title: mSAGE_Heart_normal_TS15_MMD_SM206

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1825
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: heart, atrioventricular canal, normal, microscope dissected, mid-gestation embryo, extracted short sage, ts19


title: mSAGE_Esophagus_normal_TS24_MMD_SM210

status: Public on Mar 20 2009

type: SAGE

anchor: NlaIII

city: Bethesda

first: Cancer Genome Anatomy Project

last: CGAP

state: MD

department: Cancer Genome Anatomy Project

country: USA

institute: National Cancer Institute

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1829
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

molecule: total RNA

organism: Mus musculus

source_name: esophagus, normal, microscope dissected, extracted short sage, ts24, late gestation embryo

tag: organ/tissue

value: esophagus

tag: tissue preparation

value: microscope dissected

tag: age

tag: sex

value: unknown


title: mSAGE_Embyonic_stem_cell_normal_GM-CSF_IL3_CL

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 1071
Laboratory: Kathleen Nolan, Paul Fairchild, Stephen Cobbold, Herman Waldmann

source_name: embyronic stem cell, normal, cell line, differentiated, dendritic cell, short

value: stem cell

value: cell line

tag: other information

value: Dendritic cells were produced by directed differentiation of the CBA/Ca mouse derived embryonic stem cell line ESF 116 (Fairchild et al, Curr. Biol. 10:1515-8 (2000)).


title: mSAGE_Heart_normal_TS19_MMD_SM051

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1229
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: heart, ventricle, normal, microscope dissected, extracted short sage, ts19, mid-gestation embryo, atlas

value: heart

tag: cell type

value: Ventricles


title: mSAGE_Forelimb_bud_normal_TS19_B

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 1092
Laboratory: Elliott H. Margulies,  Sharon L. R. Kardia , Jeffrey W. Innis

source_name: forelimb, normal, bulk, short sage, mid-gestation embryo

value: limb

value: bulk

value: SAGE expression profile of developing forelimb. Used to define unique patterns of transcription between developing forelimbs and hindlimbs. (NCBI name:mouse_forelimb)


title: mSAGE_Embyonic_stem_cell_normal_GM-CSF_IL3_LPS_CL

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 1073
Laboratory: Kathleen Nolan, Paul Fairchild,  Stephen Cobbold,  Herman Waldmann

source_name: embryonic stem cell, normal, cell line, differentiated, dendritic cell, short sage, gm-csf, il3, lps, pcr directed strategy, cdna template

value: Dendritic cells were generated from the CBA/Ca mouse derived embryonic stem cell line ESF 116 (Fairchild P., et al., Curr. Biol. 10:1515-8 (2000)).  These were mature by treatment with bacterial derived LPS overnight (Fairchild et al, Methods in Enzymology, in press (2003)). cDNA was preamplified (SMART) before SAGE analysis. [SAGEMap name:ES derived DCs (LPS treated)]


title: mSAGE_Esophagus_normal_TS20_MMD_SM209

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1828
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: esophagus, normal, microscope dissected, extracted short sage, ts20, mid-gestation embryo


title: mSAGE_Heart_normal_TS15_MMD_SM005

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1260
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: heart, bulbous cordis, normal, microscope dissected, mid-gestation embryo, extracted short sage, ts14, atlas


title: mSAGE_Heart_normal_TS15_MMD_SM007

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1261
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: heart, ventricle, normal, microscope dissected, mid-gestation embryo, extracted short sage, ts14, atlas


title: mSAGE_Endoderm_normal_TS13_MMD_SM112

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1504
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, normal, microscope dissected, endoderm, hindgut, ts13, mid-gestation embryo, extracted short sage

value: embryonic tissue


title: mSAGE_Embryonic_stem_cells_normal_MMD_SM401

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2074
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic stem cell, normal, microscope dissected, extracted short sage

value: Unspecified

value: normal


title: mSAGE_Embryonic_stem_cells_normal_MMD_SM208

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1827
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic stem cell, normal, cell line, extracted short sage, sagelite

value: cells


title: mSAGE_Embryonic_stem_cells_normal_TS38_MMD_SM302

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2072
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC


title: mSAGE_Heart_normal_TS13_MMD_SM145

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1811
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: heart, normal, microscope dissected, extracted short sage, ts13, mid-gestation embryo


title: mSAGE_Embryo_normal_TS9_MMD_SM157

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1806
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, whole, normal, microscope dissected, extracted short sage, ts8, post implantation embryo

value: 6.5 dpc/TS9


title: mSAGE_Embryo_normal_TS7_MMD_SM203

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1824
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: whole body, normal, microscope dissected, extracted short sage, ts7, post implantation embryo

value: whole body

value: 5.5 dpc/TS7


title: mSAGE_Endoderm_normal_TS13_MMD_SM107

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1509
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, normal, microscope dissected, ts13, mid-gestation embryo, extracted short sage

value: microscope dissected

value: unknown


title: mSAGE_Embryo_normal_TS7_MMD_SM205

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2044
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryo, normal, mocroscope dissected, e7.5, ts7, extracted short sage

tag: mutations

value: Foxa2 -/-


title: mSAGE_Embryo_normal_TS7_MMD_SM204

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2042
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

value: Foxh1 -/-


title: mSAGE_Embryo_normal_TS34_MMD_SM211

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2046
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryo, normal, mocroscope dissected, e6.5, ts34, extracted short sage


title: mSAGE_Embryo_normal_TS11_MMD_SM090

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1424
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, normal, microscope dissected, male, female, ts10, post implantation embryo, extracted short sage, atlas

value: male and female


title: mSAGE_Embryo_normal_TS11_MMD_SM116

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1804
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, anterior, normal, microscope dissected, extracted short sage, ts11, post implantation embryo


title: mSAGE_Embryo_normal_TS5_MMD_SM058

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1237
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: blastocyst, whole body, normal, microscope dissected, female, male, extracted short sage, pre-implantation embryo, ts5, atlas, sagelite

value: Blastocysts, dividing egg


title: mSAGE_Embryo_normal_TS34_MMD_SM173

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2024
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryo, normal, microscope dissected, e6.5, ts34, extracted short sage


title: mSAGE_Embryo_normal_TS7_MMD_SM106

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1819
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, posterior, normal, microscope dissected, extracted short sage, ts11, post implantation embryo


title: mSAGE_Cerebellum_CS_GCPcontrol

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 903
Library_producer: Christopher Turner
Laboratory: Riggins Laboratory Duke

source_name: cerebellum, normal, short term culture, short sage, 8 days post natal, granule cell, progenitor

value: cerebellum

value: short term culture

value: postnatal day 8

value: normal cerebellar granule cell precursors

value: Mouse primary granule cell precursors, isolated on postnatal day 8 and cultured for 18 hours in serum-free medium. Matched control for mSAGE_Cerebellum_CP_GCP+SHH (sonic hedgehog treated precursor cells).


title: mSAGE_Embryo_normal_TS1_MMD_SM077

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1254
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: whole body, normal, microscope dissected, male, female, fertilized egg, extracted short sage, ts1, atlas, sagelite

value: Fertilized eggs


title: mSAGE_Cerebellum_CS_GCP+SHH

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 906
Library_producer: Christopher Turner
Laboratory: Riggins Laboratory Duke

source_name: cerebellum, granule cell, progenitor, normal, short term culture, short sage, 8 days post natal, shh

value: cell line

value: Cerebellar granule cell precursor

value: Granule cell precursor isolated on postnatal day 8 and cultured for 18 hr in serum-free medium containing 3 ug/ml sonic hedgehog. Matched untreated Granular Cell control is mSAGE_Cerebellum_CS_GCPcontrol


title: mSAGE_Embryo_normal_TS34_MMD_SM146

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1810
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: extraembryonic tissue, normal, microscope dissected, extracted short sage, ts8, post implantation embryo

value: other

value: 6.5 dpc/TS8


title: mSAGE_Embryo_normal_TS11_MMD_SM099

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1423
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: extraembryonic tissue, normal, microscope dissected, ts10, extracted short sage, post implantation embryo, atlas

value: microscope dissected

value: Whole embryo - extra-embryonic tissue


title: mSAGE_Cerebellum_percoll_GCP

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 905
Library_producer: Christopher Turner, M.D.
Laboratory: Gregory J. Riggins, MD PhD

source_name: cerebellum, granule cell, progenitor, normal, short sage, 8 days post natal

value: unknown

value: normal granular cell precursors

value: Granular cell precursor cells from normal, 8-day old mice were purified by enzymatic digestion and percoll gradient centrifugation, pelleted and snap-frozen.


title: mSAGE_Branchial_arch_normal_TS17_MMD_SM105

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1507
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, branchial arch,  normal, microscope dissected, ts17, mid-gestation embryo, extracted short sage

value: embryonic tissue


title: mSAGE_Embryo_normal_TS2_MMD_SM061

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1247
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: whole body, morula, normal, microscope dissected, extracted short sage, ts3, atlas, sagelite

value: whole body

value: Morula


title: mSAGE_Branchial_arch_normal_TS17_MMD_SM039

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1232
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, branchial arch, normal, microscope dissected, ts17, mid-gestation embryo, extracted short sage, atlas

value: Branchial Arch


title: mSAGE_Branchial_arch_normal_TS15_MMD_SM043

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1231
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, branchial arch, microscope dissected, normal, extracted short sage, mid-gestation embryo, ts15, atlas


title: mSAGE_Heart_normal_TS20_MMD_SM002

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1256
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: heart, atrium, normal, microscope dissected, extracted short sage, mid-gestation embryo, ts20, atlas

value: heart

value: 12.5 days post coitum. earliest signs of fingers. theiler stage 20


title: mSAGE_Brain_normal_TS25_LCM_SM230

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2068
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, laser capture microdissected, e17.5, ts19, male, extracted short sage

value: brain

value: laser capture microdissected

value: male

value: normal

value: Tg(Hum)


title: mSAGE_Brain_normal_TS25_LCM_SM175

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2029
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC


title: mSAGE_Brain_normal_TS25_MMD_SM111

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1505
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, ts25, late gestation embryo, sagelite, male


title: mSAGE_Brain_normal_TS25_LCM_SM168

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2014
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

value: fierce


title: mSAGE_Brain_normal_TS25_LCM_SM148

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1756
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal,  striatum, laser capture microdissected, extracted short sage, sagelite, late gestation embryo, ts25


title: mSAGE_Brain_normal_TS23_LCM_SM200

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2038
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, laser capture microdissected, e15.5, ts17, male, extracted sage


title: mSAGE_Brain_normal_TS21_LCM_SM167

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2012
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, laser capture microdissected, e13.5, ts15, male, extracted short sage


title: mSAGE_Brain_normal_TS23_LCM_SM178

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2031
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, laser capture microdissected, e15.5, ts17, male, extracted short sage


title: mSAGE_Brain_normal_TS23_MMD_SM179

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1760
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, sagelite, late gestation embryo, ts23

value: microscope dissected


title: mSAGE_Brain_normal_TS23_LCM_SM301

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2070
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC


