title: WBM, P1231-03-BS2608-U133Plus-2

tag: datesample

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tag: gender

value: Male

tag: race

tag: ageatsampledate

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tag: transplant

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tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Progressive Disease

tag: monthspfs

value: TRUE

tag: albumin

tag: ldh


title: WBM, P1113-03-BS2092-U133Plus-2

status: Public on Aug 31 2019

type: RNA

city: La Jolla

first: Samuel

last: Danziger

state: CA

address: 10300 Campus Point Dr

country: USA

institute: Celgene

hyb_protocol: Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on human GeneChip. U133 plus 2.0 chips are washed and stained further in affymetrix fluidics station

scan_protocol: Chips were scanned using the HG-U133 Plus 2.0 v2.2 on a Affymetrix Genechip scanner

data_processing:
Gene-expression data were generated using the Affymetrix Human Genome U133 Plus 2.0 Array (Thermo Fisher Scientific) chips from WBM biopsies and CD138+-selected myeloma plasma cells. Risk status was assessed by ISS stage as defined by the International Myeloma Working Group (IMWG)25. CD138+ gene-expression data were used to generate the GEP-70 score55. A total of 1,360 Affymetrix Human Genome U133 Plus 2.0 gene-expression microarrays were derived from WBM biopsies from 461 samples from patients.
Unsupervised clustering of the top 10% most variable estimated non-tumor gene expression profiles (643 genes) across all time points was performed using the R package ConsensusClusterPlus (Bioconductor). Bayesian information criterion (BIC) was used to select the optimal number of clusters. The cluster centroids were calculated based on the median expression of each of the genes for the patient samples belonging to that cluster, and the sum of the squared distances was taken for the entire patient cluster. The residual sum squared distances across all clusters were used to calculate the BIC score, with the assumption of a Gaussian special case, as follows:  BIC = n × ln(RSS/n) + ln(n) × k, where n is the number of observations, RSS is the residual sum of squares, and k is the number of clusters. The maximum possible number of clusters was set to the square root of  the number of samples; thus, for the 867 patient samples, the optimal number of clusters determined by the algorithm was 13 out of a possible maximum of 29 clusters. Several of these microenvironment clusters were comprised of very few patient samples; therefore, we combined those micro-clusters defined as those containing less than a threshold of 5% of the samples.   For supervised machine learning survival analysis, cell-type estimates for cells with similar functions and gene expression signatures were added together to create 19 cell types for assessment.
The final signals correspond to probes that map to annotated genes as reported by Bioconductor's 'hgu133plus2.db' or BioMart repository ENSEMBL_MART_ENSEMBL with probes matching to 'LINC00597' added by hand.  Where multiple probes map to a particular gene, the median reported signal was used.

label: biotin

molecule: total RNA

organism: Homo sapiens

source_name: whole bone marrow

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from200ng total RNA

extract_protocol: RNA extraction and isolation was performed with the AllPrep kit by Qiagen

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value: MIRT

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tag: samexclude

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value: White / Caucasian

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tag: datedeath

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tag: datelastresponse

tag: responselast

value: Confirmed NCR

tag: dateprogress

tag: censorforosdate

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value: FALSE

tag: iss

value: II

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1165-02-BS2327-U133Plus-2

tag: datesample

tag: fnpatid

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tag: descprotocol

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value: Confirmed CR

tag: monthspfs

tag: albumin

tag: ldh

value: I


title: WBM, P1141-04-BS2111-U133Plus-2

tag: datesample

tag: fnpatid

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tag: point

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value: MS

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tag: responselast

value: Stable

tag: dateprogress

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tag: iss

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tag: hyperdiploidclinicalfish


title: WBM, P1130-01-BS2302-U133Plus-2

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tag: gender

value: Male

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tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: monthspfs

tag: albumin

tag: ldh

value: III


title: WBM, P1144-04-BS2162-U133Plus-2

tag: datesample

tag: fnpatid

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tag: descprotocol

tag: ftprotocolbase

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tag: celname

value: Female

value: Y

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tag: iss

tag: sampledatetime

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title: WBM, P1164-00-BS2419-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

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tag: posttreatmentpretransplant

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tag: poststartmaintenance

tag: eventid

tag: sampleID

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tag: isexpress

tag: sampletype

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tag: cluster

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tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

value: Black

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Confirmed Response

tag: monthspfs

value: TRUE

tag: albumin

tag: ldh


title: WBM, P1117-03-BS2133-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: A-BeforeTreatment

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tag: posttransplantnomaintenance

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tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

