title: BC_64529


title: BC_64530

status: Public on Jul 16 2020

type: SRA

city: Klosterneuburg

first: Florian

middle: M

last: Pauler

address: Am Campus 1

country: Austria

institute: Institute of Science and Technology Austria (IST Austria)

library_source: transcriptomic

data_processing:
Raw reads were delivered as BAM files and converted to fastq format using bamToFastq (bedtools suite v2.26.0) for alignment. Reads within transcripts were counted using STAR_2.5.0c with an index prepared from GRCm38 and Gencode M16 gene annotation. Note that for optimal representation of the long non-coding RNA Meg3 the spliced ENSMUST00000143836.7 transcript was modified to represent a single exon transcript. Parameters used for STAR alignment: --outFilterMultimapNmax 1 --outSAMstrandField intronMotif --outFilterIntronMotifs RemoveNoncanonical --outSAMtype BAM SortedByCoordinate --quantMode GeneCounts
FPKM values were calculated from BAM files using cufflinks v2.2.1. Note that cells with <1M reads were excluded from this analysis.
Genome_build: mm10/GRCm38
Supplementary_files_format_and_content: Read counts in transcripts as reported by STAR as tab delimited text

molecule: total RNA

organism: Mus musculus

growth_protocol: All mouse colonies were maintained in accordance with protocols approved by institutional animal care and use committee, institutional ethics committee and the preclinical core facility (PCF) at IST Austria. Experiments were performed under a license approved by the Austrian Federal Ministry of Science and Research in accordance with the Austrian and EU animal laws. Mouse lines used: Emx1-Cre REF (JAX stock # 005628); Z/EG (JAX stock # 004178); CAST/EiJ (JAX stock # 000928); C57Bl/6J (JAX stock # 000664)

extract_protocol:
Single cells were sorted into 96 well plates (Bio-Rad) containing 4µl lysis buffer (0.2% Triton X-100, 2U/µl RNase Inhibitor [Clonetech]) per well.
sorted cells were directly processed without RNA extraction using  Smart-Seq2 (VBCF GmbH Vienna)

treatment_protocol: Animals were sacrificed and brain areas of interest were dissected. Single cell suspensions were prepared by using Papain containing L-cysteine and EDTA (vial 2, Worthington), DNase I (vial 3, Worthington), Ovomucoid protease inhibitor (vial 4, Worthington), EBSS (Thermo Fisher Scientific), DMEM/F12 (Thermo Fisher Scientific), FBS and HS. All vials from Worthington kit were reconstituted according to the manufacturer’s instructions using EBSS. The dissected brain areas were directly placed into Papain-DNase solution (20units/ml papain and 1000 units DNase). Individual animals were used for each experiment. Enzymatic digestion was performed for 30min at 37°C in a shaking water bath. Next, solution 2 (EBSS containing 0.67mg Ovomucoid protease inhibitor and 166.7 U/ml DNase I) was added, the whole suspension was thoroughly mixed and centrifuged for 5min at 1000rpm at RT. Supernatant was removed and cell pellet was resuspended in solution 2. Trituration with p1000 pipette was performed to mechanically dissolve any remaining tissue parts. DMEM/F12 was added to the cell suspension as a washing solution, followed by a centrifugation step of 5min with 1500rpm at RT. Cells were resuspended in media (DMEM/F12 containing 10% FBS and 10% HS) and kept on ice until sorted. Right before sorting, cell suspension was filtered using a 40µm cell strainer. FACS was performed on a BD FACS Aria III using 100 nozzle and keeping sample and collection devices at 4°C. Duplet exclusion was performed to ensure sorting of true single cells. GFP+ (green) cells were collected.

tag: cell type

value: Emx1 lineage

tag: tissue

value: Neocortex

tag: mother strain

tag: father strain

value: Cast

tag: age

tag: Sex

value: male


title: BC_64531


title: BC_64527


title: BC_64528


title: Patient 1114 CBCS_N1114

type: RNA

city: Houston

first: Arjun

last: Bhattacharya

state: TX

address: 1155 Pressler Street

department: Epidemiology

country: USA

institute: University of Texas MD Anderson Cancer Center

hyb_protocol: 3 uL of Reporter CodeSet, 5 uL of hybridization buffer, up to 5 uL (25-100 ng) of sample RNA, and 2 uL of Capture ProbeSet was combined for the hybridization reaction. The reactions were incubated at 65 degrees C for at least 16 hours and at most 48 hours and temperature was ramped down to 4 degrees C for processing the following day. Hybridization was run on Prep Station Serial # 0910B0040, Prep Station Serial # 1602D0412. Details provided: https://www.nanostring.com/download_file/view/1808/3822

scan_protocol: NanoString cartridges were scanned using the nCounter MAX Analysis System (NanoString Digital Analyzer Serial # 1605C0377)

data_processing: The raw data were scaled with the geometric mean of 6 positive control genes (provided on standard NanoString nCounter chips) and geometric mean of 11 housekeeping genes (labelled as Housekeeping genes in raw data). Details provided: https://www.nanostring.com/download_file/view/1168/3779

organism: Homo sapiens

source_name: primary breast tumor

label_protocol: NanoString nCounter technology

growth_protocol: Samples were recruited by the Carolina Breast Cancer Study, a population-based cohort of breast cancer patients from North Carolina, up-sampled for African American women (Newman et al., 1995, PMID 7612904).

extract_protocol: A study pathologist reviewed hemtoxylin and eosin for each tumor, selected a representative tumor block, and selected tumor areas for coring. Ten 10 uM sections were cut from blocks after coring, and an additional section was obtained and reviewed for tumor cellularity (Troester et al., 2018, PMID 28859290). RNA was isolated from cores using Qiagen RNeasy formalin-fixed, paraffin-embedded kit and protocol (Troester et al., 2018, PMID 28859290).

treatment_protocol: Blood samples, medical record documentation, and paraffin-embedded tumor specimens are obtained for all breast cancer patients (Newman et al., 1995, PMID 7612904).

tag: study phase

value: primary breast tumor

tag: estrogen receptor status

value: Positive

tag: pam50 molecular subtype

value: LumB


title: Patient 1112 CBCS_N1112


title: BC_64526


title: Patient 1115 CBCS_N1115


title: Patient 1116 CBCS_N1116

value: LumA


title: Patient 1109 CBCS_N1109


title: BC_64524


title: BC_64525


title: Patient 1105 CBCS_N1105


title: BC_64521


title: Patient 1106 CBCS_N1106


title: Patient 1121 CBCS_N1121


title: BC_64523


title: Patient 1107 CBCS_N1107


title: BC_64520


title: BC_64522


title: BC_64518


title: Patient 1101 CBCS_N1101


title: Patient 1104 CBCS_N1104


title: Patient 1103 CBCS_N1103


title: BC_64516


title: Patient 1100 CBCS_N1100


title: Patient 1102 CBCS_N1102


title: BC_64511


title: Patient 1108 CBCS_N1108


title: BC_64512


title: Patient 1098 CBCS_N1098


title: Patient 1110 CBCS_N1110


title: BC_64515


title: BC_64513


title: BC_64514


title: BC_64510


title: BC_64509


title: BC_64508


title: BC_64519


title: Patient 1095 CBCS_N1095


title: Patient 1096 CBCS_N1096


title: Patient 1099 CBCS_N1099


title: Patient 1097 CBCS_N1097


title: Patient 1023 CBCS_N1023


title: Patient 1014 CBCS_N1014


title: Patient 1021 CBCS_N1021


title: BC_64517


title: Patient 1094 CBCS_N1094


title: BC_64507


title: BC_64506


title: Patient 1018 CBCS_N1018


title: BC_64504


title: BC_64505


title: BC_64502


title: Patient 1022 CBCS_N1022


title: BC_64503


title: Patient 1015 CBCS_N1015


title: BC_64501


title: BC_64500


title: Patient 1017 CBCS_N1017


title: Patient 1019 CBCS_N1019


title: Patient 1088 CBCS_N1088


title: Patient 1020 CBCS_N1020


title: Patient 1016 CBCS_N1016

value: Normal


title: BC_64499


title: Patient 1093 CBCS_N1093


title: Patient 1086 CBCS_N1086


title: BC_64497


title: BC_64496


title: BC_64495


title: Patient 1087 CBCS_N1087


title: Patient 1085 CBCS_N1085


title: Patient 1092 CBCS_N1092


title: BC_64494


title: Patient 1089 CBCS_N1089


title: BC_64493


title: BC_64492


title: Patient 1091 CBCS_N1091


title: Patient 1076 CBCS_N1076


title: Patient 1090 CBCS_N1090


title: Patient 1079 CBCS_N1079


title: BC_64488


title: BC_64489


title: Patient 1081 CBCS_N1081


title: BC_64498


title: Patient 1077 CBCS_N1077


title: BC_64490


title: 71570_M7_Emx_Cx_P42_pat

data_processing:
Raw reads were delivered as BAM files and converted to fastq format using bamToFastq (bedtools suite v2.26.0) for alignment. Reads within transcripts were counted using STAR_2.5.0c with an index prepared from GRCm38 and Gencode M16 gene annotation. Note that for optimal representation of the long non-coding RNA Meg3 the spliced ENSMUST00000143836.7 transcript was modified to represent a single exon transcript. Parameters used for STAR alignment: --outFilterMultimapNmax 1 --outSAMstrandField intronMotif --outFilterIntronMotifs RemoveNoncanonical --outSAMtype BAM SortedByCoordinate --quantMode GeneCounts.
Raw counts from STAR alignment were used to analyse the data with Seurat (v3.1.4)
Genome_build: mm10/GRCm38
Supplementary_files_format_and_content: Read counts in transcripts as reported by STAR as tab delimited text

growth_protocol: All mouse colonies were maintained in accordance with protocols approved by institutional animal care and use committee, institutional ethics committee and the preclinical core facility (PCF) at IST Austria. Experiments were performed under a license approved by the Austrian Federal Ministry of Science and Research in accordance with the Austrian and EU animal laws. Mouse lines used: Emx1-Cre (JAX stock # 005628); MADM-7-GT (JAX stock # 021457), MADM-7-TG (JAX stock # 021458)

extract_protocol:
Single cells were sorted into 96 well plates (Bio-Rad) containing 4µl lysis buffer (0.2% Triton X-100, 2U/µl RNase Inhibitor [Clonetech]) per well.
sorted cells were directly processed without RNA extraction using Smart-Seq2 (VBCF GmbH Vienna or Biomedical Sequencing Facility (BSF) at CeMM Vienna)

treatment_protocol: Animals were sacrificed and brain areas of interest were dissected. Single cell suspensions were prepared by using Papain containing L-cysteine and EDTA (vial 2, Worthington), DNase I (vial 3, Worthington), Ovomucoid protease inhibitor (vial 4, Worthington), EBSS (Thermo Fisher Scientific), DMEM/F12 (Thermo Fisher Scientific), FBS and HS. All vials from Worthington kit were reconstituted according to the manufacturer’s instructions using EBSS. The dissected brain areas were directly placed into Papain-DNase solution (20units/ml papain and 1000 units DNase). Enzymatic digestion was performed for 30min at 37°C in a shaking water bath. Next, solution 2 (EBSS containing 0.67mg Ovomucoid protease inhibitor and 166.7 U/ml DNase I) was added, the whole suspension was thoroughly mixed and centrifuged for 5min at 1000rpm at RT. Supernatant was removed and cell pellet was resuspended in solution 2. Trituration with p1000 pipette was performed to mechanically dissolve any remaining tissue parts. DMEM/F12 was added to the cell suspension as a washing solution, followed by a centrifugation step of 5min with 1500rpm at RT. Cells were resuspended in media (DMEM/F12 containing 10% FBS and 10% HS) and kept on ice until sorted. Right before sorting, cell suspension was filtered using a 40µm cell strainer. FACS was performed on a BD FACS Aria III using 100 nozzle and keeping sample and collection devices at 4°C. Duplet exclusion was performed to ensure sorting of true single cells. GFP+ (green), tdTomato+ (red), and GFP+/tdTomato+ (yellow) cells were collected.

