Dear Ming, Thank you for mailing me example data sets and the annotation spreadsheet from ArrayExpress. You are assuming that the data from ArrayExpress are in ImaGene format. This is incorrect. The reason that limma gives a special treatment to ImaGene files is that, unlike other image analysis software, ImaGene writes the Cy3 and Cy5 channels into separate files. However ArrayExpress has collated the original data into data matrices with the Cy3 and Cy5 intensities in the same file for each sample. Therefore you should ignore all references to ImaGene in the limma manual, and instead use the instructions for generic two-color platforms. The data sets you sent me can easily be read into limma using the instructions in the limma User's Guide starting page 14 "What should you do if your image analysis program is not in the above list?" I demonstrate this below. Your emails suggest that you have not yet read any two-color data into limma. It is essential that you try some simple examples before trying a large dataset from ArrayExpress, which will have a complex structure you might not fully understand. I don't fully understand the sample annotation file from ArrayExpress that you sent me, but I doubt that you are interpretting it correctly. It is not in the format you need for a limma targets file. My guess is that each row of the file corresponds to one array, and that each array has been hybridized with a common reference that is not mentioned in the annotation file. This means that the repeated sample names you have noted do not represent matched Cy3 and Cy5 channels, but rather represent dye-swap technical replicates. That is, they are separate arrays. If my guess is correct, then a targets file would be something like below. Let me emphasize that I do not offer a plug-in service to read experimental data posted to ArrayExpress. It is your responsibility to figure out the experimental design and the ArrayExpression data formats. I am just guessing. Best wishes Gordon READING YOUR DATA FILES > f [1] "E-NCMF-8-raw-data-1363346838.txt" "E-NCMF-8-raw- data-1363346856.txt" > ann <- c("Database NCMF:DB:omadhuman","Database ebi.ac.uk:Database:ens_trscrpt_id","Feature coordinates: metaColumn","metaRow","column","row","Reporter identifier","Reporter sequence type") > columns <- list(Rf="ImaGene:Signal Mean_Cy5",Rb="ImaGene:Background Median_Cy5",Gf="ImaGene:Signal Mean_Cy3",Gb="ImaGene:Background Median_Cy3") > RG <- read.maimages(files=f,annotation=ann,columns=columns) Read E-NCMF-8-raw-data-1363346838.txt Read E-NCMF-8-raw-data-1363346856.txt > dim(RG) [1] 37632 2 A POSSIBLE TARGETS FILE > targets <- readTargets() > targets Source DiseaseState ArrayDataMatrixFile Cy3 Cy5 1 3560 Squamous Cell Carcinoma E-NCMF-8-raw-data-1363346838.txt Reference SCC3560 2 reference pool of 61 HNSCC Squamous Cell Carcinoma E-NCMF-8-raw-data-1363346856.txt Reference PoolHNSCC On Wed, 29 Oct 2008, Ming YI [Contr] wrote: > Hi, Dear Gordon: > > I tried to use limma to deal with ImaGene dataset I downloaded from > ArrayExpress. I never deal with ImaGene data before and not familiar with > ImaGene data format except knowing that the Cy5 and Cy3 signals are stored in > two separate files for the same sample. I tried to read the data into limma > and normalize them in the context of limma. and I keep running into issues > and errors. and I wish you can help me with this regard: > > I did attach a file (E-NCMF-8_sdrf.txt) that was download from ArrayExpress > can be potentially used for making the target file, and also I attached two > raw data files of the ImaGene dataset as examples. The thing bothering me is > as followed: > > Extract 3538 and Extract 3526 (see column "Extract Name" of > E-NCMF-8_sdrf.txt file) , they do have one Cy5 and one matched Cy3 files, so > that's fine with me. but in particular, for "Extract reference pool of 61 > HNSCC" (see E-NCMF-8_sdrf.txt file), there are multiple Cy3 and Cy5 for such > samples, how should we incorporate that into the target file? > > I intended to use the following code to deal with this ImaGene data > > targets<-readTargets() > files<-targets[,c("FileNameCy3", "FileNameCy5")' > RG<-read.maimages(files, source="imagene") > > but I need the right target file to start with particularly with the issue I > mentioned above. > > Also for normalization, the > RG<-backgroundCorrect(RG, method="normexp", offset=50) still appropiate for > ImaGene data? > > Thanks so much for your help! > > Ming Yi > ABCC > P.O.Box B, Bldg 430 > National Cancer Institute/SAIC-Frederick, Inc > Frederick,Maryland > USA

Hi, when loading library "affy" I am getting the following error: Error : package 'preprocessCore' does not have a name space I am running R on a PC running 64 bit Windows Vista and here is my sessionInfo: R version 2.8.0 beta (2008-10-05 r46601) i386-pc-mingw32 locale: LC_COLLATE=English_Australia.1252;LC_CTYPE=English_Australia.1252;LC_M ONETARY=English_Australia.1252;LC_NUMERIC=C;LC_TIME=English_Australia. 1252 attached base packages: [1] tools stats graphics grDevices utils datasets methods [8] base other attached packages: [1] Biobase_2.1.7 loaded via a namespace (and not attached): [1] affyio_1.9.1 Any idea how to resolve this problem? thanks, Sebastien

Dear Gordon: Thanks a lot for your comments and suggestions. I already successfully read all the data into limma objects based on your suggestion using the generic method by using the attached target file I edited from their annotation file as I sent to you earlier. I did assume that the Cy3 channel is the common reference as you guessed. But the issue remained as you mentioned how actually they did the experiment. Based on their E-NCMF-8.idf.txt file from arrayExpress, it appears to be dye_swap_design, which is exactly what you guessed. So the data appears to be collated by ArrayExpress into data matrices with the Cy3 and Cy5 intensities in the same file for each sample. But the concern is in the column of "Label" in the file E-NCMF-8_sdrf.txt I sent to you in last email, what does those Cy3 and Cy5 mean for each sample, it looks like this column may tell for each sample (and corresponding raw data file), what is dye for the sample and the other dye would be used for the common reference, which was not mentioned in their annotation file. What do you think? if this is true, I may need to change my target file coordinately to accommodate this information. This assumption makes more sense at least to explain the repeated samples in the dataset, which should be the dye-swapping data. I tried to contact with them for details of the experiment design, that should help to sort this out. By the way, I am not sure why my post not go to the mailing list. I changed a bit the address this time, hope it works. Thanks again for your help. Any additional suggestion would be appreciated as well. Best regards, Ming At 09:25 PM 10/29/2008, Gordon K Smyth wrote: >Dear Ming, > >Thank you for mailing me example data sets and the annotation >spreadsheet from ArrayExpress. > >You are assuming that the data from ArrayExpress are in ImaGene >format. This is incorrect. The reason that limma gives a special >treatment to ImaGene files is that, unlike other image analysis >software, ImaGene writes the Cy3 and Cy5 channels into separate >files. However ArrayExpress has collated the original data into >data matrices with the Cy3 and Cy5 intensities in the same file for >each sample. Therefore you should ignore all references to ImaGene >in the limma manual, and instead use the instructions for generic >two-color platforms. > >The data sets you sent me can easily be read into limma using the >instructions in the limma User's Guide starting page 14 "What should >you do if your image analysis program is not in the above list?" I >demonstrate this below. > >Your emails suggest that you have not yet read any two-color data >into limma. It is essential that you try some simple examples >before trying a large dataset from ArrayExpress, which will have a >complex structure you might not fully understand. > >I don't fully understand the sample annotation file from >ArrayExpress that you sent me, but I doubt that you are >interpretting it correctly. It is not in the format you need for a >limma targets file. My guess is that each row of the file >corresponds to one array, and that each array has been hybridized >with a common reference that is not mentioned in the annotation >file. This means that the repeated sample names you have noted do >not represent matched Cy3 and Cy5 channels, but rather represent >dye-swap technical replicates. That is, they are separate arrays. > >If my guess is correct, then a targets file would be something like below. > >Let me emphasize that I do not offer a plug-in service to read >experimental data posted to ArrayExpress. It is your responsibility >to figure out the experimental design and the ArrayExpression data >formats. I am just guessing. > >Best wishes >Gordon > > >READING YOUR DATA FILES > >>f >[1] "E-NCMF-8-raw-data-1363346838.txt" "E-NCMF-8-raw- data-1363346856.txt" > >>ann <- c("Database NCMF:DB:omadhuman","Database >ebi.ac.uk:Database:ens_trscrpt_id","Feature coordinates: >metaColumn","metaRow","column","row","Reporter identifier","Reporter >sequence type") > >>columns <- list(Rf="ImaGene:Signal Mean_Cy5",Rb="ImaGene:Background >Median_Cy5",Gf="ImaGene:Signal Mean_Cy3",Gb="ImaGene:Background Median_Cy3") > >>RG <- read.maimages(files=f,annotation=ann,columns=columns) >Read E-NCMF-8-raw-data-1363346838.txt >Read E-NCMF-8-raw-data-1363346856.txt > >>dim(RG) >[1] 37632 2 > > >A POSSIBLE TARGETS FILE > >>targets <- readTargets() >>targets > Source DiseaseState > ArrayDataMatrixFile Cy3 Cy5 >1 3560 Squamous Cell Carcinoma >E-NCMF-8-raw-data-1363346838.txt Reference SCC3560 >2 reference pool of 61 HNSCC Squamous Cell Carcinoma >E-NCMF-8-raw-data-1363346856.txt Reference PoolHNSCC > > >On Wed, 29 Oct 2008, Ming YI [Contr] wrote: > >>Hi, Dear Gordon: >> >>I tried to use limma to deal with ImaGene dataset I downloaded from >>ArrayExpress. I never deal with ImaGene data before and not >>familiar with ImaGene data format except knowing that the Cy5 and >>Cy3 signals are stored in two separate files for the same sample. I >>tried to read the data into limma and normalize them in the context >>of limma. and I keep running into issues and errors. and I wish you >>can help me with this regard: >> >>I did attach a file (E-NCMF-8_sdrf.txt) that was download from >>ArrayExpress can be potentially used for making the target file, >>and also I attached two raw data files of the ImaGene dataset as >>examples. The thing bothering me is as followed: >> >>Extract 3538 and Extract 3526 (see column "Extract Name" of >>E-NCMF-8_sdrf.txt file) , they do have one Cy5 and one matched Cy3 >>files, so that's fine with me. but in particular, for "Extract >>reference pool of 61 HNSCC" (see E-NCMF-8_sdrf.txt file), there are >>multiple Cy3 and Cy5 for such samples, how should we incorporate >>that into the target file? >> >>I intended to use the following code to deal with this ImaGene data >> >>targets<-readTargets() >>files<-targets[,c("FileNameCy3", "FileNameCy5")' >>RG<-read.maimages(files, source="imagene") >> >>but I need the right target file to start with particularly with >>the issue I mentioned above. >> >>Also for normalization, the >>RG<-backgroundCorrect(RG, method="normexp", offset=50) still >>appropiate for ImaGene data? >> >>Thanks so much for your help! >> >>Ming Yi >>ABCC >>P.O.Box B, Bldg 430 >>National Cancer Institute/SAIC-Frederick, Inc >>Frederick,Maryland >>USA -------------- next part -------------- Name SourceName DiseaseState DiseaseOutcome OrganismPart Extract Name LabeledExtract Name Label FactorValue_treatment ArrayDataMatrixFile Cy3 Cy5 NCMF1363348819 2876 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 2876 Labeled Extract 2876 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348819.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347883 3374 Squamous Cell Carcinoma locoregional recurrence oral cavity Extract 3374 Labeled Extract 3374 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347883.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347847 3376 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3376 Labeled Extract 3376 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347847.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347775 3378 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3378 Labeled Extract 3378 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347775.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347829 3378 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3378 Labeled Extract 3378 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347829.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347649 3497 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3497 Labeled Extract 3497 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347649.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347685 3497 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3497 Labeled Extract 3497 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347685.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347613 3502 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3502 Labeled Extract 3502 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347613.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347667 3502 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3502 Labeled Extract 3502 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347667.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349251 3504 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3504 Labeled Extract 3504 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349251.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349269 3504 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3504 Labeled Extract 3504 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349269.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347505 3509 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3509 Labeled Extract 3509 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347505.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347559 3509 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3509 Labeled Extract 3509 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347559.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347523 3512 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3512 Labeled Extract 3512 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347523.