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tag: point

value: Baseline

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tag: cmyc

tag: wnt

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value: White / Caucasian

tag: dateimwgrelapse

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tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Onset PR

tag: dateprogress

tag: censorforosdate

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tag: iss

tag: sampledatetime

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title: WBM, P1175-00-BS2160-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

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value: MF

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tag: numberoftransplants

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tag: ftprotocol

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tag: dateebmtrelapse

value: Confirmed CR

tag: monthspfs

tag: albumin

tag: ldh

value: FALSE


title: WBM, P1069-00-BS1807-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

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tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

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tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: PR

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value: Refused

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tag: dateprogress

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tag: censorforpfsdate

tag: iss

value: I

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1088-04-BS1985-U133Plus-2

tag: datesample

tag: fnpatid

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tag: descprotocol

tag: ftprotocolbase

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tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Relapse

tag: monthspfs

tag: albumin

tag: ldh

value: III


title: WBM, P1112-03-BS2090-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

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tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

value: Male

value: Y

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1141-05-BS2177-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: B-PostInduction

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: sampleprotocol

tag: point

value: C1 48Hr Vel

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

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tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Stable

tag: monthspfs

value: TRUE

tag: albumin

tag: ldh


title: WBM, P1101-06-BS2420-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: MF

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

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tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1027-07-BS1611-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: A-BeforeTreatment

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tag: samexclude

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tag: posttreatmentpretransplant

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tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

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tag: isexpress

tag: sampletype

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tag: point

value: Baseline

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tag: nfkbscore

tag: polypc

tag: ifn

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tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

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tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

value: White / Caucasian

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Confirmed CR

tag: monthspfs

tag: albumin

tag: ldh

value: FALSE


title: WBM, P1086-05-BS1873-U133Plus-2

tag: datesample

tag: fnpatid

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tag: descprotocol

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value: PR

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tag: datelastcontact

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tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

value: I

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1003-05-BS1581-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

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tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

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tag: sorting

tag: sampleprotocol

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tag: proindex

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tag: polypc

tag: ifn

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tag: wnt

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tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

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tag: datesamplernbx

tag: gender

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Relapse

tag: monthspfs

tag: albumin

tag: ldh

value: III


title: WBM, P1069-04-BS1841-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

value: Female

value: Refused

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1068-00-BS1688-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

value: Male

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

value: Y

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Progression

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P1086-04-BS2165-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: B-PostInduction

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: C1 48Hr Vel

tag: cluster

value: MS

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

value: TRUE

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P0995-04-BS1902-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

value: White / Caucasian

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Confirmed CR

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P1081-06-BS2121-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: PR

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

value: II

tag: sampledatetime

value: FALSE

tag: hyperdiploidclinicalfish


title: WBM, P1079-05-BS2158-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: MF

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Confirmed Response

tag: monthspfs

tag: albumin

tag: ldh

value: I


title: WBM, P1077-04-BS1984-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

tag: pointgroup

value: A-BeforeTreatment

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: Baseline

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1081-07-BS2013-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

value: Male

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

value: Y

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P1088-05-BS1994-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: B-PostInduction

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: C1 48Hr Vel

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

value: Female

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Relapse

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

value: III

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1010-00-BS1592-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

value: White / Caucasian

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: monthspfs

value: TRUE

tag: albumin

tag: ldh


title: WBM, P1027-06-BS1838-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: PR

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Confirmed CR

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

value: FALSE

tag: hyperdiploidclinicalfish


title: WBM, P1079-04-BS2012-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Confirmed Response

tag: monthspfs

tag: albumin

tag: ldh

value: I


title: WBM, P1053-05-BS1777-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: MS

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Progression

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P0995-03-BS1694-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: A-BeforeTreatment

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: sampleprotocol

tag: point

value: Baseline

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P0996-00-BS1729-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: B-PostInduction

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: C1 48Hr Vel

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

value: Y

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1158-01-BS1627-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

value: Female

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Complete Response

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P0993-06-BS1727-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

value: Male

value: White / Caucasian

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

value: TRUE

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1064-05-BS1696-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Remission

tag: monthspfs

tag: albumin

tag: ldh

value: FALSE


title: WBM, P1003-06-BS1628-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: C1 48Hr VDTPACE

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Relapse

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

value: III

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1063-05-BS1489-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

value: Black

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Confirmed CR

tag: monthspfs

tag: albumin

tag: ldh

value: II


title: WBM, P1023-02-BS1533-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: A-BeforeTreatment

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: sampleprotocol

tag: point

value: Baseline

tag: cluster

value: MS

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

value: I

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1010-03-BS1625-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: B-PostInduction

