE_CY5_13824069_B

description: T3BQBC06182008A_3745_CY3_STERNE_CY5_13824069_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3748_CY3_STERNE_CY5_13824071_B

description: T3BQBC06182008A_3748_CY3_STERNE_CY5_13824071_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3732_CY3_STERNE_CY5_13823957_B

description: T3BQBC06182008A_3732_CY3_STERNE_CY5_13823957_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC03102008_Aussie_CY3_STERNE_CY5_13786925_B

description: T3AQBC03102008_Aussie_CY3_STERNE_CY5_13786925_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3366_CY3_STERNE_CY5_13824064_B

description: T3BQBC06182008A_3366_CY3_STERNE_CY5_13824064_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC03102008_Amesdelta_Cy3_STERNE_Cy5_13786918_B

description: T3AQBC03102008_Amesdelta_Cy3_STERNE_Cy5_13786918_anno_sub_95th_MDS.mev.refIsMEDB.out

source_name: Amesdelta

value: Amesdelta


title: T1QBC_AH608_Cy3_AMES_Cy5_43085


title: T1QBC_AH603_Cy3_AMES_Cy5_43080


title: T3BQBC06182008A_3754_CY3_STERNE_CY5_13824029_B

description: T3BQBC06182008A_3754_CY3_STERNE_CY5_13824029_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3753_CY3_STERNE_CY5_13824042_B

description: T3BQBC06182008A_3753_CY3_STERNE_CY5_13824042_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3751_CY3_STERNE_CY5_13824088_B

description: T3BQBC06182008A_3751_CY3_STERNE_CY5_13824088_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3755_CY3_STERNE_CY5_13824025_B

description: T3BQBC06182008A_3755_CY3_STERNE_CY5_13824025_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH820_Cy5_43022


title: T1QBC_AH604_Cy3_AMES_Cy5_124106


title: T3AQBC08152007_D4214_Cy3_STERNE_CY5_108122_B

description: T3AQBC08152007_D4214_Cy3_STERNE_CY5_108122_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3ABC01162008_G9842_CY3_STERNE_CY5_13762136_B

description: T3ABC01162008_G9842_CY3_STERNE_CY5_13762136_anno_sub_95th_MDS.mev.refIsMEDB.out

organism: Bacillus cereus G9842


title: T3BQBC06182008A_3756_CY3_STERNE_CY5_13824023_B

description: T3BQBC06182008A_3756_CY3_STERNE_CY5_13824023_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC03102008_Pasteur_CY3_STERNE_CY5_13786921_B

description: T3AQBC03102008_Pasteur_CY3_STERNE_CY5_13786921_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_F667_CY3_STERNE_CY5_13734780_B

description: T3AQBC01222008A_F667_CY3_STERNE_CY5_13734780_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_F666_CY3_STERNE_CY5_13734686_B

description: T3AQBC01222008A_F666_CY3_STERNE_CY5_13734686_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3660_CY3_STERNE_CY5_13824084_B

description: T3BQBC06182008A_3660_CY3_STERNE_CY5_13824084_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3764_CY3_STERNE_CY5_13824014_B

description: T3BQBC06182008A_3764_CY3_STERNE_CY5_13824014_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_H2573_97_CY3_STERNE_CY5_13734703_B

description: T3AQBC01222008A_H2573_97_CY3_STERNE_CY5_13734703_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3ABC01162008_G3317_CY3_STERNE_CY5_13762140_B

description: T3ABC01162008_G3317_CY3_STERNE_CY5_13762140_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3362_CY3_STERNE_CY5_13824083_B

description: T3BQBC06182008A_3362_CY3_STERNE_CY5_13824083_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3756_CY5_STERNE_CY3_13823961_A

description: T3BQBC06182008A_3756_CY5_STERNE_CY3_13823961_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH816_Cy5_84941


title: T3BQBC06182008A_3749_CY3_STERNE_CY5_13824050_B

description: T3BQBC06182008A_3749_CY3_STERNE_CY5_13824050_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH817_Cy5_84940


title: T3BQBC06182008A_3757_CY3_STERNE_CY5_13824020_B

description: T3BQBC06182008A_3757_CY3_STERNE_CY5_13824020_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3755_CY5_STERNE_CY3_13823965_A

description: T3BQBC06182008A_3755_CY5_STERNE_CY3_13823965_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01222008A_F439_CY3_STERNE_CY5_13734705_B

description: T3AQBC01222008A_F439_CY3_STERNE_CY5_13734705_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_F665_CY3_STERNE_CY5_13734695_B

description: T3AQBC01222008A_F665_CY3_STERNE_CY5_13734695_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3634_CY5_STERNE_CY3_13823966_A

description: T3BQBC06182008A_3634_CY5_STERNE_CY3_13823966_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06212008A_3476_CY5_STERNE_CY3_13823959_A

description: T3BQBC06212008A_3476_CY5_STERNE_CY3_13823959_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06182008A_3708_CY5_STERNE_CY3_13823967_A

description: T3BQBC06182008A_3708_CY5_STERNE_CY3_13823967_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06182008A_3716_CY5_STERNE_CY3_13823968_A

description: T3BQBC06182008A_3716_CY5_STERNE_CY3_13823968_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH815_Cy5_84942


title: T1QBC_AMES_Cy3_Vollum_Cy5_43018


title: T1QBC_AMES_Cy3_AH814_Cy5_84950


title: T3BQBC06182008A_3532_CY5_STERNE_CY3_13823963_A

description: T3BQBC06182008A_3532_CY5_STERNE_CY3_13823963_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01222008A_F438_CY3_STERNE_CY5_13734760_B

description: T3AQBC01222008A_F438_CY3_STERNE_CY5_13734760_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3361_CY3_STERNE_CY5_13824041_B

description: T3BQBC06182008A_3361_CY3_STERNE_CY5_13824041_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3529_CY5_STERNE_CY3_13823964_A

description: T3BQBC06182008A_3529_CY5_STERNE_CY3_13823964_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01222008A_F4976_CY3_STERNE_CY5_13734755_B

description: T3AQBC01222008A_F4976_CY3_STERNE_CY5_13734755_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3356_CY3_STERNE_CY5_13824036_B

description: T3BQBC06182008A_3356_CY3_STERNE_CY5_13824036_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3488_CY5_STERNE_CY3_13823962_A

description: T3BQBC06182008A_3488_CY5_STERNE_CY3_13823962_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06182008A_3357_CY3_STERNE_CY5_13824049_B

description: T3BQBC06182008A_3357_CY3_STERNE_CY5_13824049_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_3297_CY3_STERNE_CY5_13734717_B

description: T3AQBC01222008A_3297_CY3_STERNE_CY5_13734717_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_TsianI_Cy5_43017


title: T3BQBC06182008A_3360_CY3_STERNE_CY5_13824063_B

description: T3BQBC06182008A_3360_CY3_STERNE_CY5_13824063_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_1952_CY3_STERNE_CY5_13734696_B

description: T3AQBC01222008A_1952_CY3_STERNE_CY5_13734696_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3358_CY3_STERNE_CY5_13824080_B

description: T3BQBC06182008A_3358_CY3_STERNE_CY5_13824080_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3440_CY5_STERNE_CY3_13813632_A

description: T3BQBC06162008A_3440_CY5_STERNE_CY3_13813632_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06182008A_3406_CY5_STERNE_CY3_13823958_A

description: T3BQBC06182008A_3406_CY5_STERNE_CY3_13823958_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_Sterne_Cy5_43023


title: T3AQBC01222008A_B5780_CY3_STERNE_CY5_13734731_B

description: T3AQBC01222008A_B5780_CY3_STERNE_CY5_13734731_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3732_CY5_STERNE_CY3_13823970_A

description: T3BQBC06182008A_3732_CY5_STERNE_CY3_13823970_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06182008A_3354_CY3_STERNE_CY5_13824034_B

description: T3BQBC06182008A_3354_CY3_STERNE_CY5_13824034_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH813_Cy5_124105


title: T3BQBC06162008A_3474_CY5_STERNE_CY3_13813633_A

description: T3BQBC06162008A_3474_CY5_STERNE_CY3_13813633_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AH404_Cy3_AMES_Cy5_124102

description: None.


title: T3BQBC06182008A_3353_CY3_STERNE_CY5_13824035_B

description: T3BQBC06182008A_3353_CY3_STERNE_CY5_13824035_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_579_CY3_STERNE_CY5_1374791_B

description: T3AQBC01222008A_579_CY3_STERNE_CY5_1374791_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3396_CY5_STERNE_CY3_13813638_A

description: T3BQBC06162008A_3396_CY5_STERNE_CY3_13813638_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_Pasteur_Cy5_43024


title: T3AQBC01222008A_262_CY3_STERNE_CY5_13734689_B

description: T3AQBC01222008A_262_CY3_STERNE_CY5_13734689_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AH648_Cy3_AMES_Cy5_124107


title: T3AQBC01222008_F65185_CY3_STERNE_CY5_13734745_B

description: T3AQBC01222008_F65185_CY3_STERNE_CY5_13734745_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_BC10987_Cy5_43100


title: T1QBC_AMES_Cy3_AH811_Cy5_43079


title: T3BQBC06182008A_3242_CY3_STERNE_CY5_13824059_B

description: T3BQBC06182008A_3242_CY3_STERNE_CY5_13824059_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01222008A_03BR1283_CY3_STERNE_CY5_13734702_B

description: T3AQBC01222008A_03BR1283_CY3_STERNE_CY5_13734702_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3340_CY3_STERNE_CY5_13824066_B

description: T3BQBC06182008A_3340_CY3_STERNE_CY5_13824066_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_Aussie_Cy5_43025


title: T3BQBC06182008A_3248_CY3_STERNE_CY5_13824060_B

description: T3BQBC06182008A_3248_CY3_STERNE_CY5_13824060_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01162008A_F9930_CY3_STERNE_CY5_13765234_B

description: T3AQBC01162008A_F9930_CY3_STERNE_CY5_13765234_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3293_CY3_STERNE_CY5_13824018_B

description: T3BQBC06182008A_3293_CY3_STERNE_CY5_13824018_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH818_Cy5_84943


title: T3bQBC06162008A_3293_CY5_STERNE_CY3_13813636_A

description: T3bQBC06162008A_3293_CY5_STERNE_CY3_13813636_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06182008A_3243_CY3_STERNE_CY5_13824032_B

description: T3BQBC06182008A_3243_CY3_STERNE_CY5_13824032_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3159_CY3_STERNE_CY5_13824051_B

description: T3BQBC06182008A_3159_CY3_STERNE_CY5_13824051_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06182008A_3161_CY3_STERNE_CY5_13824052_B

description: T3BQBC06182008A_3161_CY3_STERNE_CY5_13824052_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH602_Cy5_43090

description: None.