tag: madm insertion

tag: strain

tag: cre-driver

tag: upd

value: pat


title: 71572_M7_Emx_Cx_P42_mat

value: mat


title: 71571_M7_Emx_Cx_P42_mat


title: BC_64491


title: 71569_M7_Emx_Cx_P42_pat


title: 71568_M7_Emx_Cx_P42_pat


title: Patient 1084 CBCS_N1084


title: 71567_M7_Emx_Cx_P42_pat


title: Patient 1080 CBCS_N1080


title: Patient 1069 CBCS_N1069


title: Patient 1082 CBCS_N1082


title: 71564_M7_Emx_Cx_P42_pat


title: 71565_M7_Emx_Cx_P42_pat


title: 71563_M7_Emx_Cx_P42_mat


title: 71566_M7_Emx_Cx_P42_pat


title: 71562_M7_Emx_Cx_P42_mat


title: Patient 1066 CBCS_N1066


title: Patient 1073 CBCS_N1073


title: Patient 1068 CBCS_N1068


title: Patient 1070 CBCS_N1070


title: 71561_M7_Emx_Cx_P42_mat


title: 71560_M7_Emx_Cx_P42_mat


title: Patient 1078 CBCS_N1078


title: 71559_M7_Emx_Cx_P42_mat


title: Patient 1071 CBCS_N1071


title: Patient 1065 CBCS_N1065


title: Patient 1083 CBCS_N1083


title: 71557_M7_Emx_Cx_P42_mat


title: 71558_M7_Emx_Cx_P42_mat


title: 71556_M7_Emx_Cx_P42_pat


title: Patient 1074 CBCS_N1074


title: Patient 1075 CBCS_N1075


title: Patient 1072 CBCS_N1072


title: Patient 1067 CBCS_N1067


title: Patient 1060 CBCS_N1060


title: 71553_M7_Emx_Cx_P42_pat


title: Patient 1058 CBCS_N1058


title: 71551_M7_Emx_Cx_P42_pat


title: 71555_M7_Emx_Cx_P42_pat


title: 71552_M7_Emx_Cx_P42_pat


title: Patient 1059 CBCS_N1059


title: Patient 1062 CBCS_N1062


title: Patient 1063 CBCS_N1063


title: Patient 1064 CBCS_N1064


title: 71549_M7_Emx_Cx_P42_pat


title: 71550_M7_Emx_Cx_P42_pat


title: 71548_M7_Emx_Cx_P42_mat


title: Patient 1053 CBCS_N1053


title: Patient 1061 CBCS_N1061


title: Patient 1056 CBCS_N1056


title: 71547_M7_Emx_Cx_P42_mat


title: 71546_M7_Emx_Cx_P42_mat


title: Patient 1051 CBCS_N1051


title: 71545_M7_Emx_Cx_P42_mat


title: Patient 1049 CBCS_N1049


title: 71554_M7_Emx_Cx_P42_pat


title: 71542_M7_Emx_Cx_P42_mat


title: Patient 1050 CBCS_N1050


title: Patient 1048 CBCS_N1048


title: 71541_M7_Emx_Cx_P42_mat


title: 71540_M7_Emx_Cx_P42_pat


title: 71539_M7_Emx_Cx_P42_pat


title: 71538_M7_Emx_Cx_P42_pat


title: Patient 1054 CBCS_N1054

value: Basal


title: Patient 1057 CBCS_N1057


title: 71537_M7_Emx_Cx_P42_pat


title: Patient 1038 CBCS_N1038


title: Patient 1052 CBCS_N1052


title: 71535_M7_Emx_Cx_P42_pat


title: Patient 1039 CBCS_N1039


title: 71536_M7_Emx_Cx_P42_pat


title: Patient 1045 CBCS_N1045


title: 71544_M7_Emx_Cx_P42_mat


title: Patient 1047 CBCS_N1047


title: 71543_M7_Emx_Cx_P42_mat


title: 71533_M7_Emx_Cx_P42_pat


title: Patient 1043 CBCS_N1043


title: Patient 1042 CBCS_N1042


title: 71534_M7_Emx_Cx_P42_pat


title: 71532_M7_Emx_Cx_P42_mat


title: Patient 1055 CBCS_N1055


title: Patient 1044 CBCS_N1044


title: 71528_M7_Emx_Cx_P42_mat


title: Patient 1041 CBCS_N1041


title: Patient 1046 CBCS_N1046


title: 71527_M7_Emx_Cx_P42_mat


title: 71529_M7_Emx_Cx_P42_mat


title: 71526_M7_Emx_Cx_P42_mat


title: Patient 1037 CBCS_N1037


title: 71525_M7_Emx_Cx_P42_mat


title: Patient 1031 CBCS_N1031


title: Patient 1040 CBCS_N1040


title: Patient 1032 CBCS_N1032


title: Patient 1034 CBCS_N1034


title: 71523_M7_Emx_Cx_P42_pat


title: 71524_M7_Emx_Cx_P42_pat


title: 71530_M7_Emx_Cx_P42_mat


title: 71522_M7_Emx_Cx_P42_pat


title: Patient 1033 CBCS_N1033


title: 71531_M7_Emx_Cx_P42_mat


title: Patient 1029 CBCS_N1029


title: Patient 1035 CBCS_N1035


title: 71520_M7_Emx_Cx_P42_pat


title: 71519_M7_Emx_Cx_P42_pat


title: 71521_M7_Emx_Cx_P42_pat


title: Patient 1030 CBCS_N1030


title: Patient 681 CBCS_N681


title: Patient 1036 CBCS_N1036


title: Patient 1026 CBCS_N1026


title: 71516_M7_Emx_Cx_P42_mat


title: 71518_M7_Emx_Cx_P42_pat


title: 71515_M7_Emx_Cx_P42_mat


title: Patient 1027 CBCS_N1027


title: 71514_M7_Emx_Cx_P42_mat


title: Patient 1028 CBCS_N1028


title: 71513_M7_Emx_Cx_P42_mat


title: Patient 1025 CBCS_N1025


title: Patient 1013 CBCS_N1013


title: 71512_M7_Emx_Cx_P42_mat


title: Patient 1006 CBCS_N1006


title: 71510_M7_Emx_Cx_P42_mat


title: 71511_M7_Emx_Cx_P42_mat


title: 71508_M7_Emx_Cx_P42_pat


title: 71509_M7_Emx_Cx_P42_mat


title: Patient 1008 CBCS_N1008


title: Patient 1011 CBCS_N1011


title: Patient 1024 CBCS_N1024


title: Patient 1005 CBCS_N1005


title: Patient 1009 CBCS_N1009


title: 71505_M7_Emx_Cx_P42_pat


title: 71517_M7_Emx_Cx_P42_pat


title: 71506_M7_Emx_Cx_P42_pat


title: Patient 1010 CBCS_N1010


title: 71504_M7_Emx_Cx_P42_pat


title: Patient 1007 CBCS_N1007


title: Patient 1003 CBCS_N1003


title: Patient 1002 CBCS_N1002


title: 71503_M7_Emx_Cx_P42_pat


title: Patient 1000 CBCS_N1000


title: 71501_M7_Emx_Cx_P42_pat


title: 71502_M7_Emx_Cx_P42_pat


title: 71500_M7_Emx_Cx_P42_mat


title: 71499_M7_Emx_Cx_P42_mat


title: Patient 996 CBCS_N996


title: Patient 997 CBCS_N997


title: 71507_M7_Emx_Cx_P42_pat


title: Patient 1004 CBCS_N1004


title: Patient 998 CBCS_N998


title: 71496_M7_Emx_Cx_P42_mat


title: 71493_M7_Emx_Cx_P42_mat


title: Patient 994 CBCS_N994


title: 71495_M7_Emx_Cx_P42_mat


title: 71494_M7_Emx_Cx_P42_mat


title: 71497_M7_Emx_Cx_P42_mat


title: 71491_M7_Emx_Cx_P42_pat


title: Patient 988 CBCS_N988


title: Patient 989 CBCS_N989


title: Patient 1001 CBCS_N1001


title: Patient 992 CBCS_N992


title: 71492_M7_Emx_Cx_P42_pat


title: Patient 991 CBCS_N991


title: 71490_M7_Emx_Cx_P42_pat


title: 71489_M7_Emx_Cx_P42_pat


title: Patient 1012 CBCS_N1012


title: 71498_M7_Emx_Cx_P42_mat


title: Patient 990 CBCS_N990


title: 71487_M7_Emx_Cx_P42_pat


title: Patient 993 CBCS_N993


title: 71488_M7_Emx_Cx_P42_pat


title: 71486_M7_Emx_Cx_P42_pat


title: Patient 999 CBCS_N999


title: Patient 981 CBCS_N981


title: 113195_M7_Emx_Cx_P14_mat


title: Patient 985 CBCS_N985


title: 71485_M7_Emx_Cx_P42_pat


title: Patient 995 CBCS_N995


title: Patient 983 CBCS_N983


title: Patient 979 CBCS_N979


title: Patient 984 CBCS_N984


title: 113191_M7_Emx_Cx_P14_mat


title: Patient 980 CBCS_N980


title: 113189_M7_Emx_Cx_P14_mat


title: 113190_M7_Emx_Cx_P14_mat


title: Patient 978 CBCS_N978


title: 113188_M7_Emx_Cx_P14_mat


title: Patient 976 CBCS_N976


title: Patient 969 CBCS_N969


title: 113187_M7_Emx_Cx_P14_pat


title: Patient 987 CBCS_N987


title: 113186_M7_Emx_Cx_P14_pat


title: Patient 982 CBCS_N982


title: 113185_M7_Emx_Cx_P14_pat


title: Patient 986 CBCS_N986


title: 113194_M7_Emx_Cx_P14_mat


title: Patient 975 CBCS_N975


title: 113183_M7_Emx_Cx_P14_pat


title: 113184_M7_Emx_Cx_P14_pat


title: Patient 972 CBCS_N972


title: Patient 974 CBCS_N974


title: Patient 970 CBCS_N970


title: Patient 971 CBCS_N971


title: 113192_M7_Emx_Cx_P14_mat


title: 113182_M7_Emx_Cx_P14_pat


title: 113193_M7_Emx_Cx_P14_mat


title: 113181_M7_Emx_Cx_P14_pat


title: Patient 977 CBCS_N977


title: 113180_M7_Emx_Cx_P14_pat


title: Patient 973 CBCS_N973


title: 113179_M7_Emx_Cx_P14_mat


title: 113177_M7_Emx_Cx_P14_mat


title: Patient 954 CBCS_N954


title: Patient 951 CBCS_N951


title: 113178_M7_Emx_Cx_P14_mat


title: 113175_M7_Emx_Cx_P14_mat


title: 113176_M7_Emx_Cx_P14_mat


title: 113174_M7_Emx_Cx_P14_mat


title: 113173_M7_Emx_Cx_P14_mat


title: Patient 952 CBCS_N952


title: Patient 949 CBCS_N949


title: Patient 950 CBCS_N950


title: Patient 953 CBCS_N953


title: Patient 955 CBCS_N955


title: Patient 948 CBCS_N948


title: 113168_M7_Emx_Cx_P14_pat


title: 113171_M7_Emx_Cx_P14_pat


title: 113166_M7_Emx_Cx_P14_pat


title: 113170_M7_Emx_Cx_P14_pat


title: 113167_M7_Emx_Cx_P14_pat


title: Patient 956 CBCS_N956


title: Patient 957 CBCS_N957


title: Patient 959 CBCS_N959