title: mSAGE_Brain_normal_TS21_LCM_SM197

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2034
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC


title: mSAGE_Brain_normal_TS20_LCM_SM109

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1703
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, laser capture microdissected, extracted short sage, sagelite, thalamus, dorsal, ts20, mid-gestation embryo


title: mSAGE_Brain_normal_TS20_LCM_SM088

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1329
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, hypothalamus, normal, laser capture microdissected, extracted short sage, ts20, mid-gestation embryo, atlas, sagelite

value: hypothalamus


title: mSAGE_Brain_normal_TS20_LCM_SM092

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1330
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, epithalamus, normal, laser capture microssected, extracted short sage, ts20, mid-gestation embryo, atlas, sagelite

value: unknown

value: epithalamus


title: mSAGE_Brain_normal_TS21_MMD_SM154

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1759
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, sagelite, mid-gestation embryo, ts21


title: mSAGE_Brain_normal_TS21_LCM_SM199

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2036
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC


title: mSAGE_Brain_normal_TS21_LCM_SM142

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1752
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, preplate, normal,  laser capture microdissected, extracted short sage, sagelite, mid-gestation embryo, ts21


title: mSAGE_Brain_normal_TS20_LCM_SM052

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1283
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, svz ventral telencephalon, normal, laser capture microdissected, male, extracted short sage, mid-gestation embryo, ts20, atlas, sagelite

value: Brain - SVZ/VZ. Ventral Telencephalon


title: mSAGE_Brain_normal_TS20_LCM_SM064

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1244
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, prestriatum, normal, laser capture microdissected, extracted short sage, mid-gestation embryo, ts20, atlas, sagelite

value: prestriatum


title: mSAGE_Brain_normal_TS20_LCM_SM053

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1234
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, svz dorsal telencephalon, laser capture microdissected, extracted short sage, mid-gestation embryo, ts20, atlas, sagelite

value: Brain - SVZ/VZ. Dorsal Telencephalon


title: mSAGE_Brain_normal_TS19_MMD_SM131

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1746
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, sagelite, mid-gestation embryo, ts19


title: mSAGE_Brain_normal_TS20_MMD_SM143

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1753
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, sagelite, mid-gestation embryo, ts20


title: mSAGE_Brain_normal_TS19_LCM_SM087

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1328
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, diencephalon, normal, laser capture microdissected, extracted short sage, ts19, mid-gestation embryo, atlas, sagelite

value: Diencephalon


title: mSAGE_Brain_normal_TS17_MMD_SM121

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1529
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, ts17, mid-gestation embryo, sagelite, extracted short sage


title: mSAGE_Brain_normal_TS17_MMD_SM056

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1240
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: eye, optic cup, normal, microscope dissected, male, extracted short sage, mid-gestation embryo, atlas, ts17

value: eye

value: Brain - Optic Cup


title: mSAGE_Brain_normal_TS17_LCM_SM068

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1249
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, laser capture microdissected, ventral telencephalon,  ts17, mid-gestation embryo, extracted short sage, atlas, sagelite

value: ventral telencephalon


title: mSAGE_Endoderm_normal_TS12_MMD_SM108

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1818
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: embryonic tissue, definitive endoderm, normal, microscope dissected, extracted short sage, ts12, mid-gestation embryo

value: embryonic tissue


title: mSAGE_Brain_normal_TS17_LCM_SM067

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1547
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: telenchephalon, dorsal, normal, laser capture microdissected, mid-gestation embryo, ts17, extracted short sage

value: brain

value: laser capture microdissected

value: Dorsal Telencephalon


title: mSAGE_Brain_normal_P84-P90_MMD_SM098

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1530
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Gene Expression Lab Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, adult, male, sagelite, extracted short sage

value: male


title: mSAGE_Brain_normal_TS13_MMD_SM083

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1327
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, future forebrain, normal, microscope dissected, extracted short sage, ts13, mid-gestation embryo, atlas, sagelite

value: Future forebrain


title: mSAGE_Brain_normal_TS15_MMD_SM122

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1745
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, sagelite, mid-gestation embryo, ts15

value: microscope dissected


title: mSAGE_Brain_normal_P84-P90_LCM_SM183

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1764
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, primary motor cortex, normal, laser capture microdissected, extracted short sage, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_MMD_SM060

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1238
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, visual cortex, normal, male, adult, microscope dissected, adult, extracted short sage, atlas

value: Brain - Visual Cortex


title: mSAGE_Brain_normal_P84-P90_LCM_SM195

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1776
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, striatum, normal, laser capture microdissected, extracted short sage, 84 days post natal

value: unknown


title: mSAGE_Brain_normal_P84-P90_LCM_SM182

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1763
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, cerebellum, white matter, normal, laser capture microdissected, extracted short sage, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM194

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1774
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, amygdala,  basolateral complex, normal, laser capture microdissected, extracted short sage, 84 days post natal


title: mSAGE_Kidney_normal_P0_MMD_SM086

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1346
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: kidney, normal, microscope dissected, ts27, extracted short sage, atlas

value: kidney


title: mSAGE_Brain_normal_P84-P90_LCM_SM193

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2032
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, laser capture microdissected, p84-p90, ts17, male, extracted short sage

value: normal


title: mSAGE_Brain_normal_P84-P90_MMD_SM201

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2040
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, other, p84-p90, male, extracted short sage

value: other


title: mSAGE_Brain_normal_TS13_MMD_SM081

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1326
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, future brain, normal, microscope dissected, extracted short sage, ts13, mid-gestation embryo, atlas, sagelite


title: mSAGE_Brain_normal_TS15_LCM_SM070

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1323
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, telencephalon, normal, laser capture microdissected, extracted short sage, ts15, mid-gestation embryo, atlas, sagelite

value: Whole telencephalon


title: mSAGE_Brain_normal_P84-P90_LCM_SM196

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1777
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, cerebellum, purkinje cell layer, normal, laser capture microdissected, extracted short sage, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM181

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1762
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, rahpe nuclei, laser capture microdissected, extracted short sage, sagelite, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM184

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1765
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, hippocampus, anterior, posterior, ca1, normal, laser capture microdissected, extracted short sage, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM152

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1757
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal,  substantia nigra, laser capture microdissected, extracted short sage, sagelite, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM147

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1755
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, visual cortex,  normal,  laser capture microdissected, extracted short sage, sagelite, adult


title: mSAGE_Brain_normal_P84-P90_LCM_SM153

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1758
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal,  basal nucleus meynert, laser capture microdissected, extracted short sage, sagelite, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM180

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1761
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal,  locus coeruleus, laser capture microdissected, extracted short sage, sagelite, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM132

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1747
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, ventral, thalamus, normal, laser capture microdissected, extracted short sage, sagelite, 84 days post natal


title: mSAGE_Brain_normal_P84-P90_LCM_SM139

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1750
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, thalamus, medial, normal,  laser capture microdissected, extracted short sage, sagelite, 84 days post natal


title: mSAGE_Brain_normal_P35_LCM_SM190

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1771
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, amygdala, central nucleus, normal, laser capture microdissected, extracted short sage, 35 days post natal


title: mSAGE_Brain_normal_P27_MMD_SM040

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1224
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, visual cortex,  normal, microscope dissected, 27 days post natal, male, extracted short sage, atlas, sagelite

value: Visual Cortex


title: mSAGE_Brain_normal_P84_LCM_SM110

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1525
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, hypothalamus, normal, microscope dissected, adult, sagelite, extracted short sage


title: mSAGE_Brain_normal_P84-P90_LCM_SM137

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1748
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, dentate gyrus, laser capture microdissected, anterior, posterior, extracted short sage, sagelite, 84 days post natal


title: mSAGE_Brain_normal_P35_MMD_SM138

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1749
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, sagelite, 35 days post natal


title: mSAGE_Brain_normal_P35_LCM_SM192

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1773
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, amygdala,  basolateral complex, normal, laser capture microdissected, extracted short sage, 35 days post natal


title: mSAGE_Brain_normal_P35_LCM_SM187

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1768
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, dentate gurus, anterior, posterior, normal, laser capture microdissected, extracted short sage, 35 days post natal


title: mSAGE_Brain_normal_P27_MMD_SM073

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1251
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, visual cortex,  normal, microscope dissected, male, extracted short sage, 27 days post natal, atlas, sagelite


title: mSAGE_Brain_normal_P07_LCM_SM144

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1754
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal,  dentate gyrus, anterior, posterior, laser capture microdissected, extracted short sage, sagelite, 7 days post natal


title: mSAGE_Brain_normal_P35_LCM_SM191

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1772
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, striatum, normal, laser capture microdissected, extracted short sage, 35 days post natal


title: mSAGE_Brain_normal_P35_LCM_SM186

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1767
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, hippocampus, anterior, posterior, ca1, normal, laser capture microdissected, extracted short sage, 35 days post natal


title: mSAGE_Brain_normal_P42_MMD_SM050

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1228
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, visual cortex, normal, microscope dissected, adult, extracted short sage, atlas, 42 days post natal


title: mSAGE_Brain_normal_P27_MMD_SM029

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1268
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, visual cortex, normal, microscope dissected, 27 days post natal, male, extracted short sage, atlas

value: post natal day 27


title: mSAGE_Brain_normal_P27_MMD_SM097

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1506
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, 27 days post natal, male, extracted short sage, sagelite


title: mSAGE_Brain_normal_P20_MMD_SM031

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1267
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, visual cortex, normal, microscope dissected, 20 days post natal, male, extracted short sage, atlas

value: post natal day 20


title: mSAGE_Brain_normal_P07_LCM_SM185

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1766
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, hippocampus, anterior, posterior, ca1, normal, laser capture microdissected, extracted short sage, 7 days post natal


title: mSAGE_Brain_normal_P07_MMD_SM141

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1751
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, normal, microscope dissected, extracted short sage, sagelite, 7 days post natal


title: mSAGE_Brain_normal_P07_LCM_SM188

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1769
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, striatum, normal, laser capture microdissected, extracted short sage, 7 days post natal


title: mSAGE_Brain_medulloblastoma_B_3871

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 904
Library_producer: Christopher Turner, MD
Laboratory: Gregory Riggins, MD, PhD

source_name: medulloblastoma, cerebellum, bulk, short sage, unknown development stage

value: cerebellum

value: bulk

value: medulloblastoma tumor from a patch +/-  heterozygous KO mouse.