title: T3AQBC01162008A_F5157_CY3_STERNE_CY5_13765220_B

description: T3AQBC01162008A_F5157_CY3_STERNE_CY5_13765220_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH831_Cy5_43098


title: T1QBC_AMES_Cy3_AH601_Cy5_43089

description: None.


title: T3BQBC06182008A_3156_CY3_STERNE_CY5_13824082_B

description: T3BQBC06182008A_3156_CY3_STERNE_CY5_13824082_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3390_CY5_STERNE_CY3_13813637_A

description: T3BQBC06162008A_3390_CY5_STERNE_CY3_13813637_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3BQBC06182008A_3157_CY3_STERNE_CY5_13823997_B

description: T3BQBC06182008A_3157_CY3_STERNE_CY5_13823997_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3248_CY5_STERNE_CY3_13813639_A

description: T3BQBC06162008A_3248_CY5_STERNE_CY3_13813639_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_80700019_Cy3_STERNE_Cy5_13765237_B

description: T3AQBC01162008A_80700019_Cy3_STERNE_Cy5_13765237_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3474_CY3_STERNE_CY5_13813622_B

description: T3BQBC06162008A_3474_CY3_STERNE_CY5_13813622_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH830_Cy5_84939


title: T3AQBC01162008A_F5191_CY3_STERNE_CY5_13765244_B

description: T3AQBC01162008A_F5191_CY3_STERNE_CY5_13765244_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3708_CY3_STERNE_CY5_13813629_B

description: T3BQBC06162008A_3708_CY3_STERNE_CY5_13813629_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3716_CY3_STERNE_CY5_13813627_B

description: T3BQBC06162008A_3716_CY3_STERNE_CY5_13813627_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH828_Cy5_84935


title: T3BQBC06162008A_3467_CY3_STERNE_CY5_13813626_B

description: T3BQBC06162008A_3467_CY3_STERNE_CY5_13813626_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3476_CY3_STERNE_CY5_13813623_B

description: T3BQBC06162008A_3476_CY3_STERNE_CY5_13813623_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01162008A_525_Cy3_STERNE_Cy5_13765228_B

description: T3AQBC01162008A_525_Cy3_STERNE_Cy5_13765228_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01162008A_6047_CY3_STERNE_CY5_13762195_B

description: T3AQBC01162008A_6047_CY3_STERNE_CY5_13762195_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3462_CY3_STERNE_CY5_13813614_B

description: T3BQBC06162008A_3462_CY3_STERNE_CY5_13813614_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC01162008A_264_Cy3_STERNE_Cy5_13765242_B

description: T3AQBC01162008A_264_Cy3_STERNE_Cy5_13765242_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH810_Cy5_43078


title: T3BQBC06162008A_3451_CY3_STERNE_CY5_13813631_B

description: T3BQBC06162008A_3451_CY3_STERNE_CY5_13813631_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3443_CY3_STERNE_CY5_13813628_B

description: T3BQBC06162008A_3443_CY3_STERNE_CY5_13813628_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3440_CY3_STERNE_CY5_13813625_B

description: T3BQBC06162008A_3440_CY3_STERNE_CY5_13813625_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3383_CY3_STERNE_CY5_13813615_B

description: T3BQBC06162008A_3383_CY3_STERNE_CY5_13813615_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3400_CY3_STERNE_CY5_13813624_B

description: T3BQBC06162008A_3400_CY3_STERNE_CY5_13813624_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3390_CY3_STERNE_CY5_13813621_B

description: T3BQBC06162008A_3390_CY3_STERNE_CY5_13813621_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3BQBC06162008A_3396_CY3_STERNE_CY5_13813617_B

description: T3BQBC06162008A_3396_CY3_STERNE_CY5_13813617_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH599_Cy5_43088

description: None.


title: T3BQBC06162008A_3406_CY3_STERNE_CY5_13813619_B

description: T3BQBC06162008A_3406_CY3_STERNE_CY5_13813619_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07302008A_C1785_CY5_STERNE_CY3_13849025_A

description: T3AQBC07302008A_C1785_CY5_STERNE_CY3_13849025_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH827_Cy5_84936


title: T3BQBC06162008A_3384_CY3_STERNE_CY5_13813616_B

description: T3BQBC06162008A_3384_CY3_STERNE_CY5_13813616_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma V90

city: PARIS

first: Gaelle

last: PIERRON

address: 26, rue d'ULM

country: France

institute: INSTITUT CURIE

description: the same reference sample is used for all experiments

hyb_protocol: The aCGH slide was previously preblocked with a buffer containing 2.6mg succinic anhydride/118ml N-methyl-2-pyrrolidinone/32ml sodium tetraborate decahydrate, pH 8.0 (Sigma-Aldrich, Lyon, France).

scan_protocol: After washing, arrays were scanned using a 4000B scan (Axon, Union City, CA). Image analysis was performed first with Genepix software (Axon) (firstly with version 5.1 and then with the 6.0.1.27 when it was available)  and ratios of Cy5/Cy3 signals were determined.

data_processing: Background subtracted data obtained from log2 of processed Red signal/processed Green signa values generated by the MANOR algorithm  (Neuvial P. et al, 2006), and missing data were interpolated within each array.

organism: Homo sapiens

source_name: Tumoral DNA

label_protocol: After digestion with DPNII (Ozyme, Saint Quentin en Yvelines, France) and column purification (Qiaquick PCR purification kit; Qiagen, Courtaboeuf, France), tumor DNAs were labeled by the random priming method (Bioprime DNA labelling system; Invitrogen, Cergy-Pontoise, France) with cyanine-5 (Perkin-Elmer, Wellesley, MA). Using the same procedure, we labeled control DNAs with cyanine-3. After ethanol-coprecipitation with 210g of Human Cot-1 DNA (Invitrogen, Cergy-Pontoise, France), resuspension in hybridization buffer (50% formamide), denaturation at 95°C for 10 minutes and prehybridization at 37°C for 90 minutes, probes were cohybridized on aCGH.

extract_protocol: DNAs were extracted from frozen tumors using either the cesium chloride protocol (Chirgwin JM. Et al. 1979, Coombs LM. et al 1990) (for Samples A01 to A62 and B01 to B28) or a standard phenol-chlorofom procedure with separation of the aqueous and organic phases on Phase Lock GelTM following manufacturer’s instructions (for samples V01 to V91).

treatment_protocol: Samples of of primary infiltrating ductal breast carcinomas were flash frozen and stored at –80°C. All tumor samples contained >50% cancer cells

tag: gender

value: female

tag: age

tag: pn

value: III

value: N

value: yes

tag: adjuvant hormonotherapy

value: no

tag: adjuvant chemotherapy

tag: tumor cellularity

tag: set

value: validation

tag: group

value: B

value: HR

source_name: Normal reference DNA

value: male


title: Ductal Breast Carcinoma V91

value: I

value: P

value: LR


title: T1QBC_AMES_Cy3_AH648_Cy5_124531

value: Ames


title: T3AQBC07302008A_C1783_CY5_STERNE_CY3_13849024_A

description: T3AQBC07302008A_C1783_CY5_STERNE_CY3_13849024_anno_sub_95th_MDS.mev.refIsMEDA.out

value: Sterne


title: T1QBC_AMES_Cy3_AH597_Cy5_43086

description: None.


title: Ductal Breast Carcinoma V87


title: Ductal Breast Carcinoma V88

value: II


title: T3AQBC01162008A_04S00334_CY3_STERNE_CY5_13759058_B

description: T3AQBC01162008A_04S00334_CY3_STERNE_CY5_13759058_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T1QBC_AMES_Cy3_AH598_Cy5_43087

description: None.


title: Ductal Breast Carcinoma V89


title: T3AQBC07302008_H9312_CY5_STERNE_CY3_13849004_A

description: T3AQBC07302008_H9312_CY5_STERNE_CY3_13849004_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC07302008A_C1784_CY5_STERNE_CY3_13849022_A

description: T3AQBC07302008A_C1784_CY5_STERNE_CY3_13849022_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH608_Cy5_43076


title: Ductal Breast Carcinoma V84


title: T3AQBC07302008_H9310_CY5_STERNE_CY3_13849002_A

description: T3AQBC07302008_H9310_CY5_STERNE_CY3_13849002_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V85


title: Ductal Breast Carcinoma V86


title: T3AQBC07302008_H9311_CY5_STERNE_CY3_13849003_A

description: T3AQBC07302008_H9311_CY5_STERNE_CY3_13849003_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH826_Cy5_84937


title: T3AQBC07302008_F3920_CY5_STERNE_CY3_13849005_A

description: T3AQBC07302008_F3920_CY5_STERNE_CY3_13849005_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V81


title: Ductal Breast Carcinoma V80


title: T1QBC_AMES_Cy3_AH568_Cy5_124030

description: None.


title: T1QBC_AMES_Cy3_AH564_Cy5_124050

description: None.


title: Ductal Breast Carcinoma V79


title: Ductal Breast Carcinoma V83


title: Ductal Breast Carcinoma V82


title: T3AQBC07302008_2002734726_CY5_STERNE_CY3_13849018_A

description: T3AQBC07302008_2002734726_CY5_STERNE_CY3_13849018_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC07302008_03BB108_CY5_STERNE_CY3_13849017_A

description: T3AQBC07302008_03BB108_CY5_STERNE_CY3_13849017_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V78


title: Ductal Breast Carcinoma V77

value: No event

value: A


title: T1QBC_AMES_Cy3_AH823_Cy5_84944


title: T3AQBC07302008_03BB87_CY5_STERNE_CY3_13849015_A

description: T3AQBC07302008_03BB87_CY5_STERNE_CY3_13849015_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_G9844_CY5_STERNE_CY3_13762181_A

description: T3AQBC01162008A_G9844_CY5_STERNE_CY3_13762181_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC07302008_03BB102_CY5_STERNE_CY3_13849016_A

description: T3AQBC07302008_03BB102_CY5_STERNE_CY3_13849016_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH540_Cy5_123644

description: None.


title: T1QBC_AMES_Cy3_AH557_Cy5_124395

description: None.


title: Ductal Breast Carcinoma V76

value: female


title: T1QBC_AMES_Cy3_AH604_Cy5_124526


title: Ductal Breast Carcinoma V75


title: T1QBC_AMES_Cy3_AH533_Cy5_124396

description: None.