title: Patient 958 CBCS_N958


title: 113165_M7_Emx_Cx_P14_pat


title: Patient 965 CBCS_N965


title: Patient 968 CBCS_N968


title: 113163_M7_Emx_Cx_P14_mat


title: Patient 962 CBCS_N962


title: 113164_M7_Emx_Cx_P14_pat


title: 113172_M7_Emx_Cx_P14_mat


title: Patient 963 CBCS_N963


title: 113161_M7_Emx_Cx_P14_mat


title: 113162_M7_Emx_Cx_P14_mat


title: Patient 966 CBCS_N966


title: Patient 964 CBCS_N964


title: 113159_M7_Emx_Cx_P14_mat


title: 113169_M7_Emx_Cx_P14_pat


title: Patient 960 CBCS_N960


title: 113160_M7_Emx_Cx_P14_mat


title: Patient 961 CBCS_N961


title: 113158_M7_Emx_Cx_P14_mat


title: Patient 945 CBCS_N945


title: 113157_M7_Emx_Cx_P14_mat


title: Patient 943 CBCS_N943


title: 113156_M7_Emx_Cx_P14_mat


title: Patient 944 CBCS_N944


title: 113153_M7_Emx_Cx_P14_pat


title: 113154_M7_Emx_Cx_P14_pat


title: Patient 946 CBCS_N946


title: Patient 934 CBCS_N934


title: 113152_M7_Emx_Cx_P14_pat


title: 113151_M7_Emx_Cx_P14_pat


title: Patient 937 CBCS_N937


title: 113150_M7_Emx_Cx_P14_pat


title: Patient 942 CBCS_N942


title: Patient 939 CBCS_N939


title: 113148_M7_Emx_Cx_P14_pat


title: Patient 967 CBCS_N967


title: 113149_M7_Emx_Cx_P14_pat


title: 113147_M7_Emx_Cx_P14_mat


title: 113146_M7_Emx_Cx_P14_mat


title: Patient 936 CBCS_N936


title: Patient 933 CBCS_N933


title: 113144_M7_Emx_Cx_P14_mat


title: Patient 935 CBCS_N935


title: 113155_M7_Emx_Cx_P14_pat


title: 113143_M7_Emx_Cx_P14_mat


title: 113145_M7_Emx_Cx_P14_mat


title: Patient 947 CBCS_N947


title: Patient 928 CBCS_N928


title: Patient 941 CBCS_N941


title: 113142_M7_Emx_Cx_P14_mat


title: Patient 938 CBCS_N938


title: 113141_M7_Emx_Cx_P14_mat


title: Patient 931 CBCS_N931


title: Patient 926 CBCS_N926


title: 113140_M7_Emx_Cx_P14_mat


title: Patient 930 CBCS_N930


title: Patient 929 CBCS_N929


title: Patient 927 CBCS_N927


title: 113136_M7_Emx_Cx_P14_pat


title: 113137_M7_Emx_Cx_P14_pat


title: 113138_M7_Emx_Cx_P14_pat


title: Patient 940 CBCS_N940


title: 113139_M7_Emx_Cx_P14_pat


title: Patient 924 CBCS_N924


title: Patient 919 CBCS_N919


title: Patient 923 CBCS_N923


title: Patient 925 CBCS_N925


title: 113133_M7_Emx_Cx_P14_pat


title: 113131_M7_Emx_Cx_P14_mat


title: Patient 932 CBCS_N932


title: 113132_M7_Emx_Cx_P14_pat


title: 113134_M7_Emx_Cx_P14_pat


title: 113129_M7_Emx_Cx_P14_mat


title: Patient 916 CBCS_N916


title: Patient 922 CBCS_N922


title: Patient 918 CBCS_N918


title: Patient 921 CBCS_N921


title: Patient 915 CBCS_N915


title: 113126_M7_Emx_Cx_P14_mat


title: 113127_M7_Emx_Cx_P14_mat


title: Patient 908 CBCS_N908


title: Patient 920 CBCS_N920


title: Patient 917 CBCS_N917


title: 113135_M7_Emx_Cx_P14_pat


title: 113125_M7_Emx_Cx_P14_mat


title: 113123_M7_Emx_Cx_P14_pat


title: Patient 912 CBCS_N912


title: 113122_M7_Emx_Cx_P14_pat


title: 113124_M7_Emx_Cx_P14_mat


title: Patient 911 CBCS_N911


title: Patient 910 CBCS_N910


title: 113130_M7_Emx_Cx_P14_mat


title: 113121_M7_Emx_Cx_P14_pat


title: 113128_M7_Emx_Cx_P14_mat


title: 113119_M7_Emx_Cx_P14_pat


title: 113118_M7_Emx_Cx_P14_pat


title: Patient 913 CBCS_N913


title: Patient 909 CBCS_N909


title: 113117_M7_Emx_Cx_P14_pat


title: 113116_M7_Emx_Cx_P14_pat


title: Patient 901 CBCS_N901


title: Patient 899 CBCS_N899


title: Patient 906 CBCS_N906


title: 113114_M7_Emx_Cx_P14_mat


title: 113113_M7_Emx_Cx_P14_mat


title: 113115_M7_Emx_Cx_P14_mat


title: Patient 907 CBCS_N907


title: Patient 905 CBCS_N905


title: 113112_M7_Emx_Cx_P14_mat


title: Patient 903 CBCS_N903


title: 113111_M7_Emx_Cx_P14_mat


title: Patient 902 CBCS_N902


title: 113110_M7_Emx_Cx_P14_mat


title: Patient 904 CBCS_N904


title: 113120_M7_Emx_Cx_P14_pat


title: 113108_M7_Emx_Cx_P14_mat


title: 113109_M7_Emx_Cx_P14_mat


title: Patient 914 CBCS_N914


title: 113107_M7_Emx_Cx_P14_pat


title: Patient 485 CBCS_N485

value: Negative


title: Patient 486 CBCS_N486


title: 113106_M7_Emx_Cx_P14_pat


title: Patient 419 CBCS_N419


title: 113105_M7_Emx_Cx_P14_pat


title: Patient 417 CBCS_N417


title: Patient 418 CBCS_N418


title: 113104_M7_Emx_Cx_P14_pat


title: Patient 484 CBCS_N484


title: Patient 900 CBCS_N900


title: Patient 481 CBCS_N481


title: 113103_M7_Emx_Cx_P14_pat


title: 113100_M7_Emx_Cx_P14_pat


title: Patient 482 CBCS_N482


title: 113101_M7_Emx_Cx_P14_pat


title: 113102_M7_Emx_Cx_P14_pat


title: Patient 483 CBCS_N483


title: 113099_M7_Emx_Cx_P14_mat


title: Patient 480 CBCS_N480


title: Patient 415 CBCS_N415


title: Patient 414 CBCS_N414


title: Patient 416 CBCS_N416


title: 113097_M7_Emx_Cx_P14_mat


title: Patient 412 CBCS_N412


title: Patient 413 CBCS_N413


title: 113095_M7_Emx_Cx_P14_mat


title: 113098_M7_Emx_Cx_P14_mat


title: Patient 479 CBCS_N479


title: 113093_M7_Emx_Cx_P14_mat


title: 113091_M7_Emx_Cx_P14_pat


title: 113094_M7_Emx_Cx_P14_mat


title: Patient 411 CBCS_N411


title: 113090_M7_Emx_Cx_P14_pat


title: 113092_M7_Emx_Cx_P14_mat


title: Patient 408 CBCS_N408


title: 113089_M7_Emx_Cx_P14_pat


title: Patient 409 CBCS_N409


title: 113087_M7_Emx_Cx_P14_pat


title: 113088_M7_Emx_Cx_P14_pat


title: Patient 478 CBCS_N478


title: Patient 407 CBCS_N407


title: 113096_M7_Emx_Cx_P14_mat


title: 113085_M7_Emx_Cx_P14_pat


title: Patient 406 CBCS_N406


title: 113084_M7_Emx_Cx_P14_pat


title: Patient 405 CBCS_N405


title: Patient 476 CBCS_N476


title: Patient 403 CBCS_N403


title: 113081_M7_Emx_Cx_P14_mat


title: 113082_M7_Emx_Cx_P14_mat


title: 113083_M7_Emx_Cx_P14_mat


title: Patient 401 CBCS_N401


title: 113080_M7_Emx_Cx_P14_mat


title: Patient 402 CBCS_N402


title: 113078_M7_Emx_Cx_P14_mat


title: 113077_M7_Emx_Cx_P14_mat


title: Patient 410 CBCS_N410


title: Patient 473 CBCS_N473


title: Patient 400 CBCS_N400


title: 113086_M7_Emx_Cx_P14_pat


title: 113075_M7_Emx_Cx_P14_pat


title: Patient 470 CBCS_N470


title: Patient 477 CBCS_N477


title: 113076_M7_Emx_Cx_P14_mat


title: Patient 404 CBCS_N404


title: Patient 474 CBCS_N474


title: 113074_M7_Emx_Cx_P14_pat


title: Patient 472 CBCS_N472


title: Patient 471 CBCS_N471


title: 113072_M7_Emx_Cx_P14_pat


title: Patient 475 CBCS_N475


title: Patient 399 CBCS_N399


title: Patient 397 CBCS_N397


title: 113070_M7_Emx_Cx_P14_pat


title: 113071_M7_Emx_Cx_P14_pat


title: 113079_M7_Emx_Cx_P14_mat


title: 113069_M7_Emx_Cx_P14_pat


title: Patient 398 CBCS_N398


title: Patient 396 CBCS_N396


title: Patient 469 CBCS_N469


title: 113066_M7_Emx_Cx_P14_mat


title: Patient 467 CBCS_N467


title: Patient 395 CBCS_N395


title: Patient 468 CBCS_N468


title: 113064_M7_Emx_Cx_P14_mat


title: 113065_M7_Emx_Cx_P14_mat


title: 113062_M7_Emx_Cx_P14_mat


title: Patient 393 CBCS_N393


title: Patient 394 CBCS_N394


title: 113063_M7_Emx_Cx_P14_mat


title: 113073_M7_Emx_Cx_P14_pat


title: 113060_M7_Emx_Cx_P14_mat


title: 113061_M7_Emx_Cx_P14_mat


title: Patient 391 CBCS_N391


title: 113059_M7_Emx_Cx_P14_pat


title: Patient 390 CBCS_N390


title: Patient 389 CBCS_N389


title: Patient 466 CBCS_N466


title: Patient 465 CBCS_N465


title: Patient 392 CBCS_N392


title: 113058_M7_Emx_Cx_P14_pat


title: 113057_M7_Emx_Cx_P14_pat


title: 113067_M7_Emx_Cx_P14_mat


title: 113068_M7_Emx_Cx_P14_pat


title: Patient 461 CBCS_N461


title: Patient 464 CBCS_N464


title: 113054_M7_Emx_Cx_P14_pat


title: 113055_M7_Emx_Cx_P14_pat


title: 113053_M7_Emx_Cx_P14_pat


title: 113056_M7_Emx_Cx_P14_pat


title: Patient 462 CBCS_N462


title: 113052_M7_Emx_Cx_P14_pat


title: Patient 463 CBCS_N463


title: Patient 460 CBCS_N460


