1 Package ‘ALL’ May 2, 2019 A data package Title Version 1.25.0 2009-07-22 Date Author Xiaochun Li Description Data of T- and B-cell Acute Lymphocytic Leukemia from the Ritz Labora- tory at the DFCI (includes Apr 2004 versions) Maintainer
2 2 ALL Usage data(ALL) Format The different covariates are: cod : The patient IDs. • • diagnosis The date of diagnosis. The sex of the patient, coded as • and F . sex M age The age of the patient in years. • BT The type and stage of the disease; B indicates B-cell ALL while a • indicates T-cell ALL. T • A factor with two levels, either CR indicate that remission was achieved or REF remission indicating that the patient was refractory and remission was not achieved. • A vector with the following values: 1: “CR”, remission achieved; 2: “DEATH IN CR”, CR patient died while in remission; 3: “DEATH IN INDUCTION”, patient died while in induction therapy; 4: “REF”, patient was refractory to therapy. date.cr • The date on which remission was achieved. • t(4;11) A logical vector indicating whether a t(4;11) translocation was detected. • t(9;22) A logical vector indicating whether a t(9;22) translocation was detected. • cyto.normal A logical vector indicating whether the cytogenetics were normal. • citog A vector indicating the various cytogenetic abnormalities that were detected. mol.biol • The assigned molecular biology of the cancer (mainly for those with B-cell ALL), BCR\/ABL, ALL\/AF4, E2APBX etc. • fusion protein For those with BCR\/ABL which of the fusion proteins was detected, p190 , , p210 p190\/p210 . • The patients response to multidrug resistance, either NEG , or mdr . POS • kinet ploidy, either diploid or hyperd. • ccr A vector indicating whether the patient had continuous complete remission nor not. • relapse A vector indicating whether the patient had relapse or not. transplant Did the patient receive a bone marrow transplant or not. • f.u Follow-up data. The possible values are 1: “AUBMT \/ REL”: autologous bone marrow • transplant and subsequent relapse; 2: “BMT \/ CCR”: allogeneic bone marrow transplant and still in continuous complete remission; 3: “BMT \/ DEATH IN CR”: after allogeneic bone marrow transplant patient died without relapsing; 4: “BMT \/ REL”: after allogeneic bone marrow transplant patient relapsed; 5: “CCR”: patient was in continuous complete remission; 6: “CCR \/ OFF”: patient was in continuous complete remission but off-protocol for some reasons; 7: “DEATH IN CR”: died when in complete remission; 8: “MUD \/ DEATH IN CR”: unrelated allogeneic bone marrow transplant and death without relapsing; 9: “REL”: relapse; 10: “REL \/ SNC”: relapse occurred at central nervous system. • date last seen Date the patient was last seen. Source Sabina Chiaretti, Xiaochun Li, Robert Gentleman, Antonella Vitale, Marco Vignetti, Franco Man- delli, Jerome Ritz, and Robin Foa Gene expression profile of adult T-cell acute lymphocytic leukemia identifies distinct subsets of patients with different response to therapy and survival. Blood, 1 April 2004, Vol. 103, No. 7.
3 tojulian 3 Examples data(ALL) tojulian Convert Calendar Date to Julian Time Description Convert Calendar Date in the form of "%m/%d/%Y" to Julian time, number of days since 1970-01- 01 in the time zone of "GMT". Usage tojulian(x) Arguments x Date to convert Author(s) Robert Gentleman Examples ds <- tojulian(c("4/8/2000", "4/30/2000")) ds-ds
4 Index Topic datasets ∗ ALL , 1 ∗ Topic programming tojulian , 3 ALL , 1 tojulian , 3 4