title: T3AQBC12092007A_H1449_CY5_STERNE_CY3_13756725_A

description: T3AQBC12092007A_H1449_CY5_STERNE_CY3_13756725_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC12092007A_H1548_Cy5_STERNE_CY3_13756720_A

description: T3AQBC12092007A_H1548_Cy5_STERNE_CY3_13756720_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH407_Cy5_124390

description: None.


title: T3AQBC12092007A_H1448_CY5_STERNE_CY3_13756726_A

description: T3AQBC12092007A_H1448_CY5_STERNE_CY3_13756726_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V73


title: Ductal Breast Carcinoma V71


title: Ductal Breast Carcinoma V74

value: III


title: T1QBC_AMES_Cy3_AH603_Cy5_43077


title: Ductal Breast Carcinoma V72

value: N


title: T1QBC_AMES_Cy3_AH405_Cy5_124404

description: None.

hyb_protocol: Aminosaline coated slides were prehybridized in 5x SSC (1x SSC is 0.15 M NaCl plus 0.015 M sodium citrate) (Invitrogen), 0.1% sodium dodecyl sulfate, and 1% bovine serum albumin at 42 degree Celcius for 45 min.  The slides then were washed at room temperature with distilled water, dipped in isopropanol, and spun dry.  Equal concentrations of DNA probe from the appropriate Cy3 and Cy5 labeled probes were combined, dried and then resuspended in a solution of 50% formamide, 5x SSC, and 0.1% sodium dodecyl sulfate.  Resuspended probes were denatured at 95 degree Celcius prior to hybridization.  The probe mixture then was added to the microarray slide and allowed to hybridize overnight at 42 degree Celcius.   Hybridized slides were washed sequentially in solutions of 1x SSC-0.2% SDS, 0.1x SSC-0.2% SDS, and 0.1x SSC at room temperature.

treatment_protocol: None,


title: T3AQBC12092007A_G9898_Cy5_STERNE_Cy3_13756731_A

description: T3AQBC12092007A_G9898_Cy5_STERNE_Cy3_13756731_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Egde t=0 - Egde t=60 (serie C)  (P)

type: RNA

city: Wageningen

first: Stijn

last: van der Veen

address: Bomenweg 2

department: ATV

country: Netherlands

institute: Wageningen University

description: Egde t=0 - Egde t=60 (serie C)  (P)

hyb_protocol: Two individual differentially labeled cDNAs were incubated at 95° C for 3' cooled down to 68° C and mixed (final-volume 20 µl). To these mixed cDNAs 180 µl of pre-heated (68° C) Slidehyb#1 hybridization buffer (Ambion Austin USA) was added and the resulting solution was applied on a pre-heated slide (68° C). Slides were then hybridized at 44° C for 16 hours. Subsequently slides were washed at 42°C once in 1 x SSC/0.2% SDS and twice in 1 x SSC and dried by centrifugation (1 x SSC is 0.15 M NaCl and 0.15 M Sodium Citrate).

scan_protocol: Using the Scan Array Express microarray scanner. 1.Turn on the scanner and the computer (in this order) 2.Login: scanner 3.Double click the 'ScanArray Express' icon 4.Switch on lasers 1 and 3 at least 15 minutes prior to scanning arrays 5.Click the 'File' button This is to prevent you from accidentally turning off the laser after the 15 minutes warming-up phase 6.Insert the slide with the array-side up and the label towards the outside. On Agilent slides the array side is the side with the label that has the word Agilent"" on it 7.Press 'Scan | Prescan' 8.Put resolution at 50 m select both labels used and set PMT values for both channels 9.Press 'Start' 10.Press 'Palette ' 'Green' as soon as projection of the image has started (first dye) select the red colour as soon as scanning of the second layer (second dye) has started 11.Adjust PMT values to balance signals obtained for both channels. If necessary do a few low-resolution scans to obtain a optimal balance 12.Click the 'Scan' button again 13.Select frame for high resolution scan adjust resolution (to 10 m) and scan the array for both dyes 14.Press 'File | Save' to save the files 'Save all' saves both dye layers ," Create a new folder for each array 'Save all' saves the signals from both layers in individual files 15.Switch off the lasers

data_processing: 1.-Used script to split 10-array imagene file of cy3 intensity into 10 separate cy3 files. 2.-Used script to split 10-array imagene file of cy5 intensity into 10 separate cy5 files. 3.-For each indidivual array a merge file was produced consisting of merging the cy3 and cy5 intensity files created in step 1 and 2. The merged file is provided as supplementary file for each array. 4.-Background correction (Mean values)

molecule: total RNA

organism: Listeria monocytogenes EGD-e

source_name: Wt T=0 series C

label_protocol: Annealing Mix x µl RNA preparation (=5µg) y µl nuclease-free water 1 µl Random Nonamers 11 µl TOTAL 1. mix Annealing Mix in a 200 µl PCR tube gently by pipetting up and down 2. incubate for 5’ 70°C 3. cool at room temperature for 10’ (annealing) 4. spin down the mixture to the bottom of the tube 5. place on ice Reverse transcription Reverse Transcription Mix 4 µl 5x buffer 2 µl 0.1 M DTT 1 µl dNTP-mix 1 µl AA-dUTP 1 µl TMIII (keep only briefly outside 20°C) 20 µl TOTAL 1. Mix by very gently by pipetting up and down (vigorous pipetting will denature the enzyme!) 2. Incubate for 3 hrs at 42°C (in PCR-machine) 3. Cool on ice for immediate purification or place at 20°C for storage Degradation of mRNA 1. Add 2 µl 2 5 M NaOH 2. Mix (vortex) and spin down 3. Incubate for 15 min. at 37°C 4. Add 10 µl 2 M HEPES free acid 5. Mix (vortex) and spin down 6. Ready for purification or store at 20°C Labelling and purification of cDNA with cyanine dyes Followed Ge Healthcare kit Amersham CyDye (Cy3/Cy5)Reactive Dye Protocols for Post Labelling Aminoallyl-cDNA and Aminoallyl-aRNA"" code RPN5661 Labelling of amino allyl-modified cDNA with CyDye 1. Add the amino allyl modified cDNA (in 0.1 M sodium bicarbonate) directly into one aliquot of CyDye NHS Ester. Resuspend the ester completely by pipetting several times and transfer the solution to an amber 1.5 ml tube 2. Incubate at room temperature in the dark for 60 to 90 minutes 3. Add 15 µl 4 M Hydroxylamine to each coupling reaction 4. Mix by stirring and incubate at room temperature in the dark for 15 minutes 5. Proceed directly to purification of Cy Dye-labeled cDNA.

extract_protocol: In three independent experiments, cultures of the wild-type and recA mutant strain were grown in 50 ml BHI broth (250 ml conical flasks, 37 ºC, 200 rpm,) until an absorbance (OD600) of approximately 0.5 was obtained. At that moment 1 mM MMC (Sigma) was added to the cultures. Ten ml samples were taken before exposure to MMC and one hour afterwards, and dissolved in 20 ml RNAprotect (Qiagen). The mixtures were incubated for 5 min at room temperature, centrifuged for 10 min at 4300 rpm (Heraeus type megafuse 1.0R), and the pellets were stored at -80 ºC. The cell pellets were washed in 400 µl SET buffer (50 mM NaCl [Sigma], 5 mM EDTA [Sigma], and 30 mM Tris-HCl [pH 7.0; Sigma]) containing 10 % sodium dodecyl sulfate (Sigma) and treated for 30 min at 37 ºC in a shaker (350 rpm; Eppendorf Thermomixer Comfort) with 200 µl 50 mM Tris-HCl (pH 6.5) containing 50 mg/ml lysozyme (Merck), 2 mg/ml Proteinase K (Ambion), 2.5 U/ml mutanolysin (Ambion), and 4 U/ml SUPERase (Ambion). Total RNA was extracted using the RNeasy mini kit (Qiagen) with an on column DNase treatment according to the manufacturer’s protocol. The quality of the RNA was analyzed on a 2100 Bioanalyzer (Agilent Technologies) and quantified on a ND-1000 spectrophotometer (NanoDrop Technologies).

tag: Wt before MMC exposure (series C)

source_name: Wt T=60 series C

tag: Wt after MMC exposure (series C)


title: T3AQBC12092007A_C1617_Cy5_STERNE_CY3_13746857_A

description: T3AQBC12092007A_C1617_Cy5_STERNE_CY3_13746857_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC12092007A_G9843_CY5_STERNE_CY3_13756729_A

description: T3AQBC12092007A_G9843_CY5_STERNE_CY3_13756729_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T1QBC_AMES_Cy3_AH404_Cy5_124533

description: None.


title: T3AQBC12092007A_B4266_CY5_STERNE_CY3_13746856_A

description: T3AQBC12092007A_B4266_CY5_STERNE_CY3_13746856_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V69

description: the same reference sample is used for all experiments

value: yes


title: Ductal Breast Carcinoma V67

value: no


title: Ductal Breast Carcinoma V70

value: validation


title: recA mutant t=0 - recA mutant t=60 (serie B)  (O)

source_name: recA T=0 series B

tag: recA before MMC exposure (series B)

source_name: recA T=60 series B

tag: recA after MMC exposure (series B)


title: Egde t=60 - Egde t=0 (serie B)  (N)

description: Egde t=60 - Egde t=0 (serie B)  (N)

source_name: Wt T=60 series B

tag: Wt after MMC exposure (series B)

source_name: Wt T=0 series B

tag: Wt before MMC exposure (series B)


title: Ductal Breast Carcinoma V66


title: Ductal Breast Carcinoma V64


title: Ductal Breast Carcinoma V65


title: recA mutanr - Egde t=0 (serieA)  (L)

description: recA mutanr - Egde t=0 (serieA)  (L)

source_name: recA T=0 series A

tag: recA before MMC exposure (series A)

source_name: Wt T=0 series A

tag: Wt before MMC exposure (series A)


title: T3AQBC01162008A_2002734418_CY3_STERNE_CY5_13765222_B

description: T3AQBC01162008A_2002734418_CY3_STERNE_CY5_13765222_anno_sub_95th_MDS.mev.refIsMEDB.out

tag: strain

source_name: Sterne reference


title: Ductal Breast Carcinoma V63

tag: gender


title: T1QBC_AMES_Cy3_AH825_Cy5_84938

source_name: AMES


title: Ductal Breast Carcinoma V62

tag: age


title: T3AQBC12092007_H3081_97_Cy5_STERNE_CY3_56715_A

description: T3AQBC12092007_H3081_97_Cy5_STERNE_CY3_56715_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Egde t=0 - recA mutant t=0 (I)

description: Egde t=0 - recA mutant t=0 (I)