title: 113049_M7_Emx_Cx_P14_mat


title: 113051_M7_Emx_Cx_P14_mat


title: Patient 387 CBCS_N387


title: 113048_M7_Emx_Cx_P14_mat


title: Patient 386 CBCS_N386


title: Patient 457 CBCS_N457


title: 113047_M7_Emx_Cx_P14_mat


title: 113046_M7_Emx_Cx_P14_mat


title: Patient 458 CBCS_N458


title: 113045_M7_Emx_Cx_P14_mat


title: 113044_M7_Emx_Cx_P14_mat


title: 113043_M7_Emx_Cx_P14_pat


title: Patient 382 CBCS_N382


title: Patient 459 CBCS_N459


title: 113042_M7_Emx_Cx_P14_pat


title: 113041_M7_Emx_Cx_P14_pat


title: 113039_M7_Emx_Cx_P14_pat


title: 113050_M7_Emx_Cx_P14_mat


title: 113040_M7_Emx_Cx_P14_pat


title: Patient 379 CBCS_N379


title: Patient 383 CBCS_N383


title: Patient 385 CBCS_N385


title: Patient 388 CBCS_N388


title: Patient 378 CBCS_N378


title: Patient 377 CBCS_N377


title: Patient 381 CBCS_N381


title: 113037_M7_Emx_Cx_P14_pat


title: Patient 456 CBCS_N456


title: 113036_M7_Emx_Cx_P14_pat


title: Patient 375 CBCS_N375


title: 113035_M7_Emx_Cx_P14_mat


title: 113034_M7_Emx_Cx_P14_mat


title: Patient 374 CBCS_N374


title: 113032_M7_Emx_Cx_P14_mat


title: Patient 380 CBCS_N380


title: 113038_M7_Emx_Cx_P14_pat


title: 113028_M7_Emx_Cx_P14_mat


title: 113031_M7_Emx_Cx_P14_mat


title: Patient 454 CBCS_N454


title: Patient 455 CBCS_N455


title: Patient 372 CBCS_N372


title: 113030_M7_Emx_Cx_P14_mat


title: 113027_M7_Emx_Cx_P14_pat


title: Patient 369 CBCS_N369


title: Patient 376 CBCS_N376


title: 113026_M7_Emx_Cx_P14_pat


title: Patient 384 CBCS_N384


title: Patient 371 CBCS_N371


title: 113033_M7_Emx_Cx_P14_mat


title: 113025_M7_Emx_Cx_P14_pat


title: 113023_M7_Emx_Cx_P14_pat


title: 113022_M7_Emx_Cx_P14_pat


title: 113021_M7_Emx_Cx_P14_pat


title: Patient 453 CBCS_N453


title: 113020_M7_Emx_Cx_P14_pat


title: 113024_M7_Emx_Cx_P14_pat


title: Patient 367 CBCS_N367


title: 113029_M7_Emx_Cx_P14_mat


title: Patient 373 CBCS_N373


title: Patient 365 CBCS_N365


title: 113019_M7_Emx_Cx_P14_mat


title: 113017_M7_Emx_Cx_P14_mat


title: 113018_M7_Emx_Cx_P14_mat


title: Patient 444 CBCS_N444


title: Patient 366 CBCS_N366


title: Patient 447 CBCS_N447


title: 113014_M7_Emx_Cx_P14_mat


title: 113015_M7_Emx_Cx_P14_mat


title: 113016_M7_Emx_Cx_P14_mat


title: Patient 445 CBCS_N445


title: Patient 446 CBCS_N446


title: Patient 370 CBCS_N370


title: Patient 443 CBCS_N443


title: Patient 368 CBCS_N368


title: Patient 360 CBCS_N360


title: 113013_M7_Emx_Cx_P14_mat


title: Patient 362 CBCS_N362


title: Patient 364 CBCS_N364


title: Patient 363 CBCS_N363


title: 113012_M7_Emx_Cx_P14_mat


title: 113010_M7_Emx_Cx_P14_pat


title: 113011_M7_Emx_Cx_P14_pat


title: Patient 442 CBCS_N442


title: 113009_M7_Emx_Cx_P14_pat


title: Patient 439 CBCS_N439


title: Patient 437 CBCS_N437


title: 113007_M7_Emx_Cx_P14_pat


title: 113006_M7_Emx_Cx_P14_pat


title: 113008_M7_Emx_Cx_P14_pat


title: 113004_M7_Emx_Cx_P14_pat


title: Patient 438 CBCS_N438


title: 113005_M7_Emx_Cx_P14_pat


title: Patient 434 CBCS_N434


title: 113001_M7_Emx_Cx_P7_mat


title: 113002_M7_Emx_Cx_P7_mat


title: Patient 440 CBCS_N440


title: Patient 431 CBCS_N431


title: Patient 436 CBCS_N436


title: 113000_M7_Emx_Cx_P7_mat


title: 112999_M7_Emx_Cx_P7_mat


title: 112997_M7_Emx_Cx_P7_mat


title: Patient 432 CBCS_N432


title: Patient 361 CBCS_N361


title: Patient 433 CBCS_N433


title: 112996_M7_Emx_Cx_P7_mat


title: Patient 435 CBCS_N435


title: Patient 359 CBCS_N359


title: Patient 430 CBCS_N430


title: 112995_M7_Emx_Cx_P7_pat


title: Patient 428 CBCS_N428


title: 112994_M7_Emx_Cx_P7_pat


title: 113003_M7_Emx_Cx_P7_mat


title: 112993_M7_Emx_Cx_P7_pat


title: Patient 427 CBCS_N427


title: 112992_M7_Emx_Cx_P7_pat


title: Patient 441 CBCS_N441


title: Patient 357 CBCS_N357


title: 112988_M7_Emx_Cx_P7_pat


title: 112991_M7_Emx_Cx_P7_pat


title: 112986_M7_Emx_Cx_P7_mat


title: Patient 358 CBCS_N358


title: Patient 356 CBCS_N356


title: 112985_M7_Emx_Cx_P7_mat


title: Patient 678 CBCS_N678


title: Patient 355 CBCS_N355


title: Patient 676 CBCS_N676


title: 112984_M7_Emx_Cx_P7_mat


title: 112983_M7_Emx_Cx_P7_mat


title: Patient 677 CBCS_N677


title: 112980_M7_Emx_Cx_P7_mat


title: 112981_M7_Emx_Cx_P7_mat


title: Patient 675 CBCS_N675


title: Patient 672 CBCS_N672


title: 112979_M7_Emx_Cx_P7_pat


title: 112978_M7_Emx_Cx_P7_pat


title: Patient 429 CBCS_N429


title: 112989_M7_Emx_Cx_P7_pat


title: 112976_M7_Emx_Cx_P7_pat


title: 112977_M7_Emx_Cx_P7_pat


title: Patient 669 CBCS_N669


title: Patient 673 CBCS_N673


title: Patient 353 CBCS_N353


title: Patient 354 CBCS_N354


title: Patient 671 CBCS_N671


title: Patient 670 CBCS_N670


title: 112975_M7_Emx_Cx_P7_pat


title: Patient 668 CBCS_N668


title: Patient 667 CBCS_N667


title: 112972_M7_Emx_Cx_P7_pat


title: 112973_M7_Emx_Cx_P7_pat


title: Patient 666 CBCS_N666


title: 112971_M7_Emx_Cx_P7_mat


title: 112969_M7_Emx_Cx_P7_mat


title: Patient 665 CBCS_N665


title: 112970_M7_Emx_Cx_P7_mat


title: 112968_M7_Emx_Cx_P7_mat


title: 112966_M7_Emx_Cx_P7_mat


title: 112967_M7_Emx_Cx_P7_mat


title: Patient 658 CBCS_N658


title: 112965_M7_Emx_Cx_P7_mat


title: Patient 663 CBCS_N663


title: Patient 674 CBCS_N674


title: 112974_M7_Emx_Cx_P7_pat


title: Patient 660 CBCS_N660


title: Patient 664 CBCS_N664


title: 112962_M7_Emx_Cx_P7_pat


title: 112963_M7_Emx_Cx_P7_pat


title: Patient 662 CBCS_N662


title: 112961_M7_Emx_Cx_P7_pat


title: Patient 661 CBCS_N661


title: 112960_M7_Emx_Cx_P7_pat


title: 112958_M7_Emx_Cx_P7_pat


title: Patient 656 CBCS_N656


title: Patient 654 CBCS_N654


title: 112959_M7_Emx_Cx_P7_pat


title: Patient 655 CBCS_N655


title: 112957_M7_Emx_Cx_P7_pat


title: 112956_M7_Emx_Cx_P7_pat


title: Patient 346 CBCS_N346


title: Patient 653 CBCS_N653


title: 112955_M7_Emx_Cx_P7_mat


title: Patient 650 CBCS_N650


title: 112954_M7_Emx_Cx_P7_mat


title: Patient 651 CBCS_N651


title: 112964_M7_Emx_Cx_P7_mat


title: 112953_M7_Emx_Cx_P7_mat


title: Patient 647 CBCS_N647


title: Patient 649 CBCS_N649


title: Patient 657 CBCS_N657


title: 112951_M7_Emx_Cx_P7_mat


title: 112950_M7_Emx_Cx_P7_mat


title: Patient 646 CBCS_N646


title: 112949_M7_Emx_Cx_P7_mat


title: 112952_M7_Emx_Cx_P7_mat


title: Patient 648 CBCS_N648


title: Patient 347 CBCS_N347


title: Patient 349 CBCS_N349


title: 112947_M7_Emx_Cx_P7_pat


title: 112948_M7_Emx_Cx_P7_mat


title: Patient 652 CBCS_N652


title: Patient 645 CBCS_N645


title: 112946_M7_Emx_Cx_P7_pat


title: 112945_M7_Emx_Cx_P7_pat


title: Patient 644 CBCS_N644


title: Patient 574 CBCS_N574


title: 112943_M7_Emx_Cx_P7_pat


title: Patient 575 CBCS_N575


title: 112944_M7_Emx_Cx_P7_pat


title: 112942_M7_Emx_Cx_P7_pat


title: 112941_M7_Emx_Cx_P7_pat


title: 112939_M7_Emx_Cx_P7_mat


title: 112938_M7_Emx_Cx_P7_mat


title: Patient 571 CBCS_N571


title: 112937_M7_Emx_Cx_P7_mat


title: Patient 1244 CBCS_N1244


title: Patient 568 CBCS_N568


title: Patient 572 CBCS_N572


title: 112940_M7_Emx_Cx_P7_pat


title: 112935_M7_Emx_Cx_P7_mat


title: 112936_M7_Emx_Cx_P7_mat


title: Patient 566 CBCS_N566


title: Patient 659 CBCS_N659


title: 112933_M7_Emx_Cx_P7_mat


title: Patient 569 CBCS_N569


title: Patient 352 CBCS_N352


title: Patient 563 CBCS_N563


title: Patient 573 CBCS_N573


title: 112932_M7_Emx_Cx_P7_mat


title: 112931_M7_Emx_Cx_P7_pat


title: Patient 564 CBCS_N564


title: Patient 565 CBCS_N565


title: Patient 570 CBCS_N570


title: 112929_M7_Emx_Cx_P7_pat


title: 112930_M7_Emx_Cx_P7_pat


title: Patient 562 CBCS_N562


title: Patient 561 CBCS_N561


title: 112927_M7_Emx_Cx_P7_pat