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347451 3513 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3513 Labeled Extract 3513 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347451.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347469 3513 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3513 Labeled Extract 3513 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347469.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347415 3514 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3514 Labeled Extract 3514 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347415.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347361 3516 Squamous Cell Carcinoma locoregional recurrence hypopharynx Extract 3516 Labeled Extract 3516 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347361.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347397 3516 Squamous Cell Carcinoma locoregional recurrence hypopharynx Extract 3516 Labeled Extract 3516 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347397.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347307 3518 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3518 Labeled Extract 3518 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347307.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347198 3521 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3521 Labeled Extract 3521 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347198.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347253 3523 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3523 Labeled Extract 3523 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347253.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347126 3526 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3526 Labeled Extract 3526 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347126.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347144 3526 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3526 Labeled Extract 3526 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347144.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349683 3530 Squamous Cell Carcinoma "cured, no recurrence" oral cavity Extract 3530 Labeled Extract 3530 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349683.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349647 3537 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3537 Labeled Extract 3537 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349647.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347090 3538 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3538 Labeled Extract 3538 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347090.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347108 3538 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3538 Labeled Extract 3538 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347108.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347054 3539 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3539 Labeled Extract 3539 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347054.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348855 3540 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3540 Labeled Extract 3540 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348855.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348873 3540 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3540 Labeled Extract 3540 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348873.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347036 3541 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3541 Labeled Extract 3541 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347036.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349827 3542 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3542 Labeled Extract 3542 Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349827.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349863 3542 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3542 Labeled Extract 3542 Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349863.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347721 3544 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3544 Labeled Extract 3544 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347721.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346982 3548 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3548 Labeled Extract 3548 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363346982.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347595 3559 Squamous Cell Carcinoma locoregional recurrence hypopharynx Extract 3559 Labeled Extract 3559 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347595.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347631 3559 Squamous Cell Carcinoma locoregional recurrence hypopharynx Extract 3559 Labeled Extract 3559 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347631.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346838 3560 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3560 Labeled Extract 3560 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363346838.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348765 3561 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3561 Labeled Extract 3561 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348765.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349737 3562 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3562 Labeled Extract 3562 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349737.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348801 3563 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3563 Labeled Extract 3563 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348801.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346928 3564 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3564 Labeled Extract 3564 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363346928.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346892 3573 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3573 Labeled Extract 3573 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363346892.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347289 3574 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3574 Labeled Extract 3574 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347289.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349575 3575 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3575 Labeled Extract 3575 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349575.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349629 3575 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3575 Labeled Extract 3575 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349629.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347937 3589 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3589 Labeled Extract 3589 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347937.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347991 3590 Squamous Cell Carcinoma "cured, no recurrence" oral cavity Extract 3590 Labeled Extract 3590 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347991.