title: LM recA mutant t=60 - recA mutant t=0 (serie A)  (M)

source_name: recA T=60 series A

tag: recA after MMC exposure (series A)


title: T3AQBC12092007_H3074_97_Cy5_STERNE_CY3_56712_A

description: T3AQBC12092007_H3074_97_Cy5_STERNE_CY3_56712_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC08152007_262_CY5_STERNE_CY3_8124_A

description: T3AQBC08152007_262_CY5_STERNE_CY3_8124_anno_sub_95th_MDS.mev.refIsMEDA.out


title: recA mutant - Egde  t=0  ( K)

description: recA mutant - Egde  t=0  ( K)


title: Egde t=0 - recA mutant t=0 (serie B0  (J)


title: recA mutant t=0 - Egde t=0 (serie C)   (H)

source_name: recA T=0 series C

tag: recA before MMC exposure (series C)


title: T3AQBC03102008_Tsiankoffski_CY5_STERNE_CY3_13786926_A

description: T3AQBC03102008_Tsiankoffski_CY5_STERNE_CY3_13786926_anno_sub_95th_MDS.mev.refIsMEDA.out

value: Tsiankoffski


title: T3AQBC08152007_525_Cy5_STERNE_CY3_108121_A

description: T3AQBC08152007_525_Cy5_STERNE_CY3_108121_anno_sub_95th_MDS.mev.refIsMEDA.out


title: LM Egde - recA mutant T=60 min  (F)

description: LM Egde - recA mutant T=60 min  (F)

source_name: recA T=60 series C

tag: recA after MMC exposure (series C)


title: LM recA mutant - Egde t=60 min  (E)

description: LM recA mutant - Egde t=60 min  (E)


title: LM recA mutant 60 min - recA mutant  t= 0 (serieC)   (G)


title: Ductal Breast Carcinoma V61

tag: pn

tag: adjuvant hormonotherapy

tag: adjuvant chemotherapy

tag: tumor cellularity


title: Ductal Breast Carcinoma V60

tag: set

tag: group


title: T3AQBC03102008_Pasteur_CY5_STERNE_CY3_13786920_A

description: T3AQBC03102008_Pasteur_CY5_STERNE_CY3_13786920_anno_sub_95th_MDS.mev.refIsMEDA.out

source_name: Pasteur

value: Pasteur


title: T3AQBC03102008_Aussie_Cy5_STERNE_Cy3_13786924_A

description: T3AQBC03102008_Aussie_Cy5_STERNE_Cy3_13786924_anno_sub_95th_MDS.mev.refIsMEDA.out

source_name: Aussie

value: Aussie


title: Ductal Breast Carcinoma V59

source_name: Tumoral DNA

value: I

value: male


title: T3AQBC03102008_Vollum_CY5_STERNE_CY3_13786922_A

description: T3AQBC03102008_Vollum_CY5_STERNE_CY3_13786922_anno_sub_95th_MDS.mev.refIsMEDA.out

source_name: Vollum

value: Vollum


title: Ductal Breast Carcinoma V58

value: P

value: LR

source_name: Normal reference DNA


title: Ductal Breast Carcinoma V57


title: T3AQBC03102008_Amesdelta_Cy5_STERNE_Cy3_13786919_A

description: T3AQBC03102008_Amesdelta_Cy5_STERNE_Cy3_13786919_anno_sub_95th_MDS.mev.refIsMEDA.out

source_name: Amesdelta

value: Amesdelta

value: Sterne


title: Ductal Breast Carcinoma V56

value: No event

value: A


title: Bc10987 pH5.4 t30_t0

first: Maarten

last: Mols

description: No extra description.

hyb_protocol: The target was denatured by boiling for 1 min and immediate cooling on ice prior to hybridization. A total of 200ng of both samples was mixed and applied with the Agilent hybridization buffer to the microarray, according to Agilent manual. Hybridization was performed at 60 °C. The slide was washed according to the Agilent microarray wash protocol.

scan_protocol: Microarrays were scanned with the Agilent DNA Microarray Scanner, Model G2565BA, according to the Agilent protocol at 50% laser intensity, and 10 micron scan resolution.

data_processing: Lowess-normalization, performed in Feature Extract, Agilent. Subsequently normalized data was processed with the Vampire webbased microarray suite.

label_protocol: Complementary DNA was synthesized and labeled using 15 μg of total RNA, and the CyScribe Post-Labeling kit (Amersham Biosciences Europe GmbH) according to the supplier's instructions.

extract_protocol: RNA was extracted as described by van Schaik et al., 2007

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.4 for 30 min

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.4 for 0 min


title: T3AQBC01222008A_F65185_CY5_STERNE_CY3_13734754_A

description: T3AQBC01222008A_F65185_CY5_STERNE_CY3_13734754_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01222008A_F5190_CY5_STERNE_CY3_13734793_A

description: T3AQBC01222008A_F5190_CY5_STERNE_CY3_13734793_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01222008A_F667_CY5_STERNE_CY3_13734687_A

description: T3AQBC01222008A_F667_CY5_STERNE_CY3_13734687_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Bc10987 pH5.4 t60_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.4 for 60 min


title: Ductal Breast Carcinoma V55

value: female

value: II

value: HR


title: LM Egde t=60 (serieB) - recA mutant t=60 (serieA)  (C)

tag: Wt after MMC exposure (series B)


title: T3AQBC01222008A_F665_CY5_STERNE_CY3_13734694_A

description: T3AQBC01222008A_F665_CY5_STERNE_CY3_13734694_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910008_ElTor_CY5_569B_CY3

hyb_protocol: Equal concentrations of DNA probe from the appropriate Cy3 and Cy5 labeled probes were combined, dried and then resuspended in hybridization buffer as defined by the Agilent Oligonucleotide Array-Based CGH protocol.  Resuspended probes were denatured at 95 degree Celcius and held at 37 degree Celcius prior to hybridization.  The probe mixture then was added to the Agilent microarray slide and allowed to hybridize for 24 hours rotating at 20 rpm in a hybridization oven at 65 degree Celcius.  Hybridized slides were washed sequentially as defined by the Agilent Oligonucleotide Array-Based CGH protocol.Celcius.   Hybridized slides were washed sequentially as defined by the Agilent Oligonucleotide Array-Based CGH protocol.

data_processing:
Procedures to calculate the value of log2 ratio:
1. Use Agilent software Feature Extraction to analyze spotted arrays.
2. Use TM4 suite software ExpressConverter to modify Agilent Feature Extraction file into *.mev.
3. Subtract the 95th percentile of the reserved spots.
      Calculate the 95th percentile of all the reserved spots and subtract that value from all the species spots and reserved spots.
4. Use TM4 suite software Ginkgo for CGH normalization:
    1). Plot the histogram of the Log2 ratio data (Reference/Query) from the filtered .mev file, and identify the central peak containing oligos predicted to be shared by both the reference and query strains.
    2). Fit a Gaussian curve to the central peak by 'tweaking' the log ratio mean and by shrinking or stretching the standard deviation of the curve to find the smallest least sum of squares difference.
    3). Perform Histogram Mode Centering normalization on the channel that contains the query sample only (Either Cy3 or Cy5).
    4). Output the normalized *.mev file.
5. Calculate the value of log2 ratio (Reference/Query) from the normalized .mev file:
    1). If both channels (QUERY_MEDIAN_INTENSITY and REF_MEDIAN_INTENSITY) are zero, assign the value "null".
    2). If one channel is zero and the other is not zero, substitute the zero with one (1) and then, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE
    3). If neither channel is zero, assign the log2 ratio of QUERY_MEDIAN_INTENSITY/REF_MEDIAN_INTENSITY to VALUE.

organism: Vibrio cholerae

source_name: ElTor


title: LM Egde t=0  - t=60  serie A  (A)

description: LM Egde t=0  - t=60  serie A  (A)

tag: Wt before MMC exposure (series A)

source_name: Wt T=60 series A

tag: Wt after MMC exposure (series A)


title: T3AQBC01222008A_B5780_CY5_STERNE_CY3_13734730_A

description: T3AQBC01222008A_B5780_CY5_STERNE_CY3_13734730_anno_sub_95th_MDS.mev.refIsMEDA.out

tag: strain


title: 252272910016_ElTor_CY5_5078_CY3


title: Bc10987 pH5.4 t0_t60

description: No extra description.


title: Bc10987 pH5.4 t0_t10

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.4 for 10 min


title: T3AQBC01222008A_2002734893_CY5_STERNE_CY3_13734691_A

description: T3AQBC01222008A_2002734893_CY5_STERNE_CY3_13734691_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Bc10987 pH5.4 t0_t30

description: No extra description.


title: Ductal Breast Carcinoma V54

description: the same reference sample is used for all experiments

tag: gender

tag: age

value: N

value: no


title: Bc10987 pH5.4 t10_t0

description: No extra description.


title: LM Egde - recA mutant t=60 serieA  (B)

description: LM Egde - recA mutant t=60 serieA  (B)

tag: recA after MMC exposure (series A)


title: Ductal Breast Carcinoma V53

tag: pn

value: validation


title: Ductal Breast Carcinoma V52

tag: adjuvant hormonotherapy


title: Ductal Breast Carcinoma V51

tag: adjuvant chemotherapy


title: Bc10987 pH5.0 t60_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.0 for 60 min

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.0 for 0 min


title: Bc10987 pH5.0 t10_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.0 for 10 min


title: Bc10987 pH5.0 t0_t60

description: No extra description.


title: 252272910019_ElTor_CY5_T5957_CY3

hyb_protocol: Equal concentrations of DNA probe from the appropriate Cy3 and Cy5 labeled probes were combined, dried and then resuspended in hybridization buffer as defined by the Agilent Oligonucleotide Array-Based CGH protocol.  Resuspended probes were denatured at 95 degree Celcius and held at 37 degree Celcius prior to hybridization.  The probe mixture then was added to the Agilent microarray slide and allowed to hybridize for 24 hours rotating at 20 rpm in a hybridization oven at 65 degree Celcius.  Hybridized slides were washed sequentially as defined by the Agilent Oligonucleotide Array-Based CGH protocol.

scan_protocol: PMT values were optimized during scanning to balance channel intensities.