title: Patient 560 CBCS_N560


title: 112928_M7_Emx_Cx_P7_pat


title: 112926_M7_Emx_Cx_P7_pat


title: Patient 567 CBCS_N567


title: 112925_M7_Emx_Cx_P7_pat


title: 112934_M7_Emx_Cx_P7_mat


title: Patient 556 CBCS_N556


title: 112924_M7_Emx_Cx_P7_pat


title: Patient 557 CBCS_N557


title: 112921_M7_Emx_Cx_P7_mat


title: 112923_M7_Emx_Cx_P7_mat


title: 112920_M7_Emx_Cx_P7_mat


title: Patient 554 CBCS_N554


title: 112922_M7_Emx_Cx_P7_mat


title: Patient 425 CBCS_N425


title: Patient 426 CBCS_N426


title: 112919_M7_Emx_Cx_P7_mat


title: 112918_M7_Emx_Cx_P7_mat


title: Patient 553 CBCS_N553


title: Patient 547 CBCS_N547


title: Patient 555 CBCS_N555


title: Patient 559 CBCS_N559


title: Patient 549 CBCS_N549


title: Patient 552 CBCS_N552


title: Patient 558 CBCS_N558


title: Patient 551 CBCS_N551


title: Patient 550 CBCS_N550


title: Patient 544 CBCS_N544


title: 112911_M7_Emx_Cx_P7_pat


title: 112913_M7_Emx_Cx_P7_pat


title: 112914_M7_Emx_Cx_P7_pat


title: 112915_M7_Emx_Cx_P7_pat


title: Patient 545 CBCS_N545


title: Patient 548 CBCS_N548


title: Patient 546 CBCS_N546


title: 112917_M7_Emx_Cx_P7_mat


title: 112909_M7_Emx_Cx_P7_pat


title: 112908_M7_Emx_Cx_P7_pat


title: 112910_M7_Emx_Cx_P7_pat


title: 112916_M7_Emx_Cx_P7_mat


title: 112906_M7_Emx_Cx_P7_mat


title: 112907_M7_Emx_Cx_P7_mat


title: Patient 540 CBCS_N540


title: Patient 543 CBCS_N543


title: 112903_M7_Emx_Cx_P7_mat


title: Patient 542 CBCS_N542


title: 112904_M7_Emx_Cx_P7_mat


title: 112905_M7_Emx_Cx_P7_mat


title: 112912_M7_Emx_Cx_P7_pat


title: Patient 539 CBCS_N539


title: 112902_M7_Emx_Cx_P7_pat


title: Patient 1243 CBCS_N1243


title: Patient 1242 CBCS_N1242


title: Patient 1241 CBCS_N1241


title: 112901_M7_Emx_Cx_P7_mat


title: 112900_M7_Emx_Cx_P7_mat


title: 112899_M7_Emx_Cx_P7_mat


title: 112897_M7_Emx_Cx_P7_pat


title: 112898_M7_Emx_Cx_P7_pat


title: Patient 538 CBCS_N538


title: Patient 536 CBCS_N536


title: Patient 534 CBCS_N534


title: Patient 535 CBCS_N535


title: 112896_M7_Emx_Cx_P7_pat


title: Patient 533 CBCS_N533


title: 112894_M7_Emx_Cx_P7_pat


title: Patient 541 CBCS_N541


title: 112895_M7_Emx_Cx_P7_pat


title: 112893_M7_Emx_Cx_P7_pat


title: Patient 531 CBCS_N531


title: 112892_M7_Emx_Cx_P7_pat


title: Patient 529 CBCS_N529


title: Patient 528 CBCS_N528


title: Patient 424 CBCS_N424


title: Patient 537 CBCS_N537


title: Patient 532 CBCS_N532


title: 112887_M7_Emx_Cx_P7_mat


title: Patient 530 CBCS_N530


title: 112889_M7_Emx_Cx_P7_mat


title: 112888_M7_Emx_Cx_P7_mat


title: Patient 526 CBCS_N526


title: 112886_M7_Emx_Cx_P7_mat


title: Patient 527 CBCS_N527


title: Patient 451 CBCS_N451


title: 112884_M7_Emx_Cx_P7_mat


title: 112883_M7_Emx_Cx_P7_pat


title: Patient 525 CBCS_N525


title: 112885_M7_Emx_Cx_P7_mat


title: Patient 520 CBCS_N520


title: Patient 524 CBCS_N524


title: Patient 449 CBCS_N449


title: 112890_M7_Emx_Cx_P7_mat


title: 112891_M7_Emx_Cx_P7_mat


title: 112881_M7_Emx_Cx_P7_pat


title: 112880_M7_Emx_Cx_P7_pat


title: Patient 448 CBCS_N448


title: 112879_M7_Emx_Cx_P7_pat


title: 112882_M7_Emx_Cx_P7_pat


title: Patient 523 CBCS_N523


title: Patient 452 CBCS_N452


title: Patient 522 CBCS_N522


title: Patient 519 CBCS_N519


title: 112878_M7_Emx_Cx_P7_pat


title: 112877_M7_Emx_Cx_P7_pat


title: 112876_M7_Emx_Cx_P7_pat


title: Patient 450 CBCS_N450


title: 112875_M7_Emx_Cx_P7_mat


title: 112874_M7_Emx_Cx_P7_mat


title: 112873_M7_Emx_Cx_P7_mat


title: 112871_M7_Emx_Cx_P7_mat


title: Patient 518 CBCS_N518


title: 112872_M7_Emx_Cx_P7_mat


title: Patient 517 CBCS_N517


title: Patient 423 CBCS_N423


title: 112869_M7_Emx_Cx_P7_mat


title: 112870_M7_Emx_Cx_P7_mat


title: Patient 513 CBCS_N513


title: 112868_M7_Emx_Cx_P7_mat


title: Patient 515 CBCS_N515


title: 112867_M7_Emx_Cx_P7_pat


title: Patient 1240 CBCS_N1240


title: 112866_M7_Emx_Cx_P7_mat


title: Patient 511 CBCS_N511


title: Patient 508 CBCS_N508


title: 112865_M7_Emx_Cx_P7_pat


title: 112864_M7_Emx_Cx_P7_pat


title: 112863_M7_Emx_Cx_P7_pat


title: Patient 512 CBCS_N512


title: 112862_M7_Emx_Cx_P7_pat


title: Patient 521 CBCS_N521


title: Patient 505 CBCS_N505


title: Patient 507 CBCS_N507


title: Patient 516 CBCS_N516


title: 112861_M7_Emx_Cx_P7_pat


title: Patient 510 CBCS_N510


title: Patient 506 CBCS_N506


title: 112860_M7_Emx_Cx_P7_pat


title: Patient 509 CBCS_N509


title: 112859_M7_Emx_Cx_P7_pat


title: Patient 503 CBCS_N503


title: Patient 514 CBCS_N514


title: Patient 504 CBCS_N504


title: 112857_M7_Emx_Cx_P7_pat


title: Patient 502 CBCS_N502


title: 112856_M7_Emx_Cx_P7_mat


title: 112854_M7_Emx_Cx_P7_mat


title: 112855_M7_Emx_Cx_P7_mat


title: Patient 497 CBCS_N497


title: Patient 499 CBCS_N499


title: Patient 501 CBCS_N501


title: 112851_M7_Emx_Cx_P7_mat


title: 112853_M7_Emx_Cx_P7_mat


title: 112852_M7_Emx_Cx_P7_mat


title: Patient 498 CBCS_N498


title: Patient 495 CBCS_N495


title: 112858_M7_Emx_Cx_P7_pat


title: 112850_M7_Emx_Cx_P7_mat


title: Patient 500 CBCS_N500


title: Patient 494 CBCS_N494


title: 112849_M7_Emx_Cx_P7_pat


title: 112848_M7_Emx_Cx_P7_pat


title: 112847_M7_Emx_Cx_P7_pat


title: Patient 493 CBCS_N493


title: 112846_M7_Emx_Cx_P7_pat


title: Patient 640 CBCS_N640


title: Patient 422 CBCS_N422


title: Patient 643 CBCS_N643


title: 112844_M7_Emx_Cx_P7_pat


title: 112843_M7_Emx_Cx_P7_mat


title: Patient 642 CBCS_N642


title: 112842_M7_Emx_Cx_P7_mat


title: Patient 350 CBCS_N350


title: 112841_M7_Emx_Cx_P7_mat


title: 112840_M7_Emx_Cx_P7_mat


title: Patient 496 CBCS_N496


title: Patient 351 CBCS_N351


title: 112839_M7_Emx_Cx_P7_mat


title: Patient 638 CBCS_N638


title: 112838_M7_Emx_Cx_P7_mat


title: Patient 348 CBCS_N348


title: Patient 639 CBCS_N639


title: 112837_M7_Emx_Cx_P7_mat


title: 112845_M7_Emx_Cx_P7_pat


title: 112835_M7_Emx_Cx_P7_pat


title: 112836_M7_Emx_Cx_P7_mat


title: 112834_M7_Emx_Cx_P7_pat


title: Patient 635 CBCS_N635


title: Patient 641 CBCS_N641


title: Patient 633 CBCS_N633


title: 112831_M7_Emx_Cx_P7_pat


title: 112832_M7_Emx_Cx_P7_pat


title: Patient 636 CBCS_N636


title: 112833_M7_Emx_Cx_P7_pat


title: Patient 634 CBCS_N634


title: 112830_M7_Emx_Cx_P7_pat


title: Patient 632 CBCS_N632


title: Patient 630 CBCS_N630


title: 112828_M7_Emx_Cx_P7_pat


title: Patient 626 CBCS_N626


title: Patient 631 CBCS_N631


title: 112829_M7_Emx_Cx_P7_pat


title: Patient 628 CBCS_N628


title: Patient 637 CBCS_N637


title: 112827_M7_Emx_Cx_P7_mat


title: Patient 629 CBCS_N629


title: Patient 624 CBCS_N624


title: Patient 623 CBCS_N623


title: 112823_M7_Emx_Cx_P7_mat


title: 112824_M7_Emx_Cx_P7_mat


title: Patient 621 CBCS_N621


title: Patient 622 CBCS_N622


title: 112821_M7_Emx_Cx_P7_mat


title: 112818_M7_Emx_Cx_P7_pat


title: 112819_M7_Emx_Cx_P7_mat


title: 112817_M7_Emx_Cx_P7_pat


title: 112816_M7_Emx_Cx_P7_pat


title: 112826_M7_Emx_Cx_P7_mat


title: Patient 602 CBCS_N602


title: Patient 627 CBCS_N627


title: Patient 618 CBCS_N618


title: Patient 619 CBCS_N619


title: 112814_M7_Emx_Cx_P7_pat


title: 112815_M7_Emx_Cx_P7_pat


title: Patient 625 CBCS_N625


title: 112820_M7_Emx_Cx_P7_pat


title: 112822_M7_Emx_Cx_P7_mat


title: 112813_M7_Emx_Cx_P7_pat


title: 112825_M7_Emx_Cx_P7_mat


title: Patient 612 CBCS_N612


title: Patient 616 CBCS_N616


title: Patient 615 CBCS_N615


title: Patient 620 CBCS_N620


title: Patient 614 CBCS_N614


title: Patient 613 CBCS_N613


title: Patient 617 CBCS_N617


title: 112812_M7_Emx_Cx_P7_pat


title: Patient 611 CBCS_N611