value: germline patch KO mouse


title: mSAGE_Bone_normal_P84_MMD_SM218

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 2052
Library_producer: Gene Expresion Lab, GSC
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: bone, normal, mocroscope dissected, p84, extracted short  sage

value: bone


title: mSAGE_Bone_marrow_normal_GM-CSF_VitD3_FS

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 1065
Laboratory: Stephen Yates, Kathleen Nolan, Paul Fairchild, Steve Cobbold, Herman Waldmann

source_name: bone marrow, normal, flow-sorted, differentiated, dendritic cell, gm-csf, vitd3, short sage

value: bone marrow

value: flow-sorted

value: CBA/Ca mouse bone marrow cells were culture with GM-CSF for 7 days in the presence of 1 alpha 25 dihydroxyvitamin D3 (10^-7M) from day 3. [SAGEMap name:bmDC (Vitamin D3 treated)]


title: mSAGE_Bone_marrow_normal_GM-CSF+IL10_FS

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 1070
Laboratory: Kathleen Nolan, Paul Fairchild,  Vicki Strong,  Sian Cartland,  Steve Cobbold, Herman Waldmann

source_name: bone marrow, normal, flow-sorted, differentiated, dendritic cell, gm-csf, il10, short sage

value: CBA/Ca mouse bone marrow was cultured in GM-CSF for 6 days to generate dendritic cells. These were treated for a further 36 hrs with recombinant mouse IL-10. [SAGEMap name:bmDC (IL-10 treated)]


title: mSAGE_Bone_marrow_normal_GM-CSF_FS

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 1066
Laboratory: Kathleen Nolan,  Paul Fairchild, Vicki Strong, Stephen Cobbold, Herman Waldmann

source_name: bone marrow, normal, flow-sorted, differentiated, gm-csf, dendritic cell, short sage

value: unknown

value: CBA/Ca mouse bone marrow was cultured for 7 days in GM-CSF to generate dendritic cells (>90% CD11c+). [SAGEMap name:bmDC (mouse)]


title: mSAGE_Bone_marrow_normal_GM-CSF_IL10_LPS_FS

description:
Tagging_enzyme: BsmF I
CGAP_Numeric_library_ID: 1072
Laboratory: Kathleen Nolan, Paul Fairchild , Vicki Strong,  Sian Cartland, Steve Cobbold Waldmann

source_name: bone marrow, flow-sorted, normal,  gm-csf, differentiated, dendritic cell, lps, short sage

value: CBA/Ca mouse bone marrow was cultured with GM-CSF for 9 days to generate dendritic cells.  Recombinant mouse IL-10(20ng/ml) was added from day 6 and bacterial derived LPS also added for the last 20 hrs of culture. [SAGEMap name:bmDC (IL-10+LPS)]


title: SAGE_White_Blood_Cells_monocytes_normal_AP_A2

description:
CGAP_Numeric_library_ID: 1574
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch-NHLBI
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI

organism: Homo sapiens

source_name: white blood cell, monocyte, normal, antibody purified, male, adult, long sage

value: white blood cells

value: antibody purified

value: male

value: monocyte


title: SAGE_White_Blood_Cells_lung_macrophage_normal_AP_L1

description:
CGAP_Numeric_library_ID: 1988
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch-NHLBI
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI
References: W.D. Patino et al., Circulation Research (2006, in press)

source_name: white blood cell, lung macrophage, normal, antibody purified, human, male, adult, extracted short sage

value: lung macrophage


title: mSAGE_Adrenal_glands_normal_TS22_MMD_SM079

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1255
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: adrenal gland, normal, microscope dissected, mid-gestation embryo, ts22, extracted short sage, atlas

value: adrenal gland

value: microscope dissected


title: SAGE_White_Blood_Cells_plaque_macrophage_normal_AP_P1

description:
CGAP_Numeric_library_ID: 1984
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch-NHLBI
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI
References: W.D. Patino et al., Circulation Research (2006, in press)

source_name: white blood cell, plaque macrophage, normal, antibody purified, human, male, adult, extracted short sage

value: plaque macrophage


title: SAGE_White_Blood_Cells_breast_carcinoma_associated_CD45+_AP_IDC7

description:
CGAP_Numeric_library_ID: 484
Tagging_enzyme: Mme I
Library_producer: Kornelia Polyak, M.D., Ph.D.
Laboratory: Polyak lab, Dana-Farber Cancer Institute
References: Allinen et al. Cancer Cell. 2004 Jul;6(1):17-32. [PUBMED=15261139]

source_name: white blood cells, antibody purified, adult, female, extracted short sage, tumor associated

value: female

value: invasive breast cancer, ER+, PR+, Her2-

value: CD45+ purified tumor  infiltrating leukocytes


title: mSAGE_Bladder_normal_TS24_MMD_SM027

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1269
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: bladder, normal, microscope dissected, extracted short sage, late gestation embryo, ts24, atlas

value: bladder

value: 16.5 days post coitum. reposition of umbilical hernia. theiler stage 24


title: SAGE_White_Blood_Cells_normal_breast_associated_CD45+_AP

description:
CGAP_Numeric_library_ID: 181
Tagging_enzyme: BsmF I
Library_producer: Kornelia Polyak
Laboratory: Kornelia Polyak, Dana-Farber Cancer Institute

source_name: white blood cells, normal, antibody purified, non-normalized, short sage

value: normal leukocytes

value: White blood cells isolated from normal breast tissue from reduction mammoplasty. Purified using CD45+CD15 coupled magnetic beads (Dynal). Library name in Cancer Cell, 2004, 6(1):17-32 "N-LEU-1-leukocytes"


title: mSAGE_Bladder_normal_P84_MMD_SM037

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1274
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: bladder, normal, microscope dissected, adult, extracted short sage, atlas

value: unknown


title: SAGE_White_Blood_Cells_monocytes_normal_AP_C1

description:
CGAP_Numeric_library_ID: 1571
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch-NHLBI
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI

source_name: white blood cell, monocyte, normal, antibody purified, female, adult, extracted short sage


title: SAGE_White_Blood_Cells_monocyte_normal_AP_P1

description:
CGAP_Numeric_library_ID: 1572
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch-NHLBI
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI

source_name: white blood cell, monocyte, normal, antibody purified, male, adult, extracted short sage


title: SAGE_White_Blood_Cells_plaque_macrophage_normal_AP_P2

description:
CGAP_Numeric_library_ID: 1986
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch-NHLBI
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI
References: W.D. Patino et al., Circulation Research (2006, in press)


title: mSAGE_Bladder_normal_TS22_MMD_SM041

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1225
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: bladder, normal, microscope dissected, extracted short sage, ts22, mid-gestation embryo, atlas


title: mSAGE_Brain_normal_P07_LCM_SM189

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1770
Library_producer: David Charest Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: brain, amygdala, normal, laser capture microdissected, extracted short sage, 7 days post natal

value: brain

value: laser capture microdissected


title: SAGE_White_Blood_Cells_monocytes_normal_AP_P2

description:
CGAP_Numeric_library_ID: 1570
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI

value: white blood cells

value: antibody purified


title: mSAGE_Adrenal_glands_normal_P84_MMD_SM059

description:
Tagging_enzyme: Mme I
CGAP_Numeric_library_ID: 1239
Library_producer: Jas Khattra, Gene Expression Lab
Laboratory: Marco Marra, Genome Sciences Centre, Vancouver, BC

source_name: adrenal gland, normal, microscope dissected, adult, extracted short sage, atlas

value: Adrenal glands


title: SAGE_White_Blood_Cells_monocyte_normal_AP_A1

description:
CGAP_Numeric_library_ID: 1573
Tagging_enzyme: Mme I
Library_producer: Willmar D. Patino, Cardiovascular Branch-NHLBI
Laboratory: Paul M. Hwang, Cardiovascular Branch-NHLBI

value: male

value: monocyte


title: SAGE_White_Blood_Cells_breast_carcinoma_associated_CD45+_AP_DCIS7

description:
CGAP_Numeric_library_ID: 506
Tagging_enzyme: BsmF I
Laboratory: Kornelia Polyak

source_name: white blood cells, tumor associated, antibody purified, adult, female, short sage

value: 29 yrs

value: invasive breast tumor (~2 cm), extensive high-grade comedo DCIS (~4 cm), positive lymph nodes

value: Library name in Cancer Cell, 2004, 6(1):17-32 "D-LEU-7-leukocytes"


title: SAGE_White_Blood_Cells_breast_carcinoma_associated_CD45+_AP_DCIS6

description:
CGAP_Numeric_library_ID: 155
Tagging_enzyme: BsmF I
Library_producer: Kornelia Polyak
Laboratory: Kornelia Polyak, Dana-Farber Cancer Institute

source_name: white blood cells, tumor associated, antibody purified, non-normalized, short sage, adult, female

value: female

value: leukocytes from breast carcinoma

value: White blood cells, isolated from a mammary gland ductal carcinoma. Purified using CD45+CD15 coupled  magnetic beads (Dynal). Extensive high-grade comedo DCIS (~8-10cm). Library name in Cancer Cell, 2004, 6(1):17-32 "D-LEU-6-leukocytes"


title: SAGE_Vascular_normal_CS_VEGF+

description:
CGAP_Numeric_library_ID: 30
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Duke_HMVEC+VEGF
Library_producer: Anita Lal
Laboratory: Gregory Riggins, Duke University Medical Center
References: A. Lal et al., Cancer Res 59, 5403-7 (1999) [PUBMED=10554005]

source_name: vascular, normal, endothelium, non-normalized, short sage, short term culture

value: vascular

value: short term culture

value: endothelium


title: SAGE_Vascular_endothelium_normal_breast_associated_P1H12+_AP_1

description:
CGAP_Numeric_library_ID: 180
Tagging_enzyme: BsmF I
Library_producer: Kornelia Polyak
Laboratory: Kornelia Polyak, Dana-Farber Cancer Institute

source_name: vascular, endothelium, antibody purified, normal, non-normalized, short sage

value: normal endothelium

value: Normal breast tissue from reduction mammoplasty. Purified using anti-P1H12 antibody and magnetic beads (Dynal). Library name in Cancer Cell, 2004, 6(1):17-32 "N-END-1-endothelial cells"


title: SAGE_Vascular_normal_CS_control

description:
CGAP_Numeric_library_ID: 29
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Duke_HMVEC
Library_producer: Anita Lal
Laboratory: Gregory Riggins, Duke University Medical Center
References: A. Lal et al., Cancer Res 59, 5403-7 (1999) [PUBMED=10554005]

source_name: vascular, normal, endothelium,  non-normalized, short sage, short term culture

value: unknown


title: SAGE_Uterus_endometrium_normal_CS_DI1

description:
CGAP_Numeric_library_ID: 1463
Tagging_enzyme: BsmF I
Library_producer: Pat Morin
Laboratory: Pat Morin
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: uterus, endometrium, normal, short term culture, female, short sage

value: uterus

value: Unknown

value: Endometrium


title: SAGE_Stomach_normal_epithelium_B_body1

description:
CGAP_Numeric_library_ID: 134
Tagging_enzyme: BsmF I
Old_library_name: SAGE_normal_gastric_body_epithelial
Library_producer: S. Powell, M.D. and Wa'el El-Rifai, M.D., Ph.D.
Laboratory: El-Rifai Laboratory, Digestive Health Center, University of Virginia Health System

source_name: stomach, normal, epithelium, non-normalized, short sage, bulk

value: stomach

value: bulk

value: normal gastric epithelium


title: SAGE_Vascular_endothelium_hemangioma_B_146

description:
CGAP_Numeric_library_ID: 185
Tagging_enzyme: BsmF I
Library_producer: Anita Lal
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: vascular, hemangioma, bulk, benign hyperplasia, endothelium, non-normalized, bulk, short sage, female