value: El Tor_


title: 252272910020_ElTor_CY5_169_68_CY3

value: El Tor


title: Ductal Breast Carcinoma V50

value: I

tag: tumor cellularity

tag: set

tag: group


title: Bc10987 pH5.0 t30_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH5.0 for 30 min


title: LM recA mutant - Egde t=60 serieB   (D)

description: LM recA mutant - Egde t=60 serieB   (D)

source_name: recA T=60 series B

tag: recA after MMC exposure (series B)

source_name: Wt T=60 series B

tag: Wt after MMC exposure (series B)


title: T3AQBC01222008A_262_CY5_STERNE_CY3_13734734_A

description: T3AQBC01222008A_262_CY5_STERNE_CY3_13734734_anno_sub_95th_MDS.mev.refIsMEDA.out

tag: strain


title: Ductal Breast Carcinoma V49

value: male


title: T3AQBC01222008A_579_CY5_STERNE_CY3_13734796_A

description: T3AQBC01222008A_579_CY5_STERNE_CY3_13734796_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_H2576_97_97_Cy5_STERNE_Cy3_13765227_A

description: T3AQBC01162008A_H2576_97_Cy5_STERNE_Cy3_13765227_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V48

value: yes

value: B


title: T3AQBC01162008A_G2008_CY5_STERNE_CY3_137565233_A

description: T3AQBC01162008A_G2008_CY5_STERNE_CY3_137565233_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910019_ElTor_CY5_NRT36S_CY3


title: 252272910019_ElTor_CY5_RB1_CY3


title: Bc10987 pH4.8 t30_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.8 for 30 min

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.8 for 0 min


title: Bc10987 pH5.0 t0_t10

description: No extra description.


title: T3AQBC01222008A_03BR1283_CY5_STERNE_CY3_13734744_A

description: T3AQBC01222008A_03BR1283_CY5_STERNE_CY3_13734744_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910020_ElTor_CY5_PG25_CY3


title: T3AQBC01222008A_1952_CY5_STERNE_CY3_13734783_A

description: T3AQBC01222008A_1952_CY5_STERNE_CY3_13734783_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V46

tag: gender

tag: age

value: LR


title: Ductal Breast Carcinoma V44

tag: pn

value: III


title: Ductal Breast Carcinoma V47

tag: adjuvant hormonotherapy


title: T3AQBC01162008A_G1440_CY5_STERNE_CY3_13759052_A

description: T3AQBC01162008A_G1440_CY5_STERNE_CY3_13759052_anno_sub_95th_MDS.mev.refIsMEDA.out

value: Sterne


title: T3AQBC01162008A_G3317_CY5_STERNE_CY3_13762118_A

description: T3AQBC01162008A_G3317_CY5_STERNE_CY3_13762118_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V45

tag: adjuvant chemotherapy


title: Bc10987 pH5.0 t0_t30

description: No extra description.


title: 252272910018_ElTor_CY5_V52_CY3


title: 252272910019_ElTor_CY5_T712_CY3


title: Bc10987 pH4.8 t60_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.8 for 60 min


title: Bc10987 pH4.8 t0_t30

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.8 for 10 min


title: Ductal Breast Carcinoma V43

value: P


title: 252272910018_ElTor_CY5_V51_CY3


title: 252272910017_ElTor_CY5_Y273_CY3


title: 252272910018_ElTor_CY5_VO1627_CY3


title: 252272910018_ElTor_CY5_5096_CY3

value: gEl Tor


title: T3AQBC01162008A_F5157_CY5_STERNE_CY3_13765225_A

description: T3AQBC01162008A_F5157_CY5_STERNE_CY3_13765225_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_F9930_CY5_STERNE_CY3_13765235_A

description: T3AQBC01162008A_F9930_CY5_STERNE_CY3_13765235_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Bc10987 pH4.8 t0_t60

description: No extra description.


title: 252272910028_ElTor_CY5_PG153_CY3


title: T3AQBC01162008A_E3911_CY5_STERNE_CY3_13762180_A

description: T3AQBC01162008A_E3911_CY5_STERNE_CY3_13762180_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_F5191_CY5_STERNE_CY3_13765221_A

description: T3AQBC01162008A_F5191_CY5_STERNE_CY3_13765221_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Bc10987 pH4.8 t10_t0

description: No extra description.


title: Ductal Breast Carcinoma V42

value: female


title: Ductal Breast Carcinoma V40


title: Ductal Breast Carcinoma V41


title: Ductal Breast Carcinoma V39

value: II


title: Ductal Breast Carcinoma V38

value: HR


title: Ductal Breast Carcinoma V37

value: N


title: Bc10987 pH4.5 t60_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.5 for 60 min

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.5 for 0 min


title: T3AQBC01162008A_80700019_Cy5_STERNE_Cy3_13765238_A

description: T3AQBC01162008A_80700019_Cy5_STERNE_Cy3_13765238_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_6047_CY5_STERNE_CY3_13762194_A

description: T3AQBC01162008A_6047_CY5_STERNE_CY3_13762194_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_525_Cy5_STERNE_Cy3_13765236_A

description: T3AQBC01162008A_525_Cy5_STERNE_Cy3_13765236_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC01162008A_264_Cy5_STERNE_Cy3_13765245_A

description: T3AQBC01162008A_264_Cy5_STERNE_Cy3_13765245_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V36

description: the same reference sample is used for all experiments

value: no

tag: tumor cellularity

tag: set


title: 252272910010_ElTor_CY5_6335_CY3

description: None.


title: TX15_Rep2

city: Hangzhou

first: youying

last: mao

address: Yuhangtang Road,NO.388

country: China

institute: Zhejiang University

description: PBMC samples from renal transplants of stable renal function recipients, acute rejection, borderline change and acute tubule necrosis.

hyb_protocol: The hybridizations were performed overnight at 50C in a hybridization oven (Hybaid, Middlesex, UK). Subsequently, the nylon membranes were washed twice at 48C in 2xSSC and 0.1% SDS for 20 min.

scan_protocol: The signals of the array were absorbed by storage phosphor screen (Kodak, Rochester, New York, USA) for three days, and signal intensities were measured by scanning the storage phosphor screen with the Typhoon 9200 scanner (Amersham Pharmacia Biotech, Piscataway, NJ, USA).

data_processing: The signal intensity of each microarray spot on the array was quantified using the software ArrayVision6.0 (Imaging Research, Ontario, Canada). The normalization was performed by dividing a spot's signal intensity by the average signal intensity of the whole image (global normalization). Two individual hybridization experiments were performed for each probe, resulting in six replicated spots for each gene per sample.

source_name: kidney

label_protocol: The RNA samples were labeled with 33P-dCTP during the first-strand reverse transcription reactions.

extract_protocol: Total RNA was isolated by TRIZol according to manufacturer's instruction. Contaminating genomic DNA was removed by treatment with RNase-free DNase (Promega, Madison, WI, USA). RNA quality was confirmed by electropherogram. RNA was further purified using Rneasy mini kit (Qiagen).

tag: tissue type

value: kidney

tag: state

value: renal recipients with stable function


title: 252272910010_ElTor_CY5_6313_CY3

description: None.

value: El Tor


title: 252272910041_ElTor_CY5_S21_CY3


title: Bc10987 pH4.8 t0_t10

description: No extra description.


title: 252272910009_ElTor_CY5_SO47_W_CY3

description: None.

source_name: W

value: W


title: Bc10987 pH4.5 t10_t0

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.5 for 10 min


title: Bc10987 pH4.5 t0_t60

description: No extra description.


title: Bc10987 pH4.5 t0_t30

description: No extra description.

tag: Bc ATCC 10987 OD600 0.5 exposed to pH4.5 for 30 min


title: T3AQBC01162008A_2002734418_CY5_STERNE_CY3_13765224_A

description: T3AQBC01162008A_2002734418_CY5_STERNE_CY3_13765224_anno_sub_95th_MDS.mev.refIsMEDA.out

tag: strain

source_name: Sterne reference


title: 252272910009_ElTor_CY5_AI1837_CY3

description: None.


title: 252272910010_ElTor_CY5_8_1_CY3

description: None.


title: Bc10987 pH4.5 t30_t0

description: No extra description.


title: T3AQBC01162008A_2003_I_1253_CY5_STERNE_CY3_13765231_A

description: T3AQBC01162008A_2003_I_1253_CY5_STERNE_CY3_13765231_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910017_ElTor_CY5_VV33_0_CY3


title: Bc10987 pH4.5 t0_t10

description: No extra description.


title: Ductal Breast Carcinoma V34

value: validation

tag: group

value: male


title: Ductal Breast Carcinoma V35

tag: gender

value: B


title: Ductal Breast Carcinoma V33

tag: age

value: LR


title: T3ABC12092007A_B1357_CY5_STERNE_CY3_13746861_A

description: T3ABC12092007A_B1357_CY5_STERNE_CY3_13746861_anno_sub_95th_MDS.mev.refIsMEDA.out


title: TX14_Rep2


title: 252272910017_ElTor_CY5_VTV2_CY3


title: TX12_Rep2


title: TX15_Rep1


title: TX13_Rep1


title: 252272910009_ElTor_CY5_A334PK_CY3

description: None.


title: Ductal Breast Carcinoma V30

tag: pn

value: yes

value: No event

value: A


title: T3ABC01162008A_G2055_CY5_STERNE_CY3_13762132_A

description: T3ABC01162008A_G2055_CY5_STERNE_CY3_13762132_anno_sub_95th_MDS.mev.refIsMEDA.out

value: Sterne


title: 252272910041_ElTor_CY5_O145B_CY3


title: Ductal Breast Carcinoma V31

value: female

value: P

tag: adjuvant hormonotherapy


title: TX13_Rep2


title: TX14_Rep1


title: 252272910017_ElTor_CY5_7165_CY3


title: Ductal Breast Carcinoma V32

value: III

tag: adjuvant chemotherapy

value: HR


title: T3ABC01162008A_F7720_CY5_STERNE_CY3_13762127_A

description: T3ABC01162008A_F7720_CY5_STERNE_CY3_13762127_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910009_ElTor_CY5_A5_CY3

description: None.


title: T3ABC01162008A_E6345_CY5_STERNE_CY3_13762119_A

description: T3ABC01162008A_E6345_CY5_STERNE_CY3_13762119_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3ABC01162008A_G9842_CY5_STERNE_CY3_13759056_A

description: T3ABC01162008A_G9842_CY5_STERNE_CY3_13759056_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910041_ElTor_CY5_PG38_CY3


title: Ductal Breast Carcinoma V28

value: II

value: N

value: no


title: Ductal Breast Carcinoma V29

value: I


title: Ductal Breast Carcinoma V26


title: Ductal Breast Carcinoma V27


title: TX12_Rep1

value: kidney

value: renal recipients with stable function


title: TX11_Rep2


title: T3ABC01162008A_D8096_CY5_STERNE_CY3_13762183_A

description: T3ABC01162008A_D8096_CY5_STERNE_CY3_13762183_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3ABC01162008A_F6722_CY5_STERNE_CY3_13759048_A

description: T3ABC01162008A_F6722_CY5_STERNE_CY3_13759048_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910041_ElTor_CY5_NG28836_CY3

value: El Tor


title: TX10_Rep2


title: T3AQBC01162008A_04S00334_CY5_STERNE_CY3_13759059_A

description: T3AQBC01162008A_04S00334_CY5_STERNE_CY3_13759059_anno_sub_95th_MDS.mev.refIsMEDA.out


title: TX10_Rep1


title: 252272910008_ElTor_CY5_2794_79_CY3

description: None.