title: Patient 610 CBCS_N610


title: 112810_M7_Emx_Cx_P0_mat


title: 112809_M7_Emx_Cx_P0_mat


title: 112808_M7_Emx_Cx_P0_mat


title: 112806_M7_Emx_Cx_P0_mat


title: Patient 608 CBCS_N608


title: Patient 606 CBCS_N606


title: 112802_M7_Emx_Cx_P0_pat


title: 112803_M7_Emx_Cx_P0_pat


title: Patient 604 CBCS_N604


title: 112805_M7_Emx_Cx_P0_mat


title: Patient 607 CBCS_N607


title: Patient 609 CBCS_N609


title: 112804_M7_Emx_Cx_P0_mat


title: Patient 600 CBCS_N600


title: 112811_M7_Emx_Cx_P0_mat


title: Patient 605 CBCS_N605


title: Patient 603 CBCS_N603


title: 112800_M7_Emx_Cx_P0_pat


title: 112801_M7_Emx_Cx_P0_pat


title: 112799_M7_Emx_Cx_P0_pat


title: 112798_M7_Emx_Cx_P0_pat


title: 112796_M7_Emx_Cx_P0_pat


title: 112797_M7_Emx_Cx_P0_pat


title: Patient 597 CBCS_N597


title: Patient 598 CBCS_N598


title: Patient 596 CBCS_N596


title: Patient 594 CBCS_N594


title: 112795_M7_Emx_Cx_P0_mat


title: 112807_M7_Emx_Cx_P0_mat


title: 112793_M7_Emx_Cx_P0_mat


title: 112792_M7_Emx_Cx_P0_mat


title: 112790_M7_Emx_Cx_P0_mat


title: 112794_M7_Emx_Cx_P0_mat


title: 112791_M7_Emx_Cx_P0_mat


title: Patient 592 CBCS_N592


title: 112786_M7_Emx_Cx_P0_pat


title: 112787_M7_Emx_Cx_P0_pat


title: 112789_M7_Emx_Cx_P0_mat


title: 112788_M7_Emx_Cx_P0_mat


title: Patient 590 CBCS_N590


title: Patient 599 CBCS_N599


title: 112785_M7_Emx_Cx_P0_pat


title: Patient 586 CBCS_N586


title: Patient 595 CBCS_N595


title: Patient 588 CBCS_N588


title: Patient 587 CBCS_N587


title: Patient 591 CBCS_N591


title: 112784_M7_Emx_Cx_P0_pat


title: Patient 601 CBCS_N601


title: Patient 593 CBCS_N593


title: Patient 581 CBCS_N581


title: Patient 582 CBCS_N582


title: Patient 585 CBCS_N585


title: Patient 580 CBCS_N580


title: 112782_M7_Emx_Cx_P0_pat


title: Patient 583 CBCS_N583


title: Patient 584 CBCS_N584


title: Patient 589 CBCS_N589


title: 112781_M7_Emx_Cx_P0_pat


title: Patient 579 CBCS_N579


title: Patient 578 CBCS_N578


title: 112779_M7_Emx_Cx_P0_mat


title: 112783_M7_Emx_Cx_P0_pat


title: 112776_M7_Emx_Cx_P0_mat


title: 112775_M7_Emx_Cx_P0_mat


title: Patient 576 CBCS_N576


title: 112774_M7_Emx_Cx_P0_mat


title: Patient 577 CBCS_N577


title: 112772_M7_Emx_Cx_P0_mat


title: Patient 492 CBCS_N492


title: Patient 491 CBCS_N491


title: 112780_M7_Emx_Cx_P0_pat


title: 112770_M7_Emx_Cx_P0_pat


title: 112771_M7_Emx_Cx_P0_pat


title: 112773_M7_Emx_Cx_P0_mat


title: 112769_M7_Emx_Cx_P0_pat


title: Patient 490 CBCS_N490


title: Patient 488 CBCS_N488


title: Patient 420 CBCS_N420


title: Patient 345 CBCS_N345

value: Weak Positive / Borderline


title: Patient 489 CBCS_N489


title: 112768_M7_Emx_Cx_P0_pat


title: 112767_M7_Emx_Cx_P0_pat


title: 112778_M7_Emx_Cx_P0_mat


title: 112766_M7_Emx_Cx_P0_pat


title: 112777_M7_Emx_Cx_P0_mat


title: Patient 342 CBCS_N342

value: Unknown


title: Patient 341 CBCS_N341


title: Patient 421 CBCS_N421


title: Patient 343 CBCS_N343


title: 112763_M7_Emx_Cx_P0_mat


title: 112762_M7_Emx_Cx_P0_pat


title: 112765_M7_Emx_Cx_P0_mat


title: Patient 344 CBCS_N344


title: 112764_M7_Emx_Cx_P0_mat


title: Patient 487 CBCS_N487


title: Patient 213 CBCS_N213


title: Patient 212 CBCS_N212


title: 112760_M7_Emx_Cx_P0_mat


title: 112756_M7_Emx_Cx_P0_mat


title: Patient 239 CBCS_N239


title: 112755_M7_Emx_Cx_P0_pat


title: 112758_M7_Emx_Cx_P0_mat


title: Patient 209 CBCS_N209


title: Patient 238 CBCS_N238


title: Patient 208 CBCS_N208


title: 112757_M7_Emx_Cx_P0_mat


title: 112754_M7_Emx_Cx_P0_pat


title: 112753_M7_Emx_Cx_P0_pat


title: Patient 207 CBCS_N207


title: Patient 210 CBCS_N210


title: Patient 204 CBCS_N204


title: 112752_M7_Emx_Cx_P0_pat


title: Patient 211 CBCS_N211


title: 112761_M7_Emx_Cx_P0_pat


title: 112759_M7_Emx_Cx_P0_mat


title: Patient 205 CBCS_N205


title: 112751_M7_Emx_Cx_P0_pat


title: Patient 240 CBCS_N240


title: 112750_M7_Emx_Cx_P0_pat


title: Patient 206 CBCS_N206


title: 112748_M7_Emx_Cx_P0_pat


title: Patient 237 CBCS_N237


title: 112749_M7_Emx_Cx_P0_pat


title: 112747_M7_Emx_Cx_P0_mat


title: 112746_M7_Emx_Cx_P0_mat


title: Patient 203 CBCS_N203


title: Patient 202 CBCS_N202


title: Patient 201 CBCS_N201


title: Patient 199 CBCS_N199


title: 112744_M7_Emx_Cx_P0_mat


title: Patient 236 CBCS_N236


title: Patient 200 CBCS_N200


title: Patient 198 CBCS_N198


title: 112741_M7_Emx_Cx_P0_mat


title: 112740_M7_Emx_Cx_P0_mat


title: 112742_M7_Emx_Cx_P0_mat


title: Patient 195 CBCS_N195


title: 112739_M7_Emx_Cx_P0_pat


title: 112738_M7_Emx_Cx_P0_pat


title: 112735_M7_Emx_Cx_P0_pat


title: 112734_M7_Emx_Cx_P0_pat


title: 112736_M7_Emx_Cx_P0_pat


title: Patient 235 CBCS_N235


title: Patient 194 CBCS_N194


title: Patient 196 CBCS_N196


title: Patient 192 CBCS_N192


title: 112745_M7_Emx_Cx_P0_mat


title: Patient 191 CBCS_N191


title: Patient 193 CBCS_N193


title: Patient 190 CBCS_N190


title: 112743_M7_Emx_Cx_P0_mat


title: 112733_M7_Emx_Cx_P0_pat


title: 112728_M7_Emx_Cx_P0_mat


title: 112731_M7_Emx_Cx_P0_pat


title: 112730_M7_Emx_Cx_P0_pat


title: 112732_M7_Emx_Cx_P0_pat


title: 112727_M7_Emx_Cx_P0_mat


title: Patient 185 CBCS_N185


title: Patient 189 CBCS_N189


title: Patient 188 CBCS_N188


title: Patient 187 CBCS_N187


title: Patient 186 CBCS_N186


title: 112726_M7_Emx_Cx_P0_mat


title: Patient 197 CBCS_N197


title: 112725_M7_Emx_Cx_P0_mat


title: 112737_M7_Emx_Cx_P0_pat


title: 112723_M7_Emx_Cx_P0_mat


title: Patient 184 CBCS_N184


title: 112721_M7_Emx_Cx_P0_pat


title: 112722_M7_Emx_Cx_P0_mat


title: 112720_M7_Emx_Cx_P0_pat


title: Patient 182 CBCS_N182


title: Patient 232 CBCS_N232


title: Patient 233 CBCS_N233


title: Patient 181 CBCS_N181


title: Patient 178 CBCS_N178


title: 112729_M7_Emx_Cx_P0_mat


title: Patient 179 CBCS_N179


title: 112718_M7_Emx_Cx_P0_pat


title: Patient 180 CBCS_N180


title: Patient 234 CBCS_N234


title: 112719_M7_Emx_Cx_P0_pat


title: 112716_M7_Emx_Cx_P0_pat


title: Patient 230 CBCS_N230


title: 112724_M7_Emx_Cx_P0_mat


title: 112703_M7_Emx_Cx_P0_mat


title: Patient 183 CBCS_N183


title: Patient 177 CBCS_N177


title: 112701_M7_Emx_Cx_P0_mat


title: Patient 229 CBCS_N229


title: Patient 231 CBCS_N231


title: 112717_M7_Emx_Cx_P0_pat


title: 112700_M7_Emx_Cx_P0_mat


title: 112702_M7_Emx_Cx_P0_mat


title: 112699_M7_Emx_Cx_P0_mat


title: 112698_M7_Emx_Cx_P0_mat


title: Patient 176 CBCS_N176


title: Patient 227 CBCS_N227


title: Patient 225 CBCS_N225


title: 112697_M7_Emx_Cx_P0_mat


title: Patient 228 CBCS_N228


title: 112696_M7_Emx_Cx_P0_mat


title: 112695_M7_Emx_Cx_P0_pat


title: Patient 224 CBCS_N224


title: Patient 226 CBCS_N226


title: 112694_M7_Emx_Cx_P0_pat


title: 112693_M7_Emx_Cx_P0_pat


title: 112691_M7_Emx_Cx_P0_pat


title: Patient 172 CBCS_N172


title: Patient 175 CBCS_N175


title: Patient 171 CBCS_N171


title: Patient 340 CBCS_N340


title: 112689_M7_Emx_Cx_P0_pat


title: 112688_M7_Emx_Cx_P0_pat


title: 112690_M7_Emx_Cx_P0_pat


title: 112686_M7_Emx_Cx_P0_mat


title: 112687_M7_Emx_Cx_P0_mat


title: Patient 336 CBCS_N336


title: Patient 173 CBCS_N173


title: Patient 335 CBCS_N335


title: 112685_M7_Emx_Cx_P0_mat


title: Patient 337 CBCS_N337


title: Patient 323 CBCS_N323


title: Patient 321 CBCS_N321


title: 112684_M7_Emx_Cx_P0_mat


title: Patient 174 CBCS_N174


title: Patient 322 CBCS_N322


title: 112682_M7_Emx_Cx_P0_mat


title: Patient 316 CBCS_N316


title: 112692_M7_Emx_Cx_P0_pat


title: Patient 320 CBCS_N320


title: 112680_M7_Emx_Cx_P0_mat


title: Patient 317 CBCS_N317


title: 112683_M7_Emx_Cx_P0_mat