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: C1 48Hr Vel

tag: cluster

value: MF

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

value: Male

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

value: Y

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P0990-04-BS1593-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: C1 48Hr VDTPACE

tag: cluster

value: PR

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

value: White / Caucasian

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

value: TRUE

tag: iss

tag: sampledatetime

value: FALSE

tag: hyperdiploidclinicalfish


title: WBM, P1063-00-BS1584-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: Extra Sample

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

value: Black

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Confirmed CR

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P0990-00-BS1465-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: A-BeforeTreatment

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: sampleprotocol

tag: point

value: Baseline

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P0993-01-BS1527-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: MS

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: monthspfs

tag: albumin

tag: ldh

value: I


title: WBM, P1064-00-BS1502-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

value: Female

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Remission

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1120-03-BS1293-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

value: Male

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

value: Y

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: monthspfs

tag: albumin

tag: ldh


title: WBM, P0521-00-BS1791-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: PR

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: celname

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: sCR

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: iss

value: II

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, P1053-07-BS1189-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

value: White / Caucasian

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

value: Progression

tag: monthspfs

value: TRUE

tag: albumin

tag: ldh

value: FALSE


title: WBM, MGUS, P3864-01-BC16473-U133Plus-2

data_processing:
Gene-expression data were generated using the Affymetrix Human Genome U133 Plus 2.0 Array (Thermo Fisher Scientific) chips from WBM biopsies and CD138+-selected myeloma plasma cells. Risk status was assessed by ISS stage as defined by the International Myeloma Working Group (IMWG)25. CD138+ gene-expression data were used to generate the GEP-70 score55. A total of 1,360 Affymetrix Human Genome U133 Plus 2.0 gene-expression microarrays were derived from WBM biopsies from 461 samples from the  patients.
Unsupervised clustering of the top 10% most variable estimated non-tumor gene expression profiles (643 genes) across all time points was performed using the R package ConsensusClusterPlus (Bioconductor). Bayesian information criterion (BIC) was used to select the optimal number of clusters. The cluster centroids were calculated based on the median expression of each of the genes for the patient samples belonging to that cluster, and the sum of the squared distances was taken for the entire patient cluster. The residual sum squared distances across all clusters were used to calculate the BIC score, with the assumption of a Gaussian special case, as follows:  BIC = n × ln(RSS/n) + ln(n) × k, where n is the number of observations, RSS is the residual sum of squares, and k is the number of clusters. The maximum possible number of clusters was set to the square root of  the number of samples; thus, for the 867 patient samples, the optimal number of clusters determined by the algorithm was 13 out of a possible maximum of 29 clusters. Several of these microenvironment clusters were comprised of very few patient samples; therefore, we combined those micro-clusters defined as those containing less than a threshold of 5% of the samples.   For supervised machine learning survival analysis, cell-type estimates for cells with similar functions and gene expression signatures were added together to create 19 cell types for assessment.

source_name: MGUS Patients

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

value: MIRT

tag: pointgroup

value: AMM

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: First - Untreated Patient

tag: cluster

value: MF

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: datepulled

tag: chipdate

tag: celname

tag: tissue

value: whole bone marrow (WBM)


title: WBM, BI14-000867

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: Signal Genetics

tag: pointgroup

value: H-PostMaintenance

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: sampleprotocol

tag: point

value: Baseline

tag: cluster

tag: risk

tag: tc

tag: datapulled

tag: datechip

tag: protocolsample

tag: datesamplernbx

tag: gender

tag: race

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: monthspfs

tag: albumin

tag: ldh

tag: iss

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, MGUS, P3948-01-BC17319-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

value: MGUS

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, P4011-01-BC18142-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: Physician Request (Comment)

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, P3936-01-BC17255-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

value: First - Treated patient

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, P1705-02-BS7705-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

value: SWOG 0120

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, P3103-02-BC9619-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

value: PR

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, P2156-02-BC0764-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, P2843-01-BS9684-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

value: MS

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, P0462-03-BS6067-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: A-BeforeTreatment

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: datapulled

tag: datechip

tag: datesamplernbx

tag: gender

value: Female

tag: race

value: White / Caucasian

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

value: Y

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Confirmed CR

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: monthspfs

value: TRUE

tag: albumin

tag: ldh

tag: iss

value: I

tag: sampledatetime

tag: hyperdiploidclinicalfish


title: WBM, MGUS, P2772-02-BC0903-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

value: MIRT

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

value: MF

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue

value: whole bone marrow (WBM)


title: WBM, MGUS, BI14-000714

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

value: Signal Genetics

tag: pointgroup

value: AMM

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: point

value: 6 Mo Follow-Up

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, BI14-000876

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

value: MGUS

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

value: Baseline

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, P1115-02-BS2260-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

value: SWOG 0120

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: 12 Mo Follow-Up

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, BI14-000723

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, P2876-03-BC14022-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

value: PR

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, P3941-01-BC17275-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000685