title: T3ABC01162008A_E1149_CY5_STERNE_CY3_13762188_A

description: T3ABC01162008A_E1149_CY5_STERNE_CY3_13762188_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3ABC01162008A_C3276_CY5_STERNE_CY3_13762143_A

description: T3ABC01162008A_C3276_CY5_STERNE_CY3_13762143_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910016_ElTor_CY5_5086_CY3


title: 252272910008_ElTor_CY5_638_79_CY3

description: None.


title: T3ABC01162008A_D4214_CY5_STERNE_CY3_13762133_A

description: T3ABC01162008A_D4214_CY5_STERNE_CY3_13762133_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma V25

value: validation

value: male


title: TX9_Rep2


title: T3ABC01162008A_C3276_CY5_STERNE_CY3_13762121_A

description: T3ABC01162008A_C3276_CY5_STERNE_CY3_13762121_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3ABC01162008A_C1617_CY5_STERNE_CY3_13762187_A

description: T3ABC01162008A_C1617_CY5_STERNE_CY3_13762187_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910016_ElTor_CY5_5072_CY3


title: 252272910008_ElTor_CY5_3K_CY3

description: None.


title: TX9_Rep1


title: Ductal Breast Carcinoma V24

description: the same reference sample is used for all experiments

value: LR


title: Ductal Breast Carcinoma V23

value: yes

value: No event


title: 252272910007_ElTor_CY5_6701_CY3

description: None.


title: 252272910016_ElTor_CY5_5066_CY3


title: Ductal Breast Carcinoma V21

value: A


title: TX8_Rep2

description: PBMC samples from renal transplants of stable renal function recipients, acute rejection, borderline change and acute tubule necrosis.


title: Ductal Breast Carcinoma V22

value: female


title: TX8_Rep1


title: T3ABC01162008_G9241_CY5_STERNE_CY3_13762138_A

description: T3ABC01162008_G9241_CY5_STERNE_CY3_13762138_anno_sub_95th_MDS.mev.refIsMEDA.out

value: Sterne


title: Ductal Breast Carcinoma V20

value: III

value: P


title: Ductal Breast Carcinoma V19


title: T3ABC01162008_G4200_CY5_STERNE_CY3_13762139_A

description: T3ABC01162008_G4200_CY5_STERNE_CY3_13762139_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910007_ElTor_CY5_6355_CY3

description: None.


title: T3ABC01162008_F663_CY5_STERNE_CY3_13762129_A

description: T3ABC01162008_F663_CY5_STERNE_CY3_13762129_anno_sub_95th_MDS.mev.refIsMEDA.out


title: TX7_Rep1


title: TX7_Rep2


title: Ductal Breast Carcinoma V18


title: 252272910028_ElTor_CY5_PG41_CY3


title: TX6_Rep2


title: Ductal Breast Carcinoma V17


title: TX6_Rep1


title: T3AQBC06092008A_3756_CY5_STERNE_CY3_13824612_A

description: T3AQBC06092008A_3756_CY5_STERNE_CY3_13824612_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3A01222008A_F4794_CY5_STERNE_CY3_13734725_A

description: T3A01222008A_F4794_CY5_STERNE_CY3_13734725_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910007_ElTor_CY5_6345_CY3

description: None.


title: T3AQBC06092008A_3755_CY5_STERNE_CY3_13824611_A

description: T3AQBC06092008A_3755_CY5_STERNE_CY3_13824611_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910015_ElTor_CY5_5051_CY3


title: Ductal Breast Carcinoma V16

value: II


title: TX5_Rep1


title: TX4_Rep2


title: TX5_Rep2


title: Ductal Breast Carcinoma V13

value: N


title: Ductal Breast Carcinoma V15

value: no

value: HR


title: Ductal Breast Carcinoma V14


title: 252272910015_ElTor_CY5_5047_CY3


title: T3AQBC06092008A_3708_CY5_STERNE_CY3_13824608_A

description: T3AQBC06092008A_3708_CY5_STERNE_CY3_13824608_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910028_ElTor_CY5_6355_CY3


title: T3AQBC06092008A_3732_CY5_STERNE_CY3_13824615_A

description: T3AQBC06092008A_3732_CY5_STERNE_CY3_13824615_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910006_ElTor_CY5_8691_CY3

description: None.

source_name: ElTor.


title: TX4_Rep1

value: kidney


title: T3AQBC06092008A_3716_CY5_STERNE_CY3_13824609_A

description: T3AQBC06092008A_3716_CY5_STERNE_CY3_13824609_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC06092008A_3634_CY5_STERNE_CY3_13824607_A

description: T3AQBC06092008A_3634_CY5_STERNE_CY3_13824607_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910007_ElTor_CY5_6337_CY3

description: None.


title: TX3_Rep2

value: renal recipients with stable function


title: 252272910028_ElTor_CY5_5811_CY3

value: El Tor


title: TX3_Rep1


title: Ductal Breast Carcinoma V12

value: I

value: validation


title: TX2_Rep2


title: T3AQBC07282008A_3753_CY3_STERNE_CY5_13848425_B

description: T3AQBC07282008A_3753_CY3_STERNE_CY5_13848425_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910015_ElTor_CY5_5043_CY3


title: 252272910006_ElTor_CY5_8643_CY3

description: None.


title: Ductal Breast Carcinoma V11

value: LR

value: male


title: TX11_Rep1


title: 252272910027_ElTor_CY5_6345_CY3


title: 252272910027_ElTor_CY5_NCTC8457_CY3


title: Ductal Breast Carcinoma V10

value: No event


title: Ductal Breast Carcinoma V09

value: A


title: T3AQBC07282008A_3748_CY3_STERNE_CY5_13848415_B

description: T3AQBC07282008A_3748_CY3_STERNE_CY5_13848415_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910006_ElTor_CY5_8635_CY3

description: None.


title: TX1_Rep2


title: T3AQBC07282008A_3749_CY3_STERNE_CY5_13848420_B

description: T3AQBC07282008A_3749_CY3_STERNE_CY5_13848420_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07282008A_3677_CY3_STERNE_CY5_13848418_B

description: T3AQBC07282008A_3677_CY3_STERNE_CY5_13848418_anno_sub_95th_MDS.mev.refIsMEDB.out


title: TX1_Rep1


title: Ductal Breast Carcinoma V08

value: female

value: yes


title: T3AQBC07282008A_3745_CY3_STERNE_CY5_13843664_B

description: T3AQBC07282008A_3745_CY3_STERNE_CY5_13843664_anno_sub_95th_MDS.mev.refIsMEDB.out

value: Sterne


title: T3AQBC07282008A_3590_CY3_STERNE_CY5_13824579_B

description: T3AQBC07282008A_3590_CY3_STERNE_CY5_13824579_anno_sub_95th_MDS.mev.refIsMEDB.out


title: TX2_Rep1

description: PBMC samples from renal transplants of stable renal function recipients, acute rejection, borderline change and acute tubule necrosis.


title: Ductal Breast Carcinoma V07

description: the same reference sample is used for all experiments


title: Ductal Breast Carcinoma V06

value: P


title: PR7_Rep2

value: presumed rejection


title: 252272910015_ElTor_CY5_5042_CY3


title: Ductal Breast Carcinoma V04

value: N


title: PR7_Rep1


title: PR6_Rep2


title: Ductal Breast Carcinoma V03

value: II

value: no


title: Ductal Breast Carcinoma V02


title: Ductal Breast Carcinoma V05


title: Ductal Breast Carcinoma V01

value: HR


title: 252272910005_ElTor_CY5_2031H_CY3

description: None.


title: T3AQBC07282008A_3588_CY3_STERNE_CY5_13843665_B

description: T3AQBC07282008A_3588_CY3_STERNE_CY5_13843665_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07282008A_3584_CY3_STERNE_CY5_13848422_B

description: T3AQBC07282008A_3584_CY3_STERNE_CY5_13848422_anno_sub_95th_MDS.mev.refIsMEDB.out


title: PR6_Rep1

value: kidney


title: 252272910014_ElTor_CY5_5128_CY3

value: El Tor


title: 252272910014_ElTor_CY5_5037_CY3


title: Ductal Breast Carcinoma B28

value: III

value: training

value: B


title: 252272910006_ElTor_CY5_8497_CY3

description: None.


title: PR5_Rep1


title: T3AQBC07282008A_3428_CY3_STERNE_CY5_13848417_B

description: T3AQBC07282008A_3428_CY3_STERNE_CY5_13848417_anno_sub_95th_MDS.mev.refIsMEDB.out


title: PR5_Rep2


title: T3AQBC07282008A_3432_CY3_STERNE_CY5_13824570_B

description: T3AQBC07282008A_3432_CY3_STERNE_CY5_13824570_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07282008A_3585_CY3_STERNE_CY5_13848410_B

description: T3AQBC07282008A_3585_CY3_STERNE_CY5_13848410_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07282008A_3471_CY3_STERNE_CY5_13848409_B

description: T3AQBC07282008A_3471_CY3_STERNE_CY5_13848409_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910005_ElTor_CY5_1140_79_CY3

description: None.


title: 252272910005_ElTor_CY5_1074_78_CY3

description: None.


title: PR4_Rep2


title: Ductal Breast Carcinoma B26

value: male


title: T3AQBC07282008A_3366_CY3_STERNE_CY5_13843672_B

description: T3AQBC07282008A_3366_CY3_STERNE_CY5_13843672_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910014_ElTor_CY5_5011_CY3


title: PR3_Rep1


title: Ductal Breast Carcinoma B24


title: 252272910005_ElTor_CY5_32_90_CY3

description: None.


title: PR4_Rep1


title: Ductal Breast Carcinoma B22

value: LR


title: PR3_Rep2


title: T3AQBC07282008A_3399_CY3_STERNE_CY5_13848423_B

description: T3AQBC07282008A_3399_CY3_STERNE_CY5_13848423_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma B21


title: T3AQBC07282008A_3360_CY3_STERNE_CY5_13843671_B

description: T3AQBC07282008A_3360_CY3_STERNE_CY5_13843671_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910027_ElTor_CY5_5064_CY3

description: None.