title: 112679_M7_Emx_Cx_P0_pat


title: Patient 313 CBCS_N313


title: Patient 339 CBCS_N339


title: 112677_M7_Emx_Cx_P0_pat


title: 112676_M7_Emx_Cx_P0_pat


title: Patient 312 CBCS_N312


title: 112678_M7_Emx_Cx_P0_pat


title: 112675_M7_Emx_Cx_P0_pat


title: Patient 308 CBCS_N308


title: 112673_M7_Emx_Cx_P0_pat


title: 112674_M7_Emx_Cx_P0_pat


title: 112672_M7_Emx_Cx_P0_pat


title: Patient 311 CBCS_N311


title: 112671_M7_Emx_Cx_P0_mat


title: 112669_M7_Emx_Cx_P0_mat


title: Patient 310 CBCS_N310


title: 112670_M7_Emx_Cx_P0_mat


title: Patient 306 CBCS_N306


title: Patient 309 CBCS_N309


title: 112668_M7_Emx_Cx_P0_mat


title: Patient 301 CBCS_N301


title: Patient 305 CBCS_N305


title: Patient 314 CBCS_N314


title: 112666_M7_Emx_Cx_P0_mat


title: Patient 303 CBCS_N303


title: 112667_M7_Emx_Cx_P0_mat


title: 112665_M7_Emx_Cx_P0_mat


title: Patient 302 CBCS_N302


title: Patient 315 CBCS_N315


title: 112664_M7_Emx_Cx_P0_mat


title: Patient 300 CBCS_N300


title: 112662_M7_Emx_Cx_P0_pat


title: Patient 297 CBCS_N297


title: 112661_M7_Emx_Cx_P0_pat


title: 112660_M7_Emx_Cx_P0_pat


title: Patient 307 CBCS_N307


title: Patient 299 CBCS_N299


title: 112659_M7_Emx_Cx_P0_pat


title: Patient 294 CBCS_N294


title: Patient 296 CBCS_N296


title: 112658_M7_Emx_Cx_P0_pat


title: Patient 295 CBCS_N295


title: Patient 292 CBCS_N292


title: Patient 298 CBCS_N298


title: Patient 293 CBCS_N293


title: 112656_M7_Emx_Cx_P0_pat


title: 112655_M7_Emx_Cx_P0_mat


title: 112657_M7_Emx_Cx_P0_pat


title: Patient 289 CBCS_N289


title: 112663_M7_Emx_Cx_P0_pat


title: 112652_M7_Emx_Cx_P0_mat


title: Patient 291 CBCS_N291


title: Patient 290 CBCS_N290


title: 112654_M7_Emx_Cx_P0_mat


title: Patient 223 CBCS_N223


title: 112653_M7_Emx_Cx_P0_mat


title: Patient 221 CBCS_N221


title: 112650_M7_Emx_Cx_P0_mat


title: 112651_M7_Emx_Cx_P0_mat


title: 112649_M7_Emx_Cx_P0_mat


title: 112648_M7_Emx_Cx_P0_mat


title: Patient 285 CBCS_N285


title: Patient 284 CBCS_N284


title: Patient 287 CBCS_N287


title: Patient 286 CBCS_N286


title: 112647_M7_Emx_Cx_P0_pat


title: 112646_M7_Emx_Cx_P0_pat


title: 112644_M7_Emx_Cx_P0_pat


title: 112643_M7_Emx_Cx_P0_pat


title: Patient 280 CBCS_N280


title: Patient 222 CBCS_N222


title: Patient 275 CBCS_N275


title: 112642_M7_Emx_Cx_P0_pat


title: Patient 281 CBCS_N281


title: Patient 276 CBCS_N276


title: Patient 273 CBCS_N273


title: Patient 271 CBCS_N271


title: Patient 274 CBCS_N274


title: 112637_M7_Emx_Cx_P0_mat


title: 112641_M7_Emx_Cx_P0_pat


title: Patient 269 CBCS_N269


title: 112638_M7_Emx_Cx_P0_mat


title: 112640_M7_Emx_Cx_P0_pat


title: 112639_M7_Emx_Cx_P0_mat


title: 112636_M7_Emx_Cx_P0_mat


title: 112681_M7_Emx_Cx_P0_mat


title: Patient 272 CBCS_N272


title: 112634_M7_Emx_Cx_P0_mat


title: 112635_M7_Emx_Cx_P0_mat


title: 112645_M7_Emx_Cx_P0_pat


title: Patient 267 CBCS_N267


title: Patient 266 CBCS_N266


title: Patient 278 CBCS_N278


title: Patient 264 CBCS_N264


title: Patient 270 CBCS_N270


title: 112632_M7_Emx_Cx_P0_mat


title: 112633_M7_Emx_Cx_P0_mat


title: 112629_M7_Emx_Cx_P0_pat


title: 112630_M7_Emx_Cx_P0_pat


title: 112631_M7_Emx_Cx_P0_pat


title: Patient 265 CBCS_N265


title: Patient 217 CBCS_N217


title: 112628_M7_Emx_Cx_P0_pat


title: 112626_M7_Emx_Cx_P0_pat


title: Patient 268 CBCS_N268


title: 112625_M7_Emx_Cx_P0_pat


title: 112624_M7_Emx_Cx_P0_pat


title: Patient 262 CBCS_N262


title: Patient 260 CBCS_N260


title: Patient 216 CBCS_N216


title: Patient 259 CBCS_N259


title: Patient 261 CBCS_N261


title: 112620_M7_Emx_Cx_P0_mat


title: 112621_M7_Emx_Cx_P0_mat


title: 112623_M7_Emx_Cx_P0_mat


title: Patient 255 CBCS_N255


title: Patient 218 CBCS_N218


title: 112622_M7_Emx_Cx_P0_mat


title: Patient 256 CBCS_N256


title: 112619_M7_Emx_Cx_P0_mat


title: 112618_M7_Emx_Cx_P0_mat


title: Patient 258 CBCS_N258


title: 112617_M7_Emx_Cx_P0_mat


title: Patient 253 CBCS_N253


title: Patient 254 CBCS_N254


title: Patient 252 CBCS_N252


title: 112627_M7_Emx_Cx_P0_pat


title: 112616_M7_Emx_Cx_P0_mat


title: Patient 250 CBCS_N250


title: 112615_M7_Emx_Cx_P0_pat


title: Patient 257 CBCS_N257


title: Patient 251 CBCS_N251


title: 112614_M7_Emx_Cx_P0_pat


title: Patient 248 CBCS_N248


title: 112613_M7_Emx_Cx_P0_pat


title: 112610_M7_Emx_Cx_P0_pat


title: Patient 249 CBCS_N249


title: 112612_M7_Emx_Cx_P0_pat


title: 112609_M7_Emx_Cx_P0_pat


title: 112611_M7_Emx_Cx_P0_pat


title: Patient 244 CBCS_N244


title: Patient 246 CBCS_N246


title: 112608_M7_Emx_Cx_P0_pat


title: Patient 215 CBCS_N215


title: Patient 334 CBCS_N334


title: 82477: M7_Nkx_Hi_patUPD

data_processing:
Raw reads were delivered as BAM files and converted to fastq format using bamToFastq (bedtools suite v2.26.0) for alignment. Reads within transcripts were counted using STAR_2.5.0c with an index prepared from GRCm38 and Gencode M16 gene annotation. Note that for optimal representation of the long non-coding RNA Meg3 the spliced ENSMUST00000143836.7 transcript was modified to represent a single exon transcript. Parameters used for STAR alignment: --outFilterMultimapNmax 1 --clip5pNbases 12 --quantMode GeneCounts
Differential expression between all possible pairwise comparisons of UPD states in all cell types was calculated using DESeq2 v1.16.1. Results are given as supplementary file.
Genome_build: mm10/GRCm38
Supplementary_files_format_and_content: Read counts in transcripts as reported by STAR as tab delimited text
Supplementary_files_format_and_content: Excel spreadsheet with combined differential expression analysis as reported by DESeq2. One tab per cell type.

growth_protocol: All mouse colonies were maintained in accordance with protocols approved by institutional animal care and use committee, institutional ethics committee and the preclinical core facility (PCF) at IST Austria. Experiments were performed under a license approved by the Austrian Federal Ministry of Science and Research in accordance with the Austrian and EU animal laws. Mouse lines used: MADM-7-GT (JAX stock # 021457), MADM-7-TG (JAX stock # 021458), Emx1-Cre (JAX stock # 005628), Nkx2.1-Cre (JAX stock # 008661)

extract_protocol:
Samples in isolation Buffer (IB; Lexogen) were processed according to the SPLIT kit instructions (Lexogen). All other samples were incubated for 30min at 37°C. Total volume was filled to 250µl using RNase-free H2O (Thermo Fisher Scientific) followed by addition of 750µl Trizol LS (Thermo Fisher Scientific). Samples were mixed by 5 times inverting. After a 5min incubation step at RT, the entire solution was transferred into a MaXtract tube (Qiagen). 200µl chloroform (Sigma-Aldrich) was added, followed by 3 times 5sec vortexing and 2min incubation at RT. Samples were centrifuged for 2min with 12000rpm at 18°C. Supernatant was transferred to a new tube and isopropanol (Sigma-Aldrich) was added in a 1:1 ratio. For better visibility of the RNA pellet 1µl GlycoBlue (Thermo Fisher Scientific) was added and entire solution was mixed by vortexing (3x 5sec). Samples were left for precipitation o/n at -20°C. After precipitation samples were centrifuged for 20min with 14000rpm at 4°C. Supernatant was removed and RNA pellet was washed with 70% ethanol, followed by a 5min centrifugation step (14000rpm at 4°C). RNA pellet was resuspended in an appropriate amount of RNase-free H2O. RNA quality was analyzed using Bioanalyzer RNA 6000 Nano (Agilent) and RNA 6000 Pico kit (Agilent) following the manufacturer’s instructions.
SMART-Seq2 libraries were prepared from purified RNA (VBC GmbH, Vienna)

