
Dear Dr. Plizzola,

Now I am done with artificial fully methylated data and MEDME analysis. So, I would like to show you the data and ask doubts to go further. 

Following is the data obtained from smooth function
"V1"    "V2"    "V3"    "V4"
"A_17_P16499695"        0.6494378084742 -0.492466374892136      -0.422196325432134      -0.0320280553522771
"A_17_P00917694"        -0.203727237011732      0.0180055762341851      0.00673134043866919     0.437505835919691
"A_17_P05822757"        -0.2624830602918        -0.267402421470106      -0.892633555689626      -0.095066617651747
"A_17_P11201690"        0.398597328778726       -0.115790664303932      -0.50134339502071       0.0372322294924269
"A_17_P15518473"        0.256514445796715       0.443915215417359       0.0364180402923375      0.0776241952017851
"A_17_P11189908"        0.718052106295435       0.0492163040883114      -0.770470136219705      -0.241915478429616
"A_17_P17268257"        0.693399037168038       0.608191021500769       1.11052034793374        1.21791753773972
"A_17_P07299116"        -0.454641426498295      -0.0108170868279176     -0.603155929394701      -0.147985922703689
"A_17_P10258961"        0.221998685136869       0.105838604181660       -0.609621004305267      0.275607454708045


Following is the data obtained from AMS function

"V1"    "V2"    "V3"    "V4"
"A_17_P16499695"        32      1       1       32
"A_17_P00917694"        1       32      32      32
"A_17_P05822757"        1       1       1       29.8234198110255
"A_17_P11201690"        32      27.0622296124447        1       32
"A_17_P15518473"        32      32      32      32
"A_17_P11189908"        32      32      1       1
"A_17_P17268257"        32      32      32      32
"A_17_P07299116"        1       32      1       17.2568692096704


Following is the data obtained from RMS function

"V1"    "V2"    "V3"    "V4"
"A_17_P16499695"        0.630019152582239       0.0224006809807018      0.0224006809807018      0.525084096217918
"A_17_P00917694"        0.40485628843651        0.558850704897022       0.635847913127279       0.635847913127279
"A_17_P05822757"        0.0244329519078063      0.0244329519078063      0.0244329519078063      0.141806490251356
"A_17_P11201690"        0.719610510811024       0.531449873540947       0.371049169636934       0.680448534158954
"A_17_P15518473"        0.479067027522034       0.580720092915215       0.573913209854228       0.355691056910569
"A_17_P11189908"        1.31194857161599        1.24137524424337        0.0409983928629998      0.0409983928629998
"A_17_P17268257"        0.552604984195927       0.619261616530845       0.619261616530845       0.619261616530845
"A_17_P07299116"        0.0315159155373464      0.437289500615857       0.120181991903205       0.245333995626829


Now I want to continue this for further analysis like to fetch Hyper and Hypomethylated probes. I.e., how should I make filtration? For example,  In "A_17_P05822757"        1       1       1       29.8234198110255 (In the above data "V1" corresponds to artificially fully methylated data) in order to say, Probe A_17_P05822757 is Hyper / Hypo methylated Should I compare the values across the experiments (Ex, V1, V2, V3, V4) and decide manually? I also would love to get heatmap for the filtered data. I tried in many ways but I could not. Only thing on which I am worried is how to bring the data in presentable form? So, can you please suggest me how should I go further? 

Thanking you in anticipation.

Regards,

Prashantha,
Bioinformatician,
Manipal University,
India

######################################################################
Attention: 
This e-mail message is privileged and confidential. If you are not the 
intended recipient please delete the message and notify the sender. 
Any views or opinions presented are solely those of the author.

######################################################################

	[[alternative HTML version deleted]]