title: PR1_Rep2


title: T3AQBC07282008A_3361_CY3_STERNE_CY5_13848424_B

description: T3AQBC07282008A_3361_CY3_STERNE_CY5_13848424_anno_sub_95th_MDS.mev.refIsMEDB.out


title: PR2_Rep1


title: T3AQBC07282008A_3362_CY3_STERNE_CY5_13848403_B

description: T3AQBC07282008A_3362_CY3_STERNE_CY5_13848403_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910004_ElTor_CY5_9794_CY3

description: None.


title: 252272910027_ElTor_CY5_5052_CY3

description: None.


title: Ductal Breast Carcinoma B20


title: PR2_Rep2


title: 252272910014_ElTor_CY5_5009_CY3


title: T3AQBC07282008A_3357_CY3_STERNE_CY5_13848419_B

description: T3AQBC07282008A_3357_CY3_STERNE_CY5_13848419_anno_sub_95th_MDS.mev.refIsMEDB.out


title: PR1_Rep1


title: T3AQBC07282008A_3356_CY3_STERNE_CY5_13843668_B

description: T3AQBC07282008A_3356_CY3_STERNE_CY5_13843668_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910013_ElTor_CY5_3083_CY3


title: Ductal Breast Carcinoma B19


title: Ductal Breast Carcinoma B18

value: I


title: NR9_Rep2

value: non-rejection


title: Ductal Breast Carcinoma B17

value: female


title: T3AQBC07282008A_3353_CY3_STERNE_CY5_13848412_B

description: T3AQBC07282008A_3353_CY3_STERNE_CY5_13848412_anno_sub_95th_MDS.mev.refIsMEDB.out

value: Sterne


title: T3AQBC07282008A_3354_CY3_STERNE_CY5_13848414_B

description: T3AQBC07282008A_3354_CY3_STERNE_CY5_13848414_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910004_ElTor_CY5_2740_80_CY3

description: None.


title: NR9_Rep1

description: PBMC samples from renal transplants of stable renal function recipients, acute rejection, borderline change and acute tubule necrosis.


title: Ductal Breast Carcinoma B14

description: the same reference sample is used for all experiments


title: Ductal Breast Carcinoma B15

value: P


title: NR8_Rep1


title: NR8_Rep2


title: T3AQBC07282008A_3243_CY3_STERNE_CY5_13843667_B

description: T3AQBC07282008A_3243_CY3_STERNE_CY5_13843667_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07282008A_3340_CY3_STERNE_CY5_13848416_B

description: T3AQBC07282008A_3340_CY3_STERNE_CY5_13848416_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910004_ElTor_CY5_2266_79_CY3

description: None.


title: 252272910026_ElTor_CY5_RV79_CY3

description: None.


title: NR7_Rep2


title: T3AQBC07282008A_3157_CY3_STERNE_CY5_13843666_B

description: T3AQBC07282008A_3157_CY3_STERNE_CY5_13843666_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC07282008A_3156_CY3_STERNE_CY5_13848402_B

description: T3AQBC07282008A_3156_CY3_STERNE_CY5_13848402_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910026_ElTor_CY5_MAK757_CY3

description: None.


title: 252272910004_ElTor_CY5_2165_79_CY3

description: None.


title: 252272910013_ElTor_CY5_2076_79_CY3


title: Ductal Breast Carcinoma B13


title: Ductal Breast Carcinoma B12


title: NR5_Rep2


title: NR6_Rep1


title: Ductal Breast Carcinoma B11


title: NR6_Rep2


title: NR7_Rep1


title: T3AQBC06182008A_3751_CY3_STERNE_CY5_13848411_B

description: T3AQBC06182008A_3751_CY3_STERNE_CY5_13848411_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910026_ElTor_CY5_BZ243_CY3

description: None.


title: Ductal Breast Carcinoma B09


title: 252272910013_ElTor_CY5_1587_CY3


title: T3AQBC07092008A_3656_CY3_STERNE_CY5_13843669_B

description: T3AQBC07092008A_3656_CY3_STERNE_CY5_13843669_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910003_ElTor_CY5_9248_CY3

description: None.


title: T3AQBC06182008A_3594_CY3_STERNE_CY5_13848426_B

description: T3AQBC06182008A_3594_CY3_STERNE_CY5_13848426_anno_sub_95th_MDS.mev.refIsMEDB.out


title: NR5_Rep1


title: Ductal Breast Carcinoma B08


title: T3AQBC06182008A_3410_CY3_STERNE_CY5_13848421_B

description: T3AQBC06182008A_3410_CY3_STERNE_CY5_13848421_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma B10


title: NR4_Rep2


title: T3AQBC06092008A_3764_CY3_STERNE_CY5_13824601_B

description: T3AQBC06092008A_3764_CY3_STERNE_CY5_13824601_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma B07


title: T3AQBC07092008A_3397_CY3_STERNE_CY5_13848413_B

description: T3AQBC07092008A_3397_CY3_STERNE_CY5_13848413_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910026_ElTor_CY5_AQ3810_CY3

description: None.


title: 252272910025_ElTor_CY5_CM50_2_CY3

description: None.


title: 252272910003_ElTor_CY5_9183_CY3

description: None.


title: NR4_Rep1


title: NR3_Rep2


title: T3AQBC06092008A_3757_CY3_STERNE_CY5_13824602_B

description: T3AQBC06092008A_3757_CY3_STERNE_CY5_13824602_anno_sub_95th_MDS.mev.refIsMEDB.out


title: NR3_Rep1


title: Ductal Breast Carcinoma B04


title: T3AQBC06092008A_3756_CY3_STERNE_CY5_13824603_B

description: T3AQBC06092008A_3756_CY3_STERNE_CY5_13824603_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3755_CY3_STERNE_CY5_13824604_B

description: T3AQBC06092008A_3755_CY3_STERNE_CY5_13824604_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma B03


title: NR2_Rep2


title: Ductal Breast Carcinoma B05

value: yes


title: Ductal Breast Carcinoma B06

value: N


title: 252272910025_ElTor_CY5_C6706_CY3

description: None.


title: T3AQBC06092008A_3732_CY3_STERNE_CY5_13824597_B

description: T3AQBC06092008A_3732_CY3_STERNE_CY5_13824597_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3754_CY3_STERNE_CY5_13824598_B

description: T3AQBC06092008A_3754_CY3_STERNE_CY5_13824598_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910025_ElTor_CY5_B7648_CY3

description: None.


title: 252272910003_ElTor_CY5_9009_CY3

description: None.


title: T3AQBC06092008A_3716_CY3_STERNE_CY5_13839180_B

description: T3AQBC06092008A_3716_CY3_STERNE_CY5_13839180_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma B02

description: the same reference sample is used for all experiments

value: II


title: Ductal Breast Carcinoma B01

value: no


title: Ductal Breast Carcinoma B23

value: HR


title: 252272910003_ElTor_CY5_9115_CY3

description: None.


title: NR1_Rep2

description: PBMC samples from renal transplants of stable renal function recipients, acute rejection, borderline change and acute tubule necrosis.

value: kidney


title: T3AQBC06092008A_3711_CY3_STERNE_CY5_13839195_B

description: T3AQBC06092008A_3711_CY3_STERNE_CY5_13839195_anno_sub_95th_MDS.mev.refIsMEDB.out


title: NR2_Rep1


title: NR1_Rep1


title: Ductal Breast Carcinoma A62

value: No event

value: A


title: BL11_Rep1

value: borderline change


title: BL10_Rep2


title: 252272910013_ElTor_CY5_395_CY3

value: El Tor


title: T3AQBC06092008A_3709_CY3_STERNE_CY5_13824575_B

description: T3AQBC06092008A_3709_CY3_STERNE_CY5_13824575_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910002_ElTor_CY5_8105_CY3

description: None.


title: T3AQBC06092008A_3708_CY3_STERNE_CY5_13839177_B

description: T3AQBC06092008A_3708_CY3_STERNE_CY5_13839177_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma A60

value: training

value: male


title: 252272910025_ElTor_CY5_ATCC_25872_CY3

description: None.


title: 252272910002_ElTor_CY5_ElTor_CY3

description: None.


title: 252272910012_ElTor_CY5_5487_CY3


title: Ductal Breast Carcinoma A59

value: I

value: LR


title: Ductal Breast Carcinoma A61

value: female


title: BL10_Rep1


title: BL9_Rep2


title: Ductal Breast Carcinoma A58


title: 252272910002_ElTor_CY5_7995_CY3

description: None.


title: T3AQBC06092008A_3705_CY3_STERNE_CY5_13839193_B

description: T3AQBC06092008A_3705_CY3_STERNE_CY5_13839193_anno_sub_95th_MDS.mev.refIsMEDB.out

value: Sterne


title: BL9_Rep1


title: 252272910002_ElTor_CY5_7920_CY3

description: None.


title: Ductal Breast Carcinoma A57

value: P


title: T3AQBC06092008A_3703_CY3_STERNE_CY5_13839191_B

description: T3AQBC06092008A_3703_CY3_STERNE_CY5_13839191_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3674_CY3_STERNE_CY5_13839190_B

description: T3AQBC06092008A_3674_CY3_STERNE_CY5_13839190_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910012_ElTor_CY5_5180_CY3


title: T3AQBC06092008A_3665_CY3_STERNE_CY5_13843673_B

description: T3AQBC06092008A_3665_CY3_STERNE_CY5_13843673_anno_sub_95th_MDS.mev.refIsMEDB.out


title: BL8_Rep1


title: BL7_Rep2


title: Ductal Breast Carcinoma A55


title: Ductal Breast Carcinoma A54


title: Ductal Breast Carcinoma A56


title: 252272910024_ElTor_CY5_CS148_CY3

description: None.


title: BL7_Rep1


title: BL6_Rep2


title: BL6_Rep1


title: BL5_Rep2


title: T3AQBC06092008A_3660_CY3_STERNE_CY5_13848404_B

description: T3AQBC06092008A_3660_CY3_STERNE_CY5_13848404_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3663_CY3_STERNE_CY5_13824574_B

description: T3AQBC06092008A_3663_CY3_STERNE_CY5_13824574_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma A52


title: 252272910012_ElTor_CY5_5165_CY3


title: 252272910024_ElTor_CY5_CO845_CY3

description: None.


title: Ductal Breast Carcinoma A53


title: T3AQBC06092008A_3651_CY3_STERNE_CY5_13848405_B

description: T3AQBC06092008A_3651_CY3_STERNE_CY5_13848405_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3664_CY3_STERNE_CY5_13843676_B

description: T3AQBC06092008A_3664_CY3_STERNE_CY5_13843676_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3647_CY3_STERNE_CY5_13843679_B

description: T3AQBC06092008A_3647_CY3_STERNE_CY5_13843679_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910001_ElTor_CY5_7555_CY3

description: None.