value: 7mo 22d

value: hemangioma


title: SAGE_Universal_reference_human_RNA_CL

description:
CGAP_Numeric_library_ID: 168
Tagging_enzyme: BsmF I
Library_producer: Deric Olschner
Laboratory: Gregory Riggins, Duke University Medical Center
References: K. Boon et al., Proc Natl Acad Sci U S A 99, 11287-92 (2002) [PUBMED=12119410]

source_name: uncharacterized tissue, cell line, carcinoma, non-normalized, short SAGE

value: uncharacterized tissue

value: cell line

value: mixture of human cancer cell lines

value: Stratagene Human Reference RNA produced by Stratagene and Supplied by the NCI Director's Challenge. Initiative http://www.stratagene.com/faq/index.htm


title: SAGE_Stomach_normal_MD_13S

description:
CGAP_Numeric_library_ID: 1623
Tagging_enzyme: BsmF I
Library_producer: Dr. Wa'el El-Rifai laboratory
Laboratory: Dr. Wa'el El-Rifai laboratory
References: A. Lal et al., Cancer Res 59, 5403-7 (1999) [PUBMED=10554005]|A. Lal et al., J Natl Cancer Inst 93, 1337-43 (2001) [PUBMED=11535709]

source_name: stomach, normal, microscope dissected, male, female, short sage, adult

value: gastrointestinal tract

value: microscope dissected

value: male and female


title: SAGE_Thyroid_normal_B_001

description:
CGAP_Numeric_library_ID: 389
Tagging_enzyme: BsmF I
Library_producer: Janete Cerutti
Laboratory: Gregory Riggins, Duke University Medical Center
References: J.M. Cerutti et al.,  J Clin Invest. 113, 1234-42 (2004 ) [PUBMED=15085203]

source_name: thyroid, normal, bulk, adult, female, short sage

value: thyroid

value: 19 yrs

value: female


title: SAGE_Vascular_endothelium_breast_carcinoma_associated_P1H12+_AP_DCIS6

description:
CGAP_Numeric_library_ID: 159
Tagging_enzyme: BsmF I
Library_producer: Kornelia Polyak
Laboratory: Kornelia Polyak, Dana-Farber Cancer Institute

source_name: vascular, endothelium, tumor associated, antibody purified, non-normalized, short sage, female

value: vascular

value: antibody purified

value: high-grade comedo DCIS endothelium

value: Vascular endothelium isolated from mammary gland ductal carcinoma. 'Extensive high grade comedo DCIS (~8-10cm). Library name in Cancer Cell, 2004, 6(1):17-32 "D-END-6-endothelial cells"


title: SAGE_Stomach_carcinoma_B_G189

description:
CGAP_Numeric_library_ID: 186
Tagging_enzyme: BsmF I
Library_producer: Wa'el El-Rifai, M.D., Ph.D.
Laboratory: Steve Powell, University of Virginia

source_name: stomach, bulk, carcinoma, non-normalized, short SAGE

value: stomach

value: bulk

value: unknown

value: gastric cancer

value: Primary gastric cancer tissue, poorly differentiated, T4N0M0, obtained by surgery.


title: SAGE_Vascular_endothelium_normal_liver_associated_AP_NLEC1

description:
CGAP_Numeric_library_ID: 429
Tagging_enzyme: Mme I
Library_producer: Brad St. Croix
Laboratory: Johns Hopkins Molecular Genetics Laboratory (Victor Velculescu)

source_name: vascular, normal, endothelium, antibody purified, extracted short sage, adult

value: normal liver


title: SAGE_Stomach_normal_B_antrum

description:
CGAP_Numeric_library_ID: 398
Tagging_enzyme: BsmF I
Library_producer: WaÆel El-Rifai, M.D., Ph.D
Laboratory: Laboratory of WaÆel El-Rifai, M.D. Ph.D. and Steven Powell, M.D., (Digestive Health Center, University of Virginia Health System)

source_name: stomach, normal, bulk, epithelium, short SAGE

value: A pool of normal gastric epithelial tissues obtained from the antrum


title: SAGE_Testis_Embyronal_Carcinoma_B_1

description:
CGAP_Numeric_library_ID: 1903
Tagging_enzyme: Mme I
Library_producer: Jennifer B. Edwards
Laboratory: Dr. Gregory Riggins

source_name: testis, embyronal carcinoma, non-normalized, extracted long sage, bulk

value: testis

value: male

value: Embyronal Carcinoma, Mixed germ cell tumor consisting primarily of embryonal carcinoma with foci of yolk sac tumor and teratoma seen. Size:4.5 x 3.8 x 2.8 cm. Non-neoplastic tissue:Marked hypospermatogenesis with Leydig cell hyperplasia and chronic inflammation.


title: SAGE_Thyroid_follicular_carcinoma_B_TT004

description:
CGAP_Numeric_library_ID: 365
Tagging_enzyme: BsmF I
Laboratory: Gregory Riggins, Duke University Medical Center
References: J.M. Cerutti et al.,  J Clin Invest. 113, 1234-42 (2004 ) [PUBMED=15085203]

source_name: thyroid, carcinoma, bulk, adult, female, short sage

value: thyroid

value: 35 yrs

value: Follicular Carcinoma


title: SAGE_Stomach_carcinoma_B_xenograft_X101

description:
CGAP_Numeric_library_ID: 170
Tagging_enzyme: BsmF I
Library_producer: Wa'el El-Rifai, M.D., Ph.D.
Laboratory: Steve Powell, University of Virginia

source_name: stomach, bulk, carcinoma, non-normalized, short SAGE, xenograft

value: gastric cancer xenograft

value: Gastroesophageal junction adenocarcinoma, T4N0M0, moderately differentiated, obtained by surgery. Xenograft.


title: SAGE_Stomach_normal_MD_14S

description:
CGAP_Numeric_library_ID: 1624
Tagging_enzyme: BsmF I
Library_producer: Dr. Wael El-Rifai laboratory
Laboratory: Dr. Wael El-Rifai laboratory
References: A. Lal et al., Cancer Res 59, 5403-7 (1999) [PUBMED=10554005]|A. Lal et al., J Natl Cancer Inst 93, 1337-43 (2001) [PUBMED=11535709]

source_name: stomach, normal, microscope dissected, male, female, adult, short sage

value: microscope dissected

value: male and female


title: SAGE_Stomach_carcinoma_B_xenograph_X43

description:
CGAP_Numeric_library_ID: 244
Tagging_enzyme: BsmF I
Library_producer: WaÆel El-Rifai, M.D., Ph.D.
Laboratory: Laboratory of Steven Powell, M.D. and WaÆel El-Rifai, M.D. Ph.D., (Digestive Health Center, University of Virginia Health System)

source_name: stomach, carcinoma, bulk, xenograft, short sage, female, adult, poorly differentiated

value: stomach

value: 78 yrs

value: female

value: Stomach, T4N1M0, poorly differentiated carcinoma, obtained by surgery


title: SAGE_Stomach_adenocarcinoma_MD_HS29

description:
CGAP_Numeric_library_ID: 1445
Tagging_enzyme: BsmF I
Library_producer: El-Rifai Laboratory
Laboratory: El-Rifai Laboratory, University of Virginia

source_name: stomach, gastroesophageal junction, adenocarcinoma, microscope dissected, female, adult, short sage

value: Gastroesophageal junction adenocarcinoma, T4N0M0, moderately differentiated, obtained by surgery.


title: SAGE_Stomach_adenocarcinoma_MD_HG7

description:
CGAP_Numeric_library_ID: 1443
Tagging_enzyme: BsmF I
Library_producer: El-Rifai laboratory
Laboratory: El-Rifai laboratory

source_name: stomach, lower esophagus, adenocarcinoma, microscope dissected, female, adult, short sage

value: Adenocarcinoma

value: lower esophagus close to gastroesophageal junction adenocarcinoma, T4N0M0, moderately differentiated, obtained by surgery.


title: SAGE_Stomach_adenocarcinoma_B_G234

description:
CGAP_Numeric_library_ID: 97
Tagging_enzyme: BsmF I
Old_library_name: SAGE_gastric_cancer-G234
Laboratory: Steve Powell, University of Virginia

source_name: stomach, adenocarcinoma, non-normalized, short SAGE, bulk

value: bulk

value: adenocarcinoma


title: SAGE_Thyroid_follicular_adenoma_B_TT005

description:
CGAP_Numeric_library_ID: 363
Tagging_enzyme: BsmF I
Laboratory: Gregory Riggins, Duke University Medical Center
References: J.M. Cerutti et al.,  J Clin Invest. 113, 1234-42 (2004 ) [PUBMED=15085203]

source_name: thyroid, adenoma, bulk, benign hyperplasia, short sage, adult, female

value: Follicular Adenoma


title: SAGE_Stomach_adenocarcinoma_MD_G329

description:
CGAP_Numeric_library_ID: 1444
Tagging_enzyme: BsmF I
Library_producer: El-Rifai
Laboratory: El-Rifai Laboratory
References: http://sciencepark.mdanderson.org/ggeg/

source_name: stomach, adenocarcinoma, microscope dissected,  adult, short sage

value: unknown


title: SAGE_Spinal_cord_normal_B_1

description:
CGAP_Numeric_library_ID: 167
Tagging_enzyme: BsmF I
Library_producer: Deric Olschner
Laboratory: Gregory Riggins, Duke University Medical Center
References: K. Boon et al., Proc Natl Acad Sci U S A 99, 11287-92 (2002) [PUBMED=12119410]

source_name: spinal cord, bulk, normal, non-normalized, short SAGE

value: spinal cord

value: normal spinal cord

value: Library made from Poly A RNA supplied by Clonetech catalog #6573-1, and LOT #0031205.