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348009 3590 Squamous Cell Carcinoma "cured, no recurrence" oral cavity Extract 3590 Labeled Extract 3590 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348009.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348027 3592 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3592 Labeled Extract 3592 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348027.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348063 3592 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3592 Labeled Extract 3592 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348063.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348045 3593 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3593 Labeled Extract 3593 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348045.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348117 3595 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3595 Labeled Extract 3595 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348117.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348207 3598 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3598 Labeled Extract 3598 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348207.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348225 3598 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3598 Labeled Extract 3598 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348225.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348243 3599 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3599 Labeled Extract 3599 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348243.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348279 3600 Squamous Cell Carcinoma locoregional recurrence oral cavity Extract 3600 Labeled Extract 3600 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348279.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348333 3603 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3603 Labeled Extract 3603 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348333.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348423 3609 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3609 Labeled Extract 3609 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348423.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348495 3613 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3613 Labeled Extract 3613 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348495.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348531 3615 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3615 Labeled Extract 3615 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348531.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348549 3615 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3615 Labeled Extract 3615 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348549.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348585 3616 Squamous Cell Carcinoma locoregional recurrence oral cavity Extract 3616 Labeled Extract 3616 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348585.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348603 3617 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3617 Labeled Extract 3617 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348603.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348639 3617 Squamous Cell Carcinoma "cured, no recurrence" hypopharynx Extract 3617 Labeled Extract 3617 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348639.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348621 3619 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3619 Labeled Extract 3619 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348621.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348657 3619 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3619 Labeled Extract 3619 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348657.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348711 3621 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3621 Labeled Extract 3621 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348711.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347343 3622 Squamous Cell Carcinoma locoregional recurrence oral cavity Extract 3622 Labeled Extract 3622 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347343.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347379 3622 Squamous Cell Carcinoma locoregional recurrence oral cavity Extract 3622 Labeled Extract 3622 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363347379.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348369 3623 Squamous Cell Carcinoma "cured, no recurrence" oral cavity Extract 3623 Labeled Extract 3623 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348369.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348405 3623 Squamous Cell Carcinoma "cured, no recurrence" oral cavity Extract 3623 Labeled Extract 3623 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348405.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349359 3740 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3740 Labeled Extract 3740 Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349359.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349395 3741 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3741 Labeled Extract 3741 Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349395.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349431 3741 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3741 Labeled Extract 3741 Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349431.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349449 3742 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3742 Labeled Extract 3742 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349449.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349521 3744 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3744 Labeled Extract 3744 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349521.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349611 3746 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3746 Labeled Extract 3746 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349611.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349071 3769 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3769 Labeled Extract 3769 Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349071.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349089 3769 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3769 Labeled Extract 3769 Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349089.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349197 3772 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3772 Labeled Extract 3772 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349197.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349233 3773 Squamous Cell Carcinoma locoregional recurrence oropharynx Extract 3773 Labeled Extract 3773 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349233.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348963 3775 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3775 Labeled Extract 3775 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348963.