title: T3AQBC06092008A_3646_CY3_STERNE_CY5_13848406_B

description: T3AQBC06092008A_3646_CY3_STERNE_CY5_13848406_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma A51


title: BL5_Rep1


title: 252272910024_ElTor_CY5_CO603_CY3

description: None.


title: 252272910001_ElTor_CY5_7449_CY3

description: None.


title: Ductal Breast Carcinoma A50


title: BL4_Rep2


title: Ductal Breast Carcinoma A48


title: BL4_Rep1


title: Ductal Breast Carcinoma A47


title: Ductal Breast Carcinoma A46

value: yes


title: BL3_Rep2


title: 252272910024_ElTor_CY5_CO545_CY3

description: None.


title: BL2_Rep2


title: Ductal Breast Carcinoma A44

value: N


title: 252272910012_ElTor_CY5_5145_CY3


title: BL2_Rep1


title: Ductal Breast Carcinoma A45

value: II


title: 252272910001_ElTor_CY5_7291_CY3

description: None.


title: T3AQBC06092008A_3634_CY3_STERNE_CY5_13824605_B

description: T3AQBC06092008A_3634_CY3_STERNE_CY5_13824605_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3642_CY3_STERNE_CY5_13824595_B

description: T3AQBC06092008A_3642_CY3_STERNE_CY5_13824595_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910023_ElTor_CY5_N15870_CY3

description: None.


title: 252272910023_ElTor_CY5_MZO_3_CY3

description: None.


title: BL1_Rep2


title: T3AQBC06092008A_3615_CY3_STERNE_CY5_13824599_B

description: T3AQBC06092008A_3615_CY3_STERNE_CY5_13824599_anno_sub_95th_MDS.mev.refIsMEDB.out


title: BL3_Rep1

description: PBMC samples from renal transplants of stable renal function recipients, acute rejection, borderline change and acute tubule necrosis.


title: Ductal Breast Carcinoma A43

description: the same reference sample is used for all experiments

value: no


title: T3AQBC06092008A_3609_CY3_STERNE_CY5_13824606_B

description: T3AQBC06092008A_3609_CY3_STERNE_CY5_13824606_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910011_ElTor_CY5_6291_CY3

source_name: El tor


title: Ductal Breast Carcinoma A42


title: T3AQBC06092008A_3532_CY3_STERNE_CY5_13824604_B

description: T3AQBC06092008A_3532_CY3_STERNE_CY5_13824604_anno_sub_95th_MDS.mev.refIsMEDB.out


title: BL1_Rep1


title: Ductal Breast Carcinoma A41

value: HR


title: 252272910001_ElTor_CY5_6970_CY3

description: None.


title: T3AQBC06092008A_3529_CY3_STERNE_CY5_13824591_B

description: T3AQBC06092008A_3529_CY3_STERNE_CY5_13824591_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3532_CY5_STERNE_CY3_13824616_A

description: T3AQBC06092008A_3532_CY5_STERNE_CY3_13824616_anno_sub_95th_MDS.mev.refIsMEDA.out


title: Ductal Breast Carcinoma A40


title: 252272910023_ElTor_CY5_MZO_2_CY3

description: None.


title: 252272910023_ElTor_CY5_IC210_Cy3

description: None.


title: Ductal Breast Carcinoma A39


title: 252272910011_ElTor_CY5_5697_CY3


title: Ductal Breast Carcinoma A38


title: ATN3_Rep2

value: kidney

value: acute tubular necrosis


title: T3AQBC06092008A_3488_CY5_STERNE_CY3_13824614_A

description: T3AQBC06092008A_3488_CY5_STERNE_CY3_13824614_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910022_ElTor_CY5_GB228_CY3

description: None.


title: T3AQBC06092008A_3529_CY5_STERNE_CY3_13824610_A

description: T3AQBC06092008A_3529_CY5_STERNE_CY3_13824610_anno_sub_95th_MDS.mev.refIsMEDA.out


title: ATN5_Rep2


title: ATN5_Rep1


title: ATN3_Rep1


title: Ductal Breast Carcinoma A37

value: No event

value: A


title: ATN4_Rep1


title: T3AQBC06092008A_3476_CY5_STERNE_CY3_13824580_A

description: T3AQBC06092008A_3476_CY5_STERNE_CY3_13824580_anno_sub_95th_MDS.mev.refIsMEDA.out


title: T3AQBC06092008A_3474_CY5_STERNE_CY3_13824582_A

description: T3AQBC06092008A_3474_CY5_STERNE_CY3_13824582_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910022_ElTor_CY5_CS365_CY3

description: None.

value: El Tor


title: 252272910011_ElTor_CY5_5694_CY3


title: T3AQBC06092008A_3440_CY5_STERNE_CY3_13824583_A

description: T3AQBC06092008A_3440_CY5_STERNE_CY3_13824583_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910022_ElTor_CY5_DK69_CY3

description: None.


title: ATN2_Rep2


title: Ductal Breast Carcinoma A35

value: training


title: Ductal Breast Carcinoma A34

value: male


title: ATN2_Rep1


title: T3AQBC06092008A_3406_CY5_STERNE_CY3_13824584_A

description: T3AQBC06092008A_3406_CY5_STERNE_CY3_13824584_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910022_ElTor_CY5_CS351_CY3

description: None.


title: T3AQBC06092008A_3488_CY3_STERNE_CY5_13839186_B

description: T3AQBC06092008A_3488_CY3_STERNE_CY5_13839186_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma A33


title: Ductal Breast Carcinoma A32

value: I


title: ATN1_Rep2


title: 252272910021_ElTor_CY5_UM17810_CY3

description: None.


title: T3AQBC06092008A_3491_CY3_STERNE_CY5_13839192_B

description: T3AQBC06092008A_3491_CY3_STERNE_CY5_13839192_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma A27

value: LR


title: Ductal Breast Carcinoma A28

value: female


title: AR15_Rep1

value: acute rejection


title: 252272910011_ElTor_CY5_5678_CY3


title: 252272910021_ElTor_CY5_T2001_CY3

description: None.


title: Ductal Breast Carcinoma A26

value: P


title: AR15_Rep2


title: ATN1_Rep1


title: AR14_Rep2


title: Ductal Breast Carcinoma A25

value: III


title: T3AQBC06092008A_3474_CY3_STERNE_CY5_13839181_B

description: T3AQBC06092008A_3474_CY3_STERNE_CY5_13839181_anno_sub_95th_MDS.mev.refIsMEDB.out

value: Sterne


title: AR14_Rep1


title: 252272910021_ElTor_CY5_PS15_CY3

description: None.


title: T3AQBC06092008A_3462_CY3_STERNE_CY5_13839166_B

description: T3AQBC06092008A_3462_CY3_STERNE_CY5_13839166_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3476_CY3_STERNE_CY5_13839182_B

description: T3AQBC06092008A_3476_CY3_STERNE_CY5_13839182_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3467_CY3_STERNE_CY5_13839167_B

description: T3AQBC06092008A_3467_CY3_STERNE_CY5_13839167_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3396_CY5_STERNE_CY3_13824585_A

description: T3AQBC06092008A_3396_CY5_STERNE_CY3_13824585_anno_sub_95th_MDS.mev.refIsMEDA.out


title: 252272910021_ElTor_CY5_O139Arg_CY3

description: None.


title: Ductal Breast Carcinoma A24

description: the same reference sample is used for all experiments

value: N


title: T3AQBC06092008A_3461_CY3_STERNE_CY5_13843674_B

description: T3AQBC06092008A_3461_CY3_STERNE_CY5_13843674_anno_sub_95th_MDS.mev.refIsMEDB.out


title: 252272910020_ElTor_CY5_ST179_CY3

description: None.


title: AR13_Rep1

description: PBMC samples from renal transplants of stable renal function recipients, acute rejection, borderline change and acute tubule necrosis.


title: Ductal Breast Carcinoma A23

value: no


title: 252272910010_ElTor_CY5_6707_CY3


title: Ductal Breast Carcinoma A22


title: AR12_Rep1


title: AR12_Rep2


title: T3AQBC06092008A_3451_CY3_STERNE_CY5_13839178_B

description: T3AQBC06092008A_3451_CY3_STERNE_CY5_13839178_anno_sub_95th_MDS.mev.refIsMEDB.out


title: AR11_Rep1


title: AR11_Rep2


title: 252272910020_ElTor_CY5_PL30_CY3

description: None.


title: AR10_Rep1


title: Ductal Breast Carcinoma A15

value: II

value: yes


title: Ductal Breast Carcinoma A21


title: Ductal Breast Carcinoma A20


title: AR9_Rep2

value: kidney


title: Ductal Breast Carcinoma A18

value: No event


title: T3AQBC06092008A_3438_CY3_STERNE_CY5_13824593_B

description: T3AQBC06092008A_3438_CY3_STERNE_CY5_13824593_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3440_CY3_STERNE_CY5_13839223_B

description: T3AQBC06092008A_3440_CY3_STERNE_CY5_13839223_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3435_CY3_STERNE_CY5_13824571_B

description: T3AQBC06092008A_3435_CY3_STERNE_CY5_13824571_anno_sub_95th_MDS.mev.refIsMEDB.out


title: T3AQBC06092008A_3443_CY3_STERNE_CY5_13839176_B

description: T3AQBC06092008A_3443_CY3_STERNE_CY5_13839176_anno_sub_95th_MDS.mev.refIsMEDB.out


title: AR9_Rep1


title: Ductal Breast Carcinoma A19

value: A


title: T3AQBC06092008A_3441_CY3_STERNE_CY5_13824592_B

description: T3AQBC06092008A_3441_CY3_STERNE_CY5_13824592_anno_sub_95th_MDS.mev.refIsMEDB.out


title: Ductal Breast Carcinoma A14


title: T3AQBC06092008A_3406_CY3_STERNE_CY5_13839170_B

description: T3AQBC06092008A_3406_CY3_STERNE_CY5_13839170_anno_sub_95th_MDS.mev.refIsMEDB.out


title: AR8_Rep2


title: AR8_Rep1


title: Ductal Breast Carcinoma A12


title: T3AQBC06092008A_3409_CY3_STERNE_CY5_13824569_B

description: T3AQBC06092008A_3409_CY3_STERNE_CY5_13824569_anno_sub_95th_MDS.mev.refIsMEDB.out


title: AR7_Rep2