title: SAGE_Skin_normal_B_NS

description:
CGAP_Numeric_library_ID: 1103
Tagging_enzyme: BsmF I
Laboratory: Cornelissen M, van der Kuyl AC, van den Burg R, van der Schoot A, Dekker JT, Maas J, Zorgdrager F, Tigges B, van Noesel CJ, Goudsmit J

source_name: skin, normal, bulk, female, short sage

value: skin

value: Pooled normal skin from three different breast reduction patients.   [SAGEMap name NS]


title: SAGE_Skin_melanoma_B_DB2

description:
CGAP_Numeric_library_ID: 387
Tagging_enzyme: BsmF I
Library_producer: DR. ASHANI T. WEERARATNA, NHGRI, NIH
Laboratory: COLLABORATION BETWEEN: DRS. PAT MORIN, PAUL MELTZER, AND JEFF TRENT
References: A.T. Weeraratna  et al., Oncogene 23, 2264-74 (2004 ) [PUBMED=14755246]

source_name: skin, melanoma, malignant, bulk, short sage, adult, female

value: 80 yrs

value: primary malignant melanoma, vertical growth phase, clarkÆs level 5


title: SAGE_Skin_melanoma_B_DB1

description:
CGAP_Numeric_library_ID: 166
Tagging_enzyme: BsmF I
Library_producer: Ashani Weeraratna
Laboratory: Collaborative effort between Drs. Pat Morin, Jeff Trent and Paul Meltzer.
References: A.T. Weeraratna  et al., Oncogene 23, 2264-74 (2004 ) [PUBMED=14755246]

source_name: skin, melanoma, bulk, non-normalized, short sage

value: male

value: melanoma


title: SAGE_Rheumatoid_arthritis_synovial_fibroblast_CS

description:
CGAP_Numeric_library_ID: 2350
Tagging_enzyme: Mme I
Library_producer: Min Hu, PhD
Laboratory: Polyak Lab, Dana-Farber Cancer Institute, Boston, MA

source_name: human, other, short term culture, uncharacterized histology, synovial fibroblasts from rheumatoid arthritis, rheumatoid arthritis, extracted short sage

value: other

value: short term culture


title: SAGE_Retinal_Pigment_Epithelium_normal_B_4PeriRPE

description:
CGAP_Numeric_library_ID: 1992
Tagging_enzyme: BsmF I
Library_producer: Jessica Ebright
Laboratory: Catherine Bowes Rickman, Duke University Eye Center
References: Bowes Rickman C and Ebright JN, et al. Defining the Human Macula Transcriptome and Candidate Retinal Disease Genes Using EyeSAGE. Invest Ophthalmol Vis Sci. 2006 Jun;47(6):2305-16.  [PUBMED=16723438]

source_name: retina, retinal pigment epithelium, choroid, normal, bulk, human, male, female, adult, short sage

value: retina

value: 40-59 year old pool of 5 donors

value: male and female

value: retinal pigment epithelium (RPE) and choroid

value: RPE/choroid libraries were made from 4 mm diameter punches of macular RPE/choroid (4MacRPE) and matching 4 mm diameter punches of mid-peripheral RPE/choroid, (4PeriRPE), taken from five donor eyes.  While these libraries were made from RPE/choroid, subsequent analysis has revealed significant content of retinal transcripts in addition to RPE markers.


title: SAGE_Retina_Peripheral_normal_B_2

description:
CGAP_Numeric_library_ID: 163
Tagging_enzyme: BsmF I
Library_producer: Dror Sharon
Laboratory: Massachusetts Eye and Ear Ocular Molecular Genetics laboratory

source_name: retina, non-normalized, normal, bulk, short SAGE

value: bulk

value: female

value: normal peripheral retina

value: A normal peripheral retina from a 44-year-old male. Patient had periocular malignancies that required exenteration of a normal eye as part of the clinically indicated surgical therapy. The eye was placed in saline after it was removed from the patient and peripheral retinal fragments were collected from regions outside the central arcades and frozen within 45 minutes of the surgical removal to ensure minimal degradation of mRNA molecules.


title: SAGE_Skin_melanoma_B_DB3

description:
CGAP_Numeric_library_ID: 396
Tagging_enzyme: BsmF I
Library_producer: DR. ASHANI T. WEERARATNA, NHGRI, NIH
Laboratory: COLLABORATION BETWEEN: DRS. PAT MORIN, PAUL MELTZER, AND JEFF TRENT

source_name: skin, melanoma, bulk, short SAGE, male, adult

value: skin

value: 78 yrs

value: desmoplastic melanoma metastasis, clarkÆs level 5


title: SAGE_Prostate_normal_epithelium_CS_confluent

description:
CGAP_Numeric_library_ID: 169
Tagging_enzyme: BsmF I
Library_producer: Gerold Untergasser
Laboratory: Heiko Hermeking, Max-Planck-Institute of Biochemistry
References: G. Untergasser et al., Cancer Res 62, 6255-62 (2002)  [PUBMED=12414655]

source_name: prostate, normal, epithelium, short term culture, non-normalized, short SAGE

value: prostate

value: normal prostate epithelium, confluent cells


title: SAGE_Retina_Peripheral_normal_B_1

description:
CGAP_Numeric_library_ID: 162
Tagging_enzyme: BsmF I
Library_producer: Dror Sharon
Laboratory: Massachusetts Eye and Ear Ocular Molecular Genetics laboratory

value: Patient had periocular malignancies that required exenteration of a normal eye as part of the clinically indicated surgical therapy. The eye was placed in saline after it was removed from the patient and peripheral retinal fragments were collected from regions outside the central arcades and frozen within 45 minutes of the surgical removal to ensure minimal degradation of mRNA molecules.


title: SAGE_Prostate_normal_epithelium_CS_senescent

description:
CGAP_Numeric_library_ID: 203
Tagging_enzyme: BsmF I
Library_producer: Gerold Untergasser
Laboratory: Heiko Hermeking, Max-Planck-Institute of Biochemistry
References: G. Untergasser et al., Cancer Res 62, 6255-62 (2002)  [PUBMED=12414655]

value: male

value: normal prostate epithelium, senescent cells


title: SAGE_Retinal_Pigment_Epithelium_normal_B_4MacRPE

description:
CGAP_Numeric_library_ID: 1989
Tagging_enzyme: BsmF I
Library_producer: Jessica Ebright
Laboratory: Catherine Bowes Rickman, Duke University Eye Center
References: Bowes Rickman C and Ebright JN, et al. Defining the Human Macula Transcriptome and Candidate Retinal Disease Genes Using EyeSAGE. Invest Ophthalmol Vis Sci. 2006 Jun;47(6):2305-16.  [PUBMED=16723438]

source_name: retina, macular retinal pigment epithelium, normal, bulk, human, male, female, adult, short sage

value: retina

value: macular retinal pigment epithelium (RPE) and choroid


title: SAGE_Prostate_normal_MD_PR317

description:
CGAP_Numeric_library_ID: 72
Tagging_enzyme: BsmF I
Old_library_name: SAGE_PR317_normal_prostate
Library_producer: I-Mei Siu
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: prostate, normal, microscope dissected, non-normalized, short sage

value: microscope dissected

value: normal epithelium


title: SAGE_Retina_Retinoblastoma_B_1

description:
CGAP_Numeric_library_ID: 1906
Tagging_enzyme: Mme I
Library_producer: Jennifer B. Edwards
Laboratory: Dr. Gregory Riggins

source_name: retina, bulk, retinoblastoma, long sage, poorly differentiated

value: Bilateral retinoblastoma, poorly differentiated, left orbit


title: SAGE_Retina_normal_B_4cRet

description:
CGAP_Numeric_library_ID: 1994
Tagging_enzyme: Mme I
Library_producer: Jessica Ebright
Laboratory: Catherine Bowes Rickman, Duke University Eye Center
References: Bowes Rickman C and Ebright JN, et al. Defining the Human Macula Transcriptome and Candidate Retinal Disease Genes Using EyeSAGE. Invest Ophthalmol Vis Sci. 2006 Jun;47(6):2305-16.  [PUBMED=16723438]

source_name: retina, central retina, normal, bulk, human, male, female, adult, extracted short sage

value: bulk

value: 41-66 year old pool of 7 donors

value: male and female

value: central retina

value: The library was constructed using RNA isolated from pooled 4 mm punches of human macula and central peripheral retina from 7 morphologically normal donor eyes.


title: SAGE_Prostate_carcinoma_CL_PC3_Mock

description:
CGAP_Numeric_library_ID: 143
Tagging_enzyme: BsmF I
Library_producer: Nikki Holbrook
Laboratory: Geriatrics Section, Yale University School of Medicine
References: O. Potapova et al., Cancer Res 62, 3257-63 (2002) [PUBMED=12036942]

source_name: prostate, carcinoma, cell line, non-normalized, short SAGE

value: cell line

value: prostate carcinoma

value: PC3 cells, Mock treatment, total number of 40,655 SAGE tags sequenced. 38,819 SAGE tags analyzed after clean-up (extraction of poly(A) tags, linker-generated tags, and tags originated from clones producing 4 tags or less).


title: SAGE_Retina_Peripheral_normal_B_4Peri

description:
CGAP_Numeric_library_ID: 1991
Tagging_enzyme: BsmF I
Library_producer: Jessica Ebright
Laboratory: Catherine Bowes Rickman, Duke University Eye Center
References: Bowes Rickman C and Ebright JN, et al. Defining the Human Macula Transcriptome and Candidate Retinal Disease Genes Using EyeSAGE. Invest Ophthalmol Vis Sci. 2006 Jun;47(6):2305-16.  [PUBMED=16723438]

source_name: retina, normal peripheral retina, normal, bulk, human, female, adult, short sage

value: 28-66 year old pool of 5 donors

value: female

value: normal peripheral retina

value: Libraries were constructed using RNA isolated from pooled 4 mm diameter punches of the macula (encompassing the fovea) and matched 4 mm diameter punches of pooled mid-peripheral retina from the same five donors designated, "4Mac" and "4Peri", respectively.


title: SAGE_Retina_Macula_normal_B_4Mac

description:
CGAP_Numeric_library_ID: 1990
Tagging_enzyme: BsmF I
Library_producer: Jessica Ebright
Laboratory: Catherine Bowes Rickman, Duke University Eye Center
References: Bowes Rickman C and Ebright JN, et al. Defining the Human Macula Transcriptome and Candidate Retinal Disease Genes Using EyeSAGE. Invest Ophthalmol Vis Sci. 2006 Jun;47(6):2305-16.  [PUBMED=16723438]

source_name: retina, normal macular, normal, bulk, human, female, adult, short sage

value: retina

value: normal macula


title: SAGE_Retina_Pigment_epithelium_normal_B_1

description:
CGAP_Numeric_library_ID: 165
Tagging_enzyme: BsmF I
Library_producer: Dror Sharon
Laboratory: Massachusetts Eye and Ear Ocular Molecular Genetics laboratory

source_name: retina, non-normalized, normal, epithelium, bulk, short SAGE

value: normal retinal pigment epithelium

value: Patient had periocular malignancies that required exenteration of a normal eye as part of the clinically indicated surgical therapy. The eye was placed in saline after it was removed from the patient and peripheral retinal fragments were collected from regions outside the central arcades and frozen within 45 minutes of the surgical removal to ensure minimal degradation of mRNA molecules.


title: SAGE_Prostate_normal_B_2

description:
CGAP_Numeric_library_ID: 59
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Chen_Normal_Pr
Laboratory: YQ Chen, Wayne State University
References: A. Waghray et al., Proteomics 1, 1327-38 (2001) [PUBMED=11721644]

source_name: prostate, epithelium, stroma, normal, bulk, SAGE, short SAGE, non-normalized

value: prostate

value: male

value: normal epithelium & stroma

value: The samples contained 30-50% normal glands and 50-70% stroma with no tumor glands. None of the patients had any hormonal, radiation or chemotherapy for prostate cancer prior to surgery.