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: 2 Yr Follow-Up

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, P1632-04-BC0936-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, P1016-03-BS4747-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

tag: pointgroup

value: A-BeforeTreatment

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

tag: cluster

value: HY

tag: risk

tag: proindex

tag: nfkbscore

tag: datapulled

tag: datechip

tag: datesamplernbx

tag: gender

value: Female

tag: race

value: White / Caucasian

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

value: Y

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: SD

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: monthspfs

tag: albumin

tag: ldh

tag: iss

tag: sampledatetime

value: FALSE

tag: hyperdiploidclinicalfish


title: WBM, MGUS, BI14-000707

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

value: Signal Genetics

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: First - Untreated Patient

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue

value: whole bone marrow (WBM)


title: WBM, MGUS, BI14-000708

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

value: AMM

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, P2582-05-BC17306-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

value: MIRT

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

value: Extra Sample

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000679

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

value: MGUS

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, BI14-000872

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

value: MF

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000684

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

value: PR

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, BI14-000709

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000678

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, P1655-08-BS9653-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

value: SWOG 0120

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

value: 6 Mo Follow-Up

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000672

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: First - Treated <= 1 cycle

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: WBM, MGUS, BI14-000613

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000625

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore


title: glomus tumor 2

type: SRA

city: Boulogne

first: Jean-François

last: Emile

state: Ile-de-France

address: 9 avenue Charles de Gaulle

department: Pathology

country: France

institute: Hopital Ambroise Paré

library_source: transcriptomic

data_processing:
Bioinformatic analysis was performed according protocol proposed by Trapnell et al. [16]
The sequencing data were uploaded to the Galaxy public web platform from the Curie institute (http://galaxy-public.fr/).
Genome_build: hg19
Supplementary_files_format_and_content: For fusion gene discovery, we employed TopHat2, Defuse, TopHat fusion post

source_name: tumoral cells

extract_protocol:
RNA were extracted, using RNeasy Mini Kit (Qiagen) according to the manufacturer’s instructions, from frozen or formalin fixed paraffin embedded (FFPE) samples after selection on H&E slides of the areas containing at least 50% of tumor cells
Truseq Stranded mRNA kit

tag: tissue

value: glomus tumor


title: WBM, MGUS, BI14-000612

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname


title: WBM, MGUS, BI14-000567

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: Physician Request (Comment)

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: tissue


title: WBM, MGUS, BI14-000532

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname


title: WBM, MGUS, BI14-000531

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: Baseline

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: tissue


title: WBM, MGUS, BI14-000543

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

value: 4 Yr Follow-Up

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname


title: WBM, MGUS, BI14-000493

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

value: Signal Genetics

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: tissue


title: WBM, MGUS, BI14-000546

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname


title: glomus tumor 1

tag: tissue


title: PBMC_35.4_Dep

city: London

first: Harry

last: Pickering

state: Greater London

address: LSHTM, Keppel Street

country: United Kingdom

institute: London School of Hygiene and Tropical Medicine

data_processing:
trim low quality tails, polyA tails and adapters (bbmap): k=13 ktrim=r useshortkmers=t mink=5 qtrim=r trimq=10 minlength=20 int=f
align to human genome (hg38)  (STAR aligner): --outFilterType BySJout --outFilterMultimapNmax 20 --alignSJoverhangMin 8 --alignSJDBoverhangMin 1 --outFilterMismatchNmax 999 --outFilterMismatchNoverLmax 0.1 --alignIntronMin 20 --alignIntronMax 1000000 --alignMatesGapMax 1000000 --outSAMattributes NH HI NM MD --outSAMtype BAM SortedByCoordinate
indexed BAM files (samtools)
counted reads per sample (HTSeq-count)
normalised counts by variance stabilising transformation (DESeq2)
Genome_build: hg38
Supplementary_files_format_and_content: Tab-separated ensembl transcript and read count per sample (.txt)

source_name: PBMC

growth_protocol: Human PBMC purified by gradient centrifugation, stimulated in vitro for 18 hours with 0.75ng/ml recombinant human IL-15

extract_protocol:
RNA was extracted from cell pellets using Norgen RNA/DNA purification kits
Library preparation was performed using QuantSeq 3’ mRNA-Seq Library Prep Kit FWD for Illumina

tag: cell fraction

value: NK cell depleted

tag: stimulation condition

value: IL-15 (18 hours)