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348981 3775 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3775 Labeled Extract 3775 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363348981.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349035 3776 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3776 Labeled Extract 3776 Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349035.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349791 3778 Squamous Cell Carcinoma locoregional recurrence oral cavity Extract 3778 Labeled Extract 3778 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349791.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349971 3782 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3782 Labeled Extract 3782 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349971.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363350007 3782 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3782 Labeled Extract 3782 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363350007.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363350043 3783 Squamous Cell Carcinoma locoregional recurrence oral cavity Extract 3783 Labeled Extract 3783 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363350043.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363350097 3786 Squamous Cell Carcinoma "cured, no recurrence" larynx Extract 3786 Labeled Extract 3786 Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363350097.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349143 3787 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3787 Labeled Extract 3787 Cy5 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349143.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349179 3787 Squamous Cell Carcinoma "cured, no recurrence" oropharynx Extract 3787 Labeled Extract 3787 Cy3 cisplatin-based chemoradiation (RADPLAT) E-NCMF-8-raw- data-1363349179.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349881 11A Squamous Cell Carcinoma oral cavity Extract 11A Labeled Extract 11A Cy5 untreated E-NCMF-8-raw-data-1363349881.txt Ref untreated NCMF1363349845 11B Squamous Cell Carcinoma oral cavity Extract 11B Labeled Extract 11B Cy5 untreated E-NCMF-8-raw-data-1363349845.txt Ref untreated NCMF1363349917 11B Squamous Cell Carcinoma oral cavity Extract 11B Labeled Extract 11B Cy3 untreated E-NCMF-8-raw-data-1363349917.txt Ref untreated NCMF1363350133 12A Squamous Cell Carcinoma oral cavity Extract 12A Labeled Extract 12A Cy3 untreated E-NCMF-8-raw-data-1363350133.txt Ref untreated NCMF1363350169 12B Squamous Cell Carcinoma oral cavity Extract 12B Labeled Extract 12B Cy5 untreated E-NCMF-8-raw-data-1363350169.txt Ref untreated NCMF1363350187 13A Squamous Cell Carcinoma oropharynx Extract 13A Labeled Extract 13A Cy5 untreated E-NCMF-8-raw-data-1363350187.txt Ref untreated NCMF1363350205 13A Squamous Cell Carcinoma oropharynx Extract 13A Labeled Extract 13A Cy3 untreated E-NCMF-8-raw-data-1363350205.txt Ref untreated NCMF1363350223 13B Squamous Cell Carcinoma oropharynx Extract 13B Labeled Extract 13B Cy3 untreated E-NCMF-8-raw-data-1363350223.txt Ref untreated NCMF1363349899 common head and neck reference pool of 61 HNSCC Squamous Cell Carcinoma Extract common head and neck reference pool of 61 HNSCC Labeled Extract common head and neck reference pool of 61 HNSCC Cy5 untreated E-NCMF-8-raw- data-1363349899.txt Ref untreated NCMF1363350115 common head and neck reference pool of 61 HNSCC Squamous Cell Carcinoma Extract common head and neck reference pool of 61 HNSCC Labeled Extract common head and neck reference pool of 61 HNSCC Cy5 untreated E-NCMF-8-raw- data-1363350115.txt Ref untreated NCMF1363350151 common head and neck reference pool of 61 HNSCC Squamous Cell Carcinoma Extract common head and neck reference pool of 61 HNSCC Labeled Extract common head and neck reference pool of 61 HNSCC Cy3 untreated E-NCMF-8-raw- data-1363350151.txt Ref untreated NCMF1363350241 common head and neck reference pool of 61 HNSCC Squamous Cell Carcinoma Extract common head and neck reference pool of 61 HNSCC Labeled Extract common head and neck reference pool of 61 HNSCC Cy3 untreated E-NCMF-8-raw- data-1363350241.txt Ref untreated NCMF1363346856 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363346856.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346874 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363346874.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346910 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363346910.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346946 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363346946.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363346964 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363346964.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347000 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347000.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347018 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347018.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347072 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347072.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347162 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347162.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347180 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347180.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347216 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347216.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347234 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347234.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347271 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347271.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347325 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347325.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347433 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347433.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347487 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347487.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347541 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347541.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347577 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347577.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347703 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347703.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347739 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347739.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347757 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347757.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347793 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347793.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347811 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347811.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347865 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347865.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347901 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347901.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347919 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347919.