title: SAGE_Prostate_carcinoma_CL_PC3_AS2

description:
CGAP_Numeric_library_ID: 154
Tagging_enzyme: BsmF I
Library_producer: Nikki Holbrook
Laboratory: Geriatrics Section, Yale University School of Medicine
References: O. Potapova et al., Cancer Res 62, 3257-63 (2002) [PUBMED=12036942]

value: Transfected with JNK antisense oligos

value: PC3 cells, AS2 treatment, total number of 42,236 SAGE tags sequenced. 40,768 SAGE tags analyzed after clean-up (extraction of poly(A) tags, linker-generated tags, and tags originated from clones producing 4 tags or less).


title: SAGE_Retina_macula_normal_B_HMAC2

description:
CGAP_Numeric_library_ID: 164
Tagging_enzyme: BsmF I
Library_producer: Dror Sharon
Laboratory: Massachusetts Eye and Ear Ocular Molecular Genetics laboratory

source_name: retina, non-normalized, normal, macula, bulk, short sage

value: bulk


title: SAGE_Prostate_carcinoma_CL_LNCaP-T

description:
CGAP_Numeric_library_ID: 70
Tagging_enzyme: BsmF I
Old_library_name: SAGE_CPDR_LNCaP-T
Library_producer: L. L. Xu
Laboratory: S. Srivastava, Uniformed Services University of the Health Sciences
References: L. L. Xu et al., Genomics 66, 257-63 (2000) [PUBMED=10873380]|L. L. Xu et al., Int J Cancer 92, 322-8 (2001) [PUBMED=11291065]

source_name: prostate, carcinoma, cell line, short SAGE, SAGE, non-normalized

value: cell line

value: carcinoma

value: LNCaP cells were maintained in RPMI 1640 supplemented with 10% fetal bovine serum  and experiments were performed on cells between passages 20 and 30. For the studies of androgen regulation, charcoal/dextran stripped androgen-free FBS  was used. LNCaP cells were cultured first in RPMI 1640 with 10% cFBS for 5 days and then stimulated with an non-metabolizable androgen analog R1881 (DUPONT, Boston, MA) 10-8 M for 24 hours (for generating LNCaP-T library). LNCaP cells identically treated but without R1881 treatment served as control (for generating LNCaP-C library). Cells were harvested at indicated time and polyA+ RNA was double-selected with Fast Track kit (Invitrogene) SAGE libraries were generated according to the procedure provided by Dr. Kinzler (Johns Hopkins University School of Medicine, Baltimore, MD).


title: SAGE_Prostate_carcinoma_CL_LNCaP-C

description:
CGAP_Numeric_library_ID: 69
Tagging_enzyme: BsmF I
Old_library_name: SAGE_CPDR_LNCaP-C
Library_producer: L. L. Xu
Laboratory: S. Srivastava, Uniformed Services University of the Health Sciences
References: L. L. Xu et al., Genomics 66, 257-63 (2000) [PUBMED=10873380]|L. L. Xu et al., Int J Cancer 92, 322-8 (2001) [PUBMED=11291065]

value: LNCaP cells were maintained in RPMI 1640 (Life Technologies, Inc., Gaithersburg, MD) supplemented with 10% fetal bovine serum (FBS, Life Technologies, Inc., Gaithersburg, MD) and experiments were performed on cells between passages 20 and 30. For the studies of androgen regulation, charcoal/dextran stripped androgen-free FBS (cFBS, Gemini Bio-Products, Inc., Calabasas, CA) was used. LNCaP cells were cultured first in RPMI 1640 with 10% cFBS for 5 days and then stimulated with an non-metabolizable androgen analog R1881 (DUPONT, Boston, MA) 10-8 M for 24 hours (for generating LNCaP-T library). LNCaP cells identically treated but without R1881 treatment served as control (for generating LNCaP-C library). Cells were harvested at indicated time and polyA+ RNA was double-selected with Fast Track kit (Invitrogene) SAGE libraries were generated according to the procedure provided by Dr. Kinzler (Johns Hopkins University School of Medicine, Baltimore, MD).


title: SAGE_Prostate_carcinoma_CL_LNCaP_no-DHT

description:
CGAP_Numeric_library_ID: 58
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Chen_LNCaP_no-DHT
Laboratory: YQ Chen, Wayne State University
References: A. Waghray et al., Proteomics 1, 1327-38 (2001) [PUBMED=11721644]

value: LNCaP cells were cultured in the absence of androgens for 3 months.


title: SAGE_Prostate_carcinoma_CL_A+

description:
CGAP_Numeric_library_ID: 48
Tagging_enzyme: BsmF I
Old_library_name: SAGE_A+
Laboratory: Papadopoulos

value: Prostate, cancer cell line. Induced with synthetic androgen (R1881).


title: SAGE_Prostate_carcinoma_CL_LNCaP

description:
CGAP_Numeric_library_ID: 57
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Chen_LNCaP
Laboratory: YQ Chen, Wayne State University
References: A. Waghray et al., Proteomics 1, 1327-38 (2001) [PUBMED=11721644]

source_name: prostate, carcinoma, cell line, non-normalized, short SAGE, SAGE

value: LNCaP cells were cultured in the absence of androgens for 3 months, and then in the presence of 1 nM of dihydrotestosterone for 24 hours


title: SAGE_Prostate_adenocarcinoma_CL_LNCaP

description:
CGAP_Numeric_library_ID: 22
Tagging_enzyme: BsmF I
Old_library_name: SAGE_LNCaP
Laboratory: Nick Papadopoulos, Columbia University

source_name: prostate, adenocarcinoma, cell line, non-normalized, short SAGE

value: adenocarcinoma

value: Inactivating mutation in PTEN gene

value: Prostate, cell line.  Androgen dependent, inactivating mutation in PTEN gene


title: SAGE_Prostate_carcinoma_B_LN-1

description:
CGAP_Numeric_library_ID: 90
Tagging_enzyme: BsmF I
Old_library_name: SAGE_LN-1
Laboratory: Nick Papadopoulos, Columbia University

source_name: prostate, carcinoma, non-normalized, short SAGE, bulk

value: prostate

value: Prostate, advanced tumor


title: SAGE_Pancreas_normal_CS_HX

description:
CGAP_Numeric_library_ID: 65
Tagging_enzyme: BsmF I
Old_library_name: SAGE_HX
Library_producer: Byung Woo Ryu
Laboratory: Scott Kern, Johns Hopkins Medical Institute
References: B. Ryu et al., Cancer Res 62, 819-26 (2002) [PUBMED=11830538]|P. Argani et al., Cancer Res 61, 4320-4 (2001) [PUBMED=11389052]

source_name: pancreas, epithelium, ductal, normal, short term culture, non-normalized, short sage

value: pancreas

value: short term culture

value: unknown

value: normal ductal


title: SAGE_Pancreas_normal_B_1

description:
CGAP_Numeric_library_ID: 362
Tagging_enzyme: Mme I
Library_producer: Deric Olschner
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: pancreas, normal, bulk, extracted short SAGE, adult

value: bulk


title: SAGE_Placenta_normal_B_1

description:
CGAP_Numeric_library_ID: 161
Tagging_enzyme: BsmF I
Library_producer: Keith Killian
Laboratory: Gregory Riggins, Duke University Medical Center
References: K. Boon et al., Proc Natl Acad Sci U S A 99, 11287-92 (2002) [PUBMED=12119410]

source_name: placenta, normal, bulk, non-normalized, short SAGE

value: placenta

value: newborn

value: female

value: normal term placenta

value: Full-term placenta.


title: SAGE_Placenta_hydatidiform_mole_B_1

description:
CGAP_Numeric_library_ID: 364
Tagging_enzyme: BsmF I
Library_producer: Keith Killian
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: whole body, bulk, uncharacterized histology, short sage

value: other

value: fetal


title: SAGE_Peritoneum_mesothelioma_B_12

description:
CGAP_Numeric_library_ID: 93
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Meso-12
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: peritoneum, epithelium, malignant, mesothelioma, bulk, non-normalized, short SAGE

value: peritoneum

value: malignant peritoneal mesothelioma

value: Pimary malignant mesothelioma (Pure epithelial)


title: SAGE_Pancreas_carcinoma_CL_PL45

description:
CGAP_Numeric_library_ID: 130
Tagging_enzyme: BsmF I
Old_library_name: SAGE_PL45
Library_producer: Wei Zhou
Laboratory: Ken Kinzler and Bert Vogelstein, Johns Hopkins Medical Institute
References: B. Ryu et al., Cancer Res 62, 819-26 (2002) [PUBMED=11830538]|L. Zhang et al., Science 276, 1268-1272 (1997) [PUBMED=9157888]

source_name: pancreas, epithelium, ductal, carcinoma, cell line, non-normalized, short SAGE

value: cell line

value: carcinoma


title: SAGE_Pancreas_normal_CS_H126

description:
CGAP_Numeric_library_ID: 66
Tagging_enzyme: BsmF I
Old_library_name: SAGE_H126
Library_producer: Byung Woo Ryu
Laboratory: Scott Kern, Johns Hopkins Medical Institute
References: B. Ryu et al., Cancer Res 62, 819-26 (2002) [PUBMED=11830538]|P. Argani et al., Cancer Res 61, 4320-4 (2001) [PUBMED=11389052]

value: pancreas


title: SAGE_Pancreas_carcinoma_CL_ASPC

description:
CGAP_Numeric_library_ID: 128
Tagging_enzyme: BsmF I
Old_library_name: SAGE_ASPC
Library_producer: Wei Zhou
Laboratory: Ken Kinzler and Bert Vogelstein, Johns Hopkins Medical Institute
References: B. Ryu et al., Cancer Res 62, 819-26 (2002) [PUBMED=11830538]|L. Zhang et al., Science 276, 1268-1272 (1997) [PUBMED=9157888]


title: SAGE_Pancreas_adenocarcinoma_CL_Panc1

description:
CGAP_Numeric_library_ID: 64
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Panc1
Library_producer: Byung Woo Ryu
Laboratory: Scott Kern, Johns Hopkins Medical Institute
References: B. Ryu et al., Cancer Res 62, 819-26 (2002) [PUBMED=11830538]|P. Argani et al., Cancer Res 61, 4320-4 (2001) [PUBMED=11389052]

source_name: pancreas, adenocarcinoma, cell line, non-normalized, short SAGE

value: adenocarcinoma

value: ATCC Library constructed in the Kern laboratory


title: SAGE_Peritoneum_normal_B_13

description:
CGAP_Numeric_library_ID: 91
Tagging_enzyme: BsmF I
Old_library_name: SAGE_PERITO-13
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: normal, peritoneum, non-normalized, short SAGE, bulk

value: unknown

value: normal

value: Peritoneum, sheet (>90% mesothelial cells)


title: SAGE_Prostate_adenocarcinoma_MD_PR317

description:
CGAP_Numeric_library_ID: 73
Tagging_enzyme: BsmF I
Old_library_name: SAGE_PR317_prostate_tumor
Library_producer: I-Mei Siu
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: prostate, adenocarcinoma, microscope dissected, non-normalized, short sage

value: prostate

value: microscope dissected

value: male


title: SAGE_Prostate_carcinoma_B_pool2

description:
CGAP_Numeric_library_ID: 60
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Chen_Tumor_Pr
Laboratory: YQ Chen, Wayne State University
References: A. Waghray et al., Proteomics 1, 1327-38 (2001) [PUBMED=11721644]

source_name: prostate, carcinoma, bulk, non-normalized, short SAGE

value: bulk

value: carcinoma, prostate glands and stroma

value: Tissues were pooled from 4 patients. The samples contained 80-90% malignant glands (Gleason score 3 and 4) and 10-20% stroma with no normal glands. None of the patients had any hormonal, radiation or chemotherapy for prostate cancer prior to surgery.