tag: time point

value: 30 days post-vaccination


title: PBMC_37.4_Dep


title: WBM, MGUS, BI14-000511

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

value: AMM

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: point

value: First - Untreated Patient

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

value: whole bone marrow (WBM)


title: WBM, MGUS, BI14-000518

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

value: MF

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000499

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

value: MGUS

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: 12 Mo Follow-Up

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: WBM, MGUS, BI14-000522

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

value: SWOG 0120

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

value: 5 Yr Follow-Up

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000483

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: WBM, MGUS, BI14-000594

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

value: PR

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000564

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: WBM, MGUS, BI14-000484

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000469

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: PBMC_35.1_Dep

tag: cell fraction

tag: stimulation condition

tag: time point

value: Baseline (pre-vaccination)


title: WBM, MGUS, BI14-000519

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000463

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: WBM, MGUS, BI14-000457

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, P1158-03-BS2263-U133Plus-2

tag: datesample

tag: fnpatid

tag: datebasesample

tag: descprotocol

tag: ftprotocolbase

tag: batch

value: MIRT

tag: pointgroup

value: B-PostInduction

tag: daysafterbasesample

tag: samexclude

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: sampleprotocol

tag: point

value: Pre Transplant 1

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: datapulled

tag: datechip

tag: datesamplernbx

tag: gender

value: Female

tag: race

value: White / Caucasian

tag: ageatsampledate

tag: numberoftransplants

tag: transplant

value: Y

tag: ftprotocol

tag: dateenrolled

tag: dateebmtrelapse

tag: dateimwgrelapse

tag: datedeath

tag: datelastcontact

tag: datelastresponse

tag: responselast

value: Complete Response

tag: dateprogress

tag: censorforosdate

tag: monthsos

tag: censorforpfsdate

tag: monthspfs

value: TRUE

tag: albumin

tag: ldh

tag: iss

value: I

tag: sampledatetime

value: FALSE

tag: hyperdiploidclinicalfish


title: PBMC_37.1_Dep

tag: cell fraction

value: NK cell depleted

tag: stimulation condition

value: IL-15 (18 hours)

tag: time point


title: WBM, MGUS, BI14-000456

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

value: Signal Genetics

tag: pointgroup

value: MGUS

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

value: RNBX-Random Biopsy

tag: sorting

tag: point

value: First - Untreated Patient

tag: cluster

value: MF

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue

value: whole bone marrow (WBM)


title: PBMC_25.4_Dep

tag: cell fraction

tag: stimulation condition

tag: time point

value: 30 days post-vaccination


title: WBM, MGUS, BI14-000445

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: WBM, MGUS, BI14-000441

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: PBMC_19.4_Dep

tag: cell fraction

tag: stimulation condition

tag: time point


title: WBM, MGUS, BI14-000434

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

value: AMM

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

value: PR

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: PBMC_19.1_Dep

tag: cell fraction

tag: stimulation condition

tag: time point

value: Baseline (pre-vaccination)


title: WBM, MGUS, BI14-000454

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: PBMC_16.4_Dep

tag: cell fraction

tag: stimulation condition

tag: time point


title: PBMC_16.1_Dep


title: PBMC_35.4_NK

value: NK cell enriched


title: PBMC_31.4_NK


title: WBM, MGUS, BI14-000430

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: Baseline

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: PBMC_31.1_NK

tag: cell fraction

tag: stimulation condition

tag: time point


title: WBM, MGUS, BI14-000412

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

value: MS

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000420

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: WBM, MGUS, BI14-000415

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

value: SWOG 0120

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

value: Extra Sample

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue


title: WBM, MGUS, BI14-000417

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: posttransplantpremaintenance

tag: posttransplantnomaintenance

tag: postconsolidationpremaintenance

tag: sampleID

tag: chiptype

tag: isexpress

tag: sampletype

tag: sorting

tag: point

value: 12 Mo Follow-Up

tag: cluster

tag: risk

tag: proindex

tag: nfkbscore

tag: polypc

tag: ifn

tag: cmyc


title: WBM, MGUS, BI14-000419

tag: datesample

tag: fnpatid

tag: datebasesample

tag: sampleprotocol

tag: batch

tag: pointgroup

tag: daysafterbasesample

tag: beforetreatment

tag: posttreatmentpretransplant

tag: posttransplantpreconsolidation

tag: postconsolidationnomaintenance

tag: poststartmaintenance

tag: eventid

tag: wnt

tag: centrosomeindex

tag: pcscorebiopsy

tag: wmprob

tag: refchip

tag: fyprimary

tag: qyconverted

tag: tc

tag: datepulled

tag: chipdate

tag: protocolsample

tag: celname

tag: tissue