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347955 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347955.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363347973 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363347973.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348081 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348081.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348099 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348099.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348135 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348135.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348153 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348153.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348171 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348171.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348189 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348189.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348261 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348261.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348297 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348297.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348315 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348315.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348351 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348351.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348387 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348387.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348441 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348441.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348459 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348459.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348477 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348477.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348513 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348513.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348567 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348567.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348675 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348675.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348693 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348693.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348729 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348729.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348747 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348747.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348783 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348783.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348837 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348837.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348891 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348891.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348909 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348909.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348927 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348927.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348945 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348945.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363348999 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363348999.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349017 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349017.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349053 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349053.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349107 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349107.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349125 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349125.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349161 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349161.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349215 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349215.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349287 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349287.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349305 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349305.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349323 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349323.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349341 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349341.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349377 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349377.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349413 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349413.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349467 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349467.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349485 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349485.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349503 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349503.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349539 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349539.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349557 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349557.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349593 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349593.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349665 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349665.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349701 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349701.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349719 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349719.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349755 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349755.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349773 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349773.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349809 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349809.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349935 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349935.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349953 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349953.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363349989 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363349989.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363350025 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363350025.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363350061 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy3 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363350061.txt Ref cisplatin-based chemoradiation (RADPLAT) NCMF1363350079 reference pool of 61 HNSCC Squamous Cell Carcinoma Extract reference pool of 61 HNSCC Labeled Extract reference pool of 61 HNSCC Cy5 cisplatin- based chemoradiation (RADPLAT) E-NCMF-8-raw-data-1363350079.txt Ref cisplatin-based chemoradiation (RADPLAT)