title: SAGE_Pancreas_adenocarcinoma_B_96-6252

description:
CGAP_Numeric_library_ID: 127
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Panc_96-6252
Library_producer: Wei Zhou
Laboratory: Ken Kinzler and Bert Vogelstein, Johns Hopkins Medical Institute
References: L. Zhang et al., Science 276, 1268-1272 (1997) [PUBMED=9157888]|P. Argani et al., Cancer Res 61, 4320-4 (2001) [PUBMED=11389052]

source_name: pancreas, epithelium, ductal, adenocarcinoma, bulk, tissue, non-normalized, short SAGE

value: primary adenocarcinoma

value: A frozen tumor sample was obtained from a colon cancer patient. Histopathology confirmed that the tumor sample contained at least 70% of tumor cells.


title: SAGE_Pancreas_adenocarcinoma_CL_CAPAN1

description:
CGAP_Numeric_library_ID: 61
Tagging_enzyme: BsmF I
Old_library_name: SAGE_CAPAN1
Library_producer: Byung Woo Ryu
Laboratory: Scott Kern, Johns Hopkins Medical Institute
References: B. Ryu et al., Cancer Res 62, 819-26 (2002) [PUBMED=11830538]|P. Argani et al., Cancer Res 61, 4320-4 (2001) [PUBMED=11389052]


title: SAGE_Placenta_first_trimester_normal_B_1

description:
CGAP_Numeric_library_ID: 160
Tagging_enzyme: BsmF I
Library_producer: Keith Killian
Laboratory: Gregory Riggins, Duke University Medical Center

value: placenta

value: fetal

value: normal first trimester placenta

value: First trimester placenta.


title: SAGE_Ovary_normal_CL_IOSE29EC-11

description:
CGAP_Numeric_library_ID: 49
Tagging_enzyme: BsmF I
Old_library_name: SAGE_IOSE29-11
Library_producer: Patrice Morin
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: ovary, epithelium, normal, cell line, non-normalized, short SAGE

value: ovary

value: cell line

value: normal surface epithelium immortalized with SV40

value: Ovary, surface epithelium line


title: SAGE_Ovary_normal_CS_HOSE_4

description:
CGAP_Numeric_library_ID: 20
Tagging_enzyme: BsmF I
Old_library_name: SAGE_HOSE_4
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: ovary, epithelium, normal, non-normalized, short sage, short term culture

value: short term culture

value: unknown

value: normal surface epithelium


title: SAGE_Ovary_carcinoma_CL_ES2-1

description:
CGAP_Numeric_library_ID: 15
Tagging_enzyme: BsmF I
Old_library_name: SAGE_ES2-1
Library_producer: Colleen Hough
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: ovary, clear cell, poorly differentiated, carcinoma, non-normalized, short SAGE, cell line

value: carcinoma

value: Ovarian Clear cell carcinoma cell line ES-2, poorly differentiated


title: SAGE_Ovary_adenocarcinoma_B_OVT-7

description:
CGAP_Numeric_library_ID: 25
Tagging_enzyme: BsmF I
Old_library_name: SAGE_OVT-7
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: ovary, serous, adenocarcinoma, bulk, non-normalized, short SAGE

value: bulk

value: serous adenocarcinoma

value: Ovary, primary tumor. Serous adenocarcinoma.


title: SAGE_Ovary_carcinoma_CL_A2780

description:
CGAP_Numeric_library_ID: 39
Tagging_enzyme: BsmF I
Old_library_name: SAGE_A2780-9
Library_producer: Colleen Hough
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: ovary, carcinoma, cell line, non-normalized, short SAGE

value: Ovary, ovarian cancer cell line A2780


title: SAGE_Pancreas_adenocarcinoma_B_91-16113

description:
CGAP_Numeric_library_ID: 129
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Panc_91-16113
Library_producer: Wei Zhou
Laboratory: Ken Kinzler and Bert Vogelstein, Johns Hopkins Medical Institute
References: L. Zhang et al., Science 276, 1268-1272 (1997) [PUBMED=9157888]|P. Argani et al., Cancer Res 61, 4320-4 (2001) [PUBMED=11389052]

value: pancreas

value: primary adenocarcinoma

value: A frozen tumor sample was obtained from a colon cancer patient. Histopathology confirmed that the tumor sample contained at least 70% of tumor cells.


title: SAGE_Ovary_adenocarcinoma_B_OVT-8

description:
CGAP_Numeric_library_ID: 35
Tagging_enzyme: BsmF I
Old_library_name: SAGE_OVT-8
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

value: Ovary, primary ovarian tumour. Serous adenocarcinoma.


title: SAGE_Lung_normal_CL_L16

description:
CGAP_Numeric_library_ID: 584
Tagging_enzyme: BsmF I
Laboratory: Dr. Jin Jen, Laboratory of Population Genetics

source_name: lung, normal, cell line, short SAGE

value: lung


title: SAGE_Lung_adenocarcinoma_MD_L9

description:
CGAP_Numeric_library_ID: 586
Tagging_enzyme: BsmF I
Library_producer: Sequenced at Agencourt Biosciences
Laboratory: Dr. Jin Jen, Laboratory of Population Genetics

source_name: lung, microscope dissected, adenocarcinoma, short SAGE

value: microscope dissected

value: well differentiated adenocarcinoma with lymphoplasmatic infiltration


title: SAGE_Muscle_normal_B_old

description:
CGAP_Numeric_library_ID: 141
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Muscle_normal_B_old
Laboratory: Stephen Welle, University of Rochester
References: S. Welle, K. Bhatt, C. A. Thornton, Genome Res. 9, 506-13 (1999) [PUBMED=10330131]

source_name: muscle, normal, non-normalized, short SAGE, bulk

value: muscle

value: male

value: normal muscle biopsy of vastus lateralis

value: Needle muscle biopsies were obtained from the vastus lateralis muscles of 8 healthy oldermen (66-77 yr) under standard conditions. All were screened fro good health and normal neuromuscular function by a panel of laboratory tests and examination by neuromuscular disease specialist. None were involved in weight lifting or extreme levels of aerobic exercise. They were asked to refrain from activities more strenuous than walking for 3 days before the biopsy. They stayed at the University of Rochester GCRC the night before the biopsy, where they received a standard meal. They received a standard breakfast about 90 min before the biopsy. The tissue was removed whitin a few minutes of administration of the local anesthetic (lidocaine). It was quickly frozen in liquid nitrogen, then stored at -70 deg C until RNA extraction.


title: SAGE_Ovary_cystadenoma_CL_ML10-10

description:
CGAP_Numeric_library_ID: 40
Tagging_enzyme: BsmF I
Old_library_name: SAGE_ML10-10
Library_producer: Colleen Hough
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: ovary, adenoma, cell line, benign hyperplasia, non-normalized, short SAGE, female

value: ovary

value: cell line

value: female

value: cystadenoma immortalized with SV40

value: Ovary, cystadenoma line ML10


title: SAGE_Muscle_Rhabdomyosarcoma_B_1

description:
CGAP_Numeric_library_ID: 1924
Tagging_enzyme: Mme I
Library_producer: Jennifer B. Edwards
Laboratory: Dr. Gregory Riggins

source_name: extracted short sage, muscle, juvenile, male, rhabdomyosarcoma, bulk

value: bulk

value: rhabdomyosarcoma


title: SAGE_Lung_normal_CL_L15

description:
CGAP_Numeric_library_ID: 585
Tagging_enzyme: BsmF I
Laboratory: Dr. Jin Jen, Laboratory of Population Genetics

value: unknown


title: SAGE_Ovary_endometriosis_CL_E12

description:
CGAP_Numeric_library_ID: 1123
Tagging_enzyme: BsmF I
Library_producer: Morin Lab
Laboratory: Pat J. Morin
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

source_name: ovary, cell line, preneoplasia, endometriosis, short sage, female, adult

value: Endometriosis


title: SAGE_Muscle_normal_B_young

description:
CGAP_Numeric_library_ID: 142
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Muscle_normal_B_young
Laboratory: Stephen Welle, University of Rochester
References: S. Welle, K. Bhatt, C. A. Thornton, Genome Res. 9, 506-13 (1999) [PUBMED=10330131]

value: Needle muscle biopsies were obtained from the vastus lateralis muscles of 8 healthy  young men (21-24 yr) under standard conditions. All were screened fro good health and normal neuromuscular function by a panel of laboratory tests and examination by neuromuscular disease specialist. None were involved in weight lifting or extreme levels of aerobic exercise. They were asked to refrain from activities more strenuous than walking for 3 days before the biopsy. They stayed at the University of Rochester GCRC the night before the biopsy, where they received a standard meal. They received a standard breakfast about 90 min before the biopsy. The tissue was removed whitin a few minutes of administration of the local anesthetic (lidocaine). It was quickly frozen in liquid nitrogen, then stored at -70 deg C until RNA extraction.


title: SAGE_Lung_adenocarcinoma_MD_L10

description:
CGAP_Numeric_library_ID: 587
Tagging_enzyme: BsmF I
Library_producer: Clones sequenced at Agencourt Biosciences
Laboratory: Dr. Jin Jen, Laboratory of Population Genetics

source_name: lung, adenocarcinoma, microscope dissected, short SAGE

value: lung

value: poor differentiated adenocarcinoma with lymphoplasmatic infiltration


title: SAGE_Ovary_adenocarcinoma_B_OVT-6

description:
CGAP_Numeric_library_ID: 23
Tagging_enzyme: BsmF I
Old_library_name: SAGE_OVT-6
Laboratory: Pat Morin, National Institute on Aging, NIH
References: C. D. Hough et al., Cancer Res 60, 6281-7 (2000) [PUBMED=11103784]

value: serous adenocarcinoma

value: Ovary, primary ovarian tumour, serous adenocarcinoma.


title: SAGE_Lymph_Node_Lymphoma_B_1

description:
CGAP_Numeric_library_ID: 1905
Tagging_enzyme: Mme I
Library_producer: Jennifer B. Edwards
Laboratory: Dr. Gregory Riggins

source_name: lymph node, b cell lymphoma, non-normalized, extracted long sage, bulk

value: lymph node

value: male

value: Large B cell Lymphoma, Malignant, high grade, involving the serosa of the appendix


title: SAGE_Lymph_Node_normal_B_1

description:
CGAP_Numeric_library_ID: 405
Tagging_enzyme: BsmF I
Library_producer: Robert M. Beaty
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: lymph node, normal, bulk, short sage


title: SAGE_Lung_normal_B_1

description:
CGAP_Numeric_library_ID: 99
Tagging_enzyme: BsmF I
Old_library_name: SAGE_normal_lung
Library_producer: Robert Beaty
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: lung, normal, non-normalized, short SAGE, bulk

value: normal

value: Ambion cat #7968, lot #011P27A. Whole lung RNA from motor vehicle accident victim.


