GEMICCL : Gene Expression and Mutation In Cancer Cell Line

Keyword	Values	Example	Description
TERMS:	Array of keywords in '[]'	TERMS:["adenocarcinoma", "Glioma"]	Any combination of tissue, histology and cancer what user want to search
Only one keyword	TERMS:"Lung"	When user find cell lines by only one keyword, query text does not be needed between parenthesis after TERM keyword
GENES:	Array of genes in '[]'	TERMS:["TP53", "EGFR"]	Any gene(s) which have mutations, expression or copy number variations
Only one gene	TERMS:TP53	When there is a gene which user is interested in, just type gene symbol after TERM keyword
CNVTYPE:	AMPLICATION	CNVTYPE:[AMPLIFICATION]	To find cell lines which have amplification copy number variation of genes in the previous GENES keyword, type 'AMPLIFICATION' text
DELETION	CNVTYPE:[DELETION]	To find cell lines which have deletion copy number variation of genes in the previous GENES keyword, type 'DELETION'
NEUTRAL	CNVTYPE:[NEUTRAL]	To find cell lines which have neutral copy number variation of genes in the previous GENES keyword, type 'NEUTRAL'
MUTATION:	'Y'	MUTATION:[Y]	To find cell lines which have mutations of genes in the previous GENES keyword, this keyword must be 'Y'
'N'	MUTATION:[N]	To find cell lines which does not have mutations of genes in the previous GENES keyword, this keyword must be 'N'
MUTATIONTYPE:	IN_FRAME	MUTATIONTYPE:[IN_FRAME]	To find cell lines which have 'In_frame' mutation of genes in the previous GENES keyword
MISSENSE	MUTATIONTYPE:[MISSENSE]	To find cell lines which have 'Missense' mutation of genes in the previous GENES keyword
FRAME_SHIFT	MUTATIONTYPE:[FRAME_SHIFT]	To find cell lines which have 'Frame_shift' mutation of genes in the previous GENES keyword
NONSENSE	MUTATIONTYPE:[NONSENSE]	To find cell lines which have 'Nonsense' mutation of genes in the previous GENES keyword
SILENT	MUTATIONTYPE:[SILENT]	To find cell lines which have 'Silent' mutation of genes in the previous GENES keyword
UNKNOWN	MUTATIONTYPE:[UNKNOWN]	To find cell lines which have 'Unknown' mutation of genes in the previous GENES keyword
EXPRESSION:	From N TO N	10TO80	To find cell lines which have from X1 to X2 percentile gene expression level of genes in the previous GENEs keyword
GREATER THAN EQUAL N(Percentile)	GE40	To find cell lines which have grater than and equal to X percentile gene expression level of genes in the previous GENEs keyword
LESS THAN EQUAL N(Percentile)	LE30	To find cell lines which have less than and equal to X percentile gene expression level of genes in the previous GENEs keyword
GRATER THAN N(Percentile)	GT60	To find cell lines which have grater than X percentile gene expression level of genes in the previous GENEs keyword
LESS THAN N(Percentile)	LT70	To find cell lines which have less than X percentile gene expression level of genes in the previous GENEs keyword
SOURCETYPE:	CCLE	CNVTYPE:[CCLE]	To find cell lines from CCLE DB source
COSMIC	CNVTYPE:[COSMIC]	To find cell lines from COSMIC DB source
NCI60	CNVTYPE:[NCI60]	TO find cell lines from NCI60 DB source

TERMS:

Array of keywords in '[]'

TERMS:["adenocarcinoma", "Glioma"]

Any combination of tissue, histology and cancer what user want to search

Only one keyword

TERMS:"Lung"

When user find cell lines by only one keyword, query text does not be needed between parenthesis after TERM keyword

GENES:

Array of genes in '[]'

TERMS:["TP53", "EGFR"]

Any gene(s) which have mutations, expression or copy number variations

Only one gene

TERMS:TP53

When there is a gene which user is interested in, just type gene symbol after TERM keyword

CNVTYPE:

AMPLICATION

CNVTYPE:[AMPLIFICATION]

To find cell lines which have amplification copy number variation of genes in the previous GENES keyword, type 'AMPLIFICATION' text

DELETION

CNVTYPE:[DELETION]

To find cell lines which have deletion copy number variation of genes in the previous GENES keyword, type 'DELETION'

NEUTRAL

CNVTYPE:[NEUTRAL]

To find cell lines which have neutral copy number variation of genes in the previous GENES keyword, type 'NEUTRAL'

MUTATION:

'Y'

MUTATION:[Y]

To find cell lines which have mutations of genes in the previous GENES keyword, this keyword must be 'Y'

'N'

MUTATION:[N]

To find cell lines which does not have mutations of genes in the previous GENES keyword, this keyword must be 'N'

MUTATIONTYPE:

IN_FRAME

MUTATIONTYPE:[IN_FRAME]

To find cell lines which have 'In_frame' mutation of genes in the previous GENES keyword

MISSENSE

MUTATIONTYPE:[MISSENSE]

To find cell lines which have 'Missense' mutation of genes in the previous GENES keyword

FRAME_SHIFT

MUTATIONTYPE:[FRAME_SHIFT]

To find cell lines which have 'Frame_shift' mutation of genes in the previous GENES keyword

NONSENSE

MUTATIONTYPE:[NONSENSE]

To find cell lines which have 'Nonsense' mutation of genes in the previous GENES keyword

SILENT

MUTATIONTYPE:[SILENT]

To find cell lines which have 'Silent' mutation of genes in the previous GENES keyword

UNKNOWN

MUTATIONTYPE:[UNKNOWN]

To find cell lines which have 'Unknown' mutation of genes in the previous GENES keyword

EXPRESSION:

From N TO N

10TO80

To find cell lines which have from X1 to X2 percentile gene expression level of genes in the previous GENEs keyword

GREATER THAN EQUAL N(Percentile)

GE40

To find cell lines which have grater than and equal to X percentile gene expression level of genes in the previous GENEs keyword

LESS THAN EQUAL N(Percentile)

LE30

To find cell lines which have less than and equal to X percentile gene expression level of genes in the previous GENEs keyword

GRATER THAN N(Percentile)

GT60

To find cell lines which have grater than X percentile gene expression level of genes in the previous GENEs keyword

LESS THAN N(Percentile)

LT70

To find cell lines which have less than X percentile gene expression level of genes in the previous GENEs keyword

SOURCETYPE:

CCLE

CNVTYPE:[CCLE]

To find cell lines from CCLE DB source

COSMIC

CNVTYPE:[COSMIC]

To find cell lines from COSMIC DB source

NCI60

CNVTYPE:[NCI60]

TO find cell lines from NCI60 DB source

Oprator	Description
AND \| and	Returns cell lines existing between two query terms
OR \| or	Returns cell lines existing in either of two query terms

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