title: SAGE_Lung_tumor_associated_chronic_inflammation_B_UIHM0

description:
CGAP_Numeric_library_ID: 1366
Tagging_enzyme: BsmF I
Library_producer: S. Malchenko
Laboratory: B. Soares Laboratory (University of Iowa), contributed to the National Cancer Institute Genome Anatomy Project

source_name: lung, tumor associated, bulk, female, short sage, adult

value: 45 years

value: female

value: focal fibrosis and chronic inflammation


title: SAGE_Lung_adenocarcinoma_B_1

description:
CGAP_Numeric_library_ID: 964
Tagging_enzyme: Mme I
Library_producer: Kornelia Polyak, M.D., Ph.D.
Laboratory: Kornelia Polyak, M.D., Ph.D., Dana-Farber Cancer Institute

source_name: lung, bulk, adenocarcinoma, adult, male, extracted short sage, poorly differentiated

value: bulk

value: poorly differentiated adenocarcinoma

value: Stage IV lung cancer. Cells isolated from pleural effusions. Ten bp tags derived from long SAGE tags.


title: SAGE_Liver_normal_B_1

description:
CGAP_Numeric_library_ID: 135
Tagging_enzyme: BsmF I
Old_library_name: SAGE_normal_liver
Library_producer: Jennifer B. Edwards
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: liver, normal, short SAGE, non-normalized, bulk

value: liver

value: normal bulk liver

value: Normal liver from 37 year old male.


title: SAGE_Liver_cholangiocarcinoma_B_K2D

description:
CGAP_Numeric_library_ID: 417
Tagging_enzyme: BsmF I
Library_producer: Kanlayanee Sawanyawisuth
Laboratory: Dr. Greg Riggins, Duke University Medical Center

source_name: liver, adenocarcinoma, poorly differentiated, bulk, short sage, adult, male

value: Poorly differentiated adenocarcinoma


title: SAGE_Liver_cholangiocarcinoma_CL_K4

description:
CGAP_Numeric_library_ID: 503
Tagging_enzyme: BsmF I
Library_producer: Kanlayanee Sawanyawisuth
Laboratory: Dr. Greg Riggins, Duke University Medical Center

source_name: liver, cell line, carcinoma, male, adult, short sage

value: cell line

value: Low invasive cells selected by Matrigel Coating Invasion Chambers


title: SAGE_Kidney_embryonic_CL_293+beta-catenin

description:
CGAP_Numeric_library_ID: 71
Tagging_enzyme: BsmF I
Old_library_name: SAGE_293-IND
Laboratory: Pat Morin, National Institute on Aging, NIH

source_name: kidney, normal, cell line, embryo, non-normalized, short SAGE

value: kidney

value: normal epithelium

value: Kidney, embryonic cell line 293, induced cells, expressing beta-catenin


title: SAGE_Kidney_normal_B_1

description:
CGAP_Numeric_library_ID: 94
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Duke_Kidney
Library_producer: Brian E. Fee
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: kidney, normal, non-normalized, short SAGE, bulk

value: normal

value: Normal kidney female. Cause of death IC brain hemorrhage. Poly A RNA from Ambion Cat#7977 lot #100P94B


title: SAGE_Heart_normal_B_1

description:
CGAP_Numeric_library_ID: 136
Tagging_enzyme: BsmF I
Old_library_name: SAGE_normal_heart
Library_producer: Deric Olschner
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: heart, normal, short SAGE, non-normalized, bulk

value: heart

value: male

value: normal bulk heart

value: Total RNA from Ambion, Cat #7966, Lot #051P43C


title: SAGE_Leukocytes_normal_B_1

description:
CGAP_Numeric_library_ID: 98
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Duke_leukocyte
Library_producer: Brian E. Fee
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: white blood cells, normal, non-normalized, short SAGE, bulk

value: white blood cells

value: bulk

value: adult

value: female

value: normal white blood cells

value: Pooled Femal Adult total RNA from Stratagene, cat#:735016, lot#0110204


title: SAGE_Liver_cholangiocarcinoma_CL_K3

description:
CGAP_Numeric_library_ID: 504
Tagging_enzyme: BsmF I
Library_producer: Kanlayanee Sawanyawisuth
Laboratory: Dr. Greg Riggins, Duke University Medical Center

source_name: liver, cell line, carcinoma, adult, male, short sage

value: liver

value: cell line

value: High invasive cells selected by Matrigel Coating Invasion Chambers


title: SAGE_Kidney_Glomeruli_Normal_B_bjballer1

description:
CGAP_Numeric_library_ID: 2443
Tagging_enzyme: Mme I
Laboratory: B. Ballermann, M.D., Endothelial Cell Biology Lab, University of Alberta, Edmonton, Canada

source_name: kidney, normal, male, adult, short extracted sage, bulk

value: kidney

value: Glomeruli are from the unaffected pole of a kidney that was surgically removed for renal cell carcinoma. Glomeruli were isolated by sieving to >95% purity. Linker Sequences have been removed from the library.


title: SAGE_Liver_cholangiocarcinoma_B_K1

description:
CGAP_Numeric_library_ID: 266
Tagging_enzyme: BsmF I
Library_producer: Kanlayanee Sawanyawisuth
Laboratory: Dr. Greg Riggins, Duke University Medical Center

source_name: liver, bulk, carcinoma, adult, male, short sage, metastasis

value: Metastatic tumor (intrahepatic metastasis from cholangiocarcinoma primary tumor)


title: SAGE_Kidney_carcinoma_B_D2

description:
CGAP_Numeric_library_ID: 223
Tagging_enzyme: BsmF I
Library_producer: Deric Olschner
Laboratory: Dr. Greg Riggins
References: A. Lal et al., Cancer Res 59, 5403-7 (1999) [PUBMED=10554005]

source_name: kidney, bulk, transitional cell carcinoma, female, adult

value: Kidney transitional cell carcinoma

value: Source: Clontech Total RNA, Cat.# 64012-1, Lot# 2120258.  Right kidney; poorly differentiated with squamous differentiation (grade III-IV); extensive invasion seen in kidney, including renal tubules, lymphovascular areas and perinephric fat; no evidence of tumor in ureter, artery or vein.


title: SAGE_GallBladder_Normal_B_HN

description:
CGAP_Numeric_library_ID: 2128
Tagging_enzyme: Mme I
Library_producer: Dr. Hector Alvarez
Laboratory: Dr. Gregory Riggins and Dr. Anirban Maitra

source_name: gall bladder, bulk, ventral body wall, normal, adult, female, extracted short sage

value: other

value: ventral body wall


title: SAGE_Fibroblasts_CL_postcrisis

description:
CGAP_Numeric_library_ID: 44
Tagging_enzyme: BsmF I
Old_library_name: SAGE_Duke_post_crisis_fibroblasts
Library_producer: Troy Loging
Laboratory: Gregory Riggins, Duke University Medical Center

source_name: uncharacterized tissue, fibroblast, normal, cell line, non-normalized, short SAGE

value: uncharacterized tissue

value: unknown

value: normal

value: SV-40 treated fibroblasts grown in culture after crisis in which the ALT pathway of telomerase maintenance is used


title: SAGE_GallBladder_Adenocarcinoma_B_NAM01

description:
CGAP_Numeric_library_ID: 2132
Tagging_enzyme: Mme I
Library_producer: Dr. Hector Alvarez
Laboratory: Dr. Gregory Riggins and Dr. Anirban Maitra

source_name: gall bladder, bulk, adenocarcinoma, tubular, cancer, adult, female, extracted short sage

value: bulk

value: female

value: Adenocarcinoma, tubular


title: SAGE_Esophagus_Dysplasia_B_LGD01

description:
CGAP_Numeric_library_ID: 2144
Tagging_enzyme: Mme I
Library_producer: Dr. Hector Alvarez
Laboratory: Dr. Gregory Riggins and Dr. Anirban Maitra

source_name: gall bladder, bulk, adenocarcinoma, pre-cancer, adult, male, extracted short sage

value: male

value: low grade dysplasia


title: SAGE_Esophagus_Normal_B_CN01

description:
CGAP_Numeric_library_ID: 2104
Tagging_enzyme: Mme I
Library_producer: Dr. Hector Alvarez
Laboratory: Dr. Gregory Riggins and Dr. Anirban Maitra

source_name: other, bulk, normal, esophagus, extracted short sage, adult, male


title: SAGE_Kidney_embryonic_CL_293-control

description:
CGAP_Numeric_library_ID: 56
Tagging_enzyme: BsmF I
Old_library_name: SAGE_293-CTRL
Laboratory: Pat Morin, National Institute on Aging, NIH

value: cell line

value: normal epithelium

value: Uninduced 293 cells


title: SAGE_GallBladder_Adenocarcinoma_B_HAIIb

description:
CGAP_Numeric_library_ID: 2126
Tagging_enzyme: Mme I
Library_producer: Dr. Hector A. Alvarez and Jennifer B. Edwards
Laboratory: Dr. Gregory Riggins

value: Adenocarcinoma, tubular, poorly differentiated


title: SAGE_Eye_lens_B_UIHI0

description:
CGAP_Numeric_library_ID: 1363
Tagging_enzyme: BsmF I
Library_producer: S. Malchenko
Laboratory: B. Soares Laboratory (University of Iowa), contributed to the National Cancer Institute Genome Anatomy Project

source_name: eye, lens, bulk, normal, short sage

value: eye


title: SAGE_Esophagus_Dysplasia_B_HGD02

description:
CGAP_Numeric_library_ID: 2146
Tagging_enzyme: Mme I
Library_producer: Dr. Hector Alvarez
Laboratory: Dr. Gregory Riggins and Dr. Anirban Maitra

source_name: other, bulk, pre-cancer, high grade dysplasia, esophagus, extracted short sage, adult, male

value: high grade dysplasia


title: SAGE_GallBladder_Adenocarcinoma_B_C01

description:
CGAP_Numeric_library_ID: 2134
Tagging_enzyme: Mme I
Library_producer: Dr. Hector Alvarez
Laboratory: Dr. Gregory Riggins and Dr. Anirban Maitra

source_name: gall bladder, bulk, adenocarcinoma, cancer, adult, male, long sage

value: other

value: Adenocarcinoma


title: SAGE_Pelvis_mixoid_chondrosarcoma_grade2_B_UIHT0

description:
CGAP_Numeric_library_ID: 1367
Tagging_enzyme: BsmF I
Library_producer: S. Malchenko
Laboratory: B. Soares Laboratory (University of Iowa), contributed to the National Cancer Institute Genome Anatomy Project

source_name: bone, mixoid, chondrosarcoma, grade ii, bulk, adult, male, short sage

value: bone

value: 37 years