treatment_protocol: P0 animals were sacrificed and brain areas of interest (neocortex, hippocampus and olfactory bulb) were dissected. Single cell suspensions were prepared by using Papain containing L-cysteine and EDTA (vial 2, Worthington), DNase I (vial 3, Worthington), Ovomucoid protease inhibitor (vial 4, Worthington), EBSS (Thermo Fisher Scientific), DMEM/F12 (Thermo Fisher Scientific), FBS and HS. All vials from Worthington kit were reconstituted according to the manufacturer’s instructions using EBSS. The dissected brain areas were directly placed into Papain-DNase solution (20units/ml papain and 1000 units DNase). Entire litters were pooled in order to obtain sufficient material for RNA extraction. Enzymatic digestion was performed for 30min at 37°C in a shaking water bath. Next, solution 2 (EBSS containing 0.67mg Ovomucoid protease inhibitor and 166.7 U/ml DNase I) was added, the whole suspension was thoroughly mixed and centrifuged for 5min at 1000rpm at RT. Supernatant was removed and cell pellet was resuspended in solution 2. Trituration with p1000 pipette was performed to mechanically dissolve any remaining tissue parts. DMEM/F12 was added to the cell suspension as a washing solution, followed by a centrifugation step of 5min with 1500rpm at RT. Cells were resuspended in media (DMEM/F12 containing 10% FBS and 10% HS) and kept on ice until sorted. Right before sorting, cell suspension was filtered using a 40µm cell strainer. FACS was performed on a BD FACS Aria III using 100 nozzle and keeping sample and collection devices at 4°C. Duplet exclusion was performed to ensure sorting of true single cells. GFP+ (green), tdTomato+ (red), and GFP+/tdTomato+ (yellow) cells were collected. Cells were sorted directly into either Isolation Buffer (IB; Lexogen) if more than 2000 sorted cells/per color were expected or if samples yielded fewer labeled cells into custom made lysis buffer (30nM TRIS pH 8, 10nM EDTA pH 8, 1% SDS and 200 µg/µL Proteinase K).

value: Nkx2.1 lineage

value: Hippocampus

tag: color

value: red


title: Patient 333 CBCS_N333


title: Patient 331 CBCS_N331


title: 82478: M7_Nkx_Hi_matUPD

value: green


title: Patient 263 CBCS_N263


title: 82476: M7_Nkx_Hi_matUPD


title: 82475: M7_Nkx_Hi_patUPD


title: 82474: M7_Nkx_Hi_wt

value: yellow

value: wt


title: Patient 332 CBCS_N332

value: primary breast tumor


title: 82473: M7_Nkx_Hi_matUPD


title: Patient 330 CBCS_N330

value: Positive


title: 82471: M7_Nkx_Hi_wt


title: 82472: M7_Nkx_Hi_patUPD


title: Patient 329 CBCS_N329


title: 82470: M7_Nkx_Hi_patUPD


title: Patient 247 CBCS_N247


title: Patient 245 CBCS_N245


title: Patient 327 CBCS_N327


title: 82469: M7_Nkx_Hi_matUPD


title: Patient 326 CBCS_N326


title: 82466: M7_Nkx_Cx_matUPD

value: Neocortex


title: 82467: M7_Nkx_Cx_patUPD


title: 82468: M7_Nkx_Cx_wt


title: 82465: M7_Nkx_Cx_wt


title: Patient 325 CBCS_N325


title: 82464: M7_Nkx_Cx_matUPD


title: Patient 324 CBCS_N324


title: 82463: M7_Nkx_Cx_patUPD


title: Patient 214 CBCS_N214

value: LumB


title: Patient 170 CBCS_N170


title: 82461: M7_Nkx_Cx_patUPD


title: 82460: M7_Emx_Hi_wt

value: Emx1 lineage


title: Patient 241 CBCS_N241

value: Normal


title: Patient 242 CBCS_N242


title: Patient 82 CBCS_N82


title: 82459: M7_Emx_Hi_patUPD

value: pat


title: Patient 80 CBCS_N80


title: Patient 243 CBCS_N243

value: LumA


title: Patient 81 CBCS_N81

value: Negative

value: Basal


title: Patient 328 CBCS_N328


title: 82458: M7_Emx_Hi_matUPD

value: mat


title: 82457: M7_Emx_Hi_patUPD


title: BC_64487

value: Cast

value: male


title: Patient 77 CBCS_N77


title: Patient 100 CBCS_N100


title: BC_64486


title: BC_64485


title: BC_64484


title: 82462: M7_Nkx_Cx_matUPD

value: Nkx2.1 lineage


title: Patient 101 CBCS_N101


title: Patient 103 CBCS_N103


title: Patient 76 CBCS_N76


title: Patient 74 CBCS_N74


title: Patient 73 CBCS_N73


title: BC_64481


title: Patient 99 CBCS_N99


title: BC_64482


title: Patient 75 CBCS_N75


title: BC_64477


title: BC_64480


title: BC_64483


title: BC_64476


title: Patient 72 CBCS_N72


title: Patient 79 CBCS_N79


title: Patient 71 CBCS_N71


title: BC_64478


title: Patient 70 CBCS_N70


title: Patient 68 CBCS_N68


title: Patient 97 CBCS_N97


title: Patient 69 CBCS_N69


title: BC_64475


title: BC_64474


title: Patient 67 CBCS_N67


title: Patient 66 CBCS_N66


title: BC_64473


title: BC_64472


title: BC_64471


title: Patient 65 CBCS_N65


title: BC_64479


title: Patient 64 CBCS_N64


title: BC_64469


title: BC_64470


title: Patient 62 CBCS_N62


title: Patient 60 CBCS_N60


title: Patient 63 CBCS_N63


title: BC_64468


title: BC_64463


title: Patient 57 CBCS_N57


title: BC_64467


title: BC_64464


title: Patient 61 CBCS_N61


title: Patient 58 CBCS_N58


title: BC_64465


title: BC_64461


title: Patient 56 CBCS_N56


title: BC_64462


title: Patient 96 CBCS_N96


title: BC_64466


title: Patient 59 CBCS_N59


title: Patient 93 CBCS_N93


title: Patient 95 CBCS_N95


title: Patient 92 CBCS_N92


title: Patient 55 CBCS_N55


title: BC_64459


title: BC_64458


title: BC_64456


title: Patient 54 CBCS_N54


title: Patient 53 CBCS_N53


title: BC_64455


title: BC_64454


title: BC_64453


title: BC_64418

value: female


title: BC_64460


title: BC_64417


title: BC_64415


title: BC_64413


title: Patient 161 CBCS_N161


title: Patient 94 CBCS_N94


title: Patient 162 CBCS_N162


title: Patient 163 CBCS_N163


title: Patient 168 CBCS_N168


title: Patient 160 CBCS_N160


title: BC_64414


title: Patient 51 CBCS_N51


title: BC_64457


title: Patient 159 CBCS_N159


title: BC_64412


title: BC_64411


title: Patient 158 CBCS_N158


title: BC_64410


title: Patient 156 CBCS_N156


title: Patient 155 CBCS_N155


title: BC_64416


title: BC_64409


title: Patient 169 CBCS_N169


title: BC_64407


title: Patient 152 CBCS_N152


title: Patient 154 CBCS_N154


title: BC_64406


title: Patient 153 CBCS_N153


title: Patient 157 CBCS_N157


title: Patient 151 CBCS_N151


title: BC_64402


title: BC_64404


title: BC_64403


title: Patient 150 CBCS_N150


title: BC_64400


title: BC_64405


title: Patient 90 CBCS_N90


title: Patient 148 CBCS_N148


title: Patient 147 CBCS_N147


title: BC_64399


title: BC_64398


title: Patient 91 CBCS_N91


title: Patient 149 CBCS_N149


title: BC_64408


title: Patient 146 CBCS_N146


title: BC_64396


title: BC_64397


title: BC_64394


title: BC_64395


title: Patient 143 CBCS_N143


title: BC_64393


title: BC_64401


title: Patient 89 CBCS_N89


title: Patient 142 CBCS_N142


title: BC_64392


title: Patient 140 CBCS_N140


title: BC_64391


title: Patient 138 CBCS_N138


title: Patient 141 CBCS_N141


title: Patient 139 CBCS_N139


title: Patient 137 CBCS_N137


title: BC_64390


title: Patient 136 CBCS_N136


title: Patient 144 CBCS_N144


title: BC_64387


title: Patient 132 CBCS_N132


title: BC_64385


title: BC_64388


title: BC_64384


title: BC_64386


title: BC_64389


title: Patient 145 CBCS_N145


title: Patient 134 CBCS_N134


title: Patient 133 CBCS_N133


title: BC_64381


title: Patient 129 CBCS_N129


title: BC_64382


title: BC_64380


title: BC_64379


title: Patient 127 CBCS_N127


title: BC_64378


title: Patient 130 CBCS_N130


title: Patient 135 CBCS_N135


title: BC_64377


title: BC_64383


title: BC_64376


title: BC_64375


title: Patient 126 CBCS_N126


title: Patient 125 CBCS_N125


title: Patient 131 CBCS_N131


title: BC_64374


title: Patient 123 CBCS_N123


title: G1#1462 Tum2 3

city: Stockholm

first: Margareta

last: Wilhelm

address: Nobels väg 16

department: Microbiology, Tumor and Cell biology (MTC)

country: Sweden

institute: Karolinska Institutet

description:
Isolated tumor cells from primary G1 tumors transplanted into cerebellum of NSG mice. Sample name: G1 luc#14 mouse 62 p4
ip_275_06_FPKM

data_processing:
All RNA sequence reads were mapped against the human genome assembly GRCh37/hg19 using STAR v2.4.0 in a two step aproach previously described by Veeneman, B.A., et al. in Bioinformatics, 2016
Unmapped reads were realigned using Bowtie2 v2.2 and default parameters
Duplicate reads were removed with Piccard v1.127 and default parameters
The transcriptome were assembled and the expression profile quantified with Cufflinks v2.2.1 and default parameters
Comparison of transcriptomes and their expression levels where performed using Cuffcompare and Cuffdiff
Genome_build: hg19
Supplementary_files_format_and_content: A tab-delimited text file with FPKM values for each sample

source_name: Reisolated tumor cells

growth_protocol: Cells were grown on poly-L-ornithine and laminin-coated T25 flask at density of 1x106 cells/flask in DMEM/F12+GlutaMax media (ThermoFisher cat:3133-028) containing 1xN2 (ThermoFisher cat: 17504-044), 0.1% B27 supplement (ThermoFisher cat:17502-048), 10ng/ml FGF2 (LifeTechnologies cat:PHG0023), 10ng/ml EGF(PeproTech cat: AF100-15)

extract_protocol:
Media was removed from the cells and RNA was purified using RNeasy Mini Kit according to the manufacturer's instruction.
RNA-Seq were prepared for sequencing using standard Ion-Torrent protocols.

value: Reisolated tumor cells


title: BC_64373


title: G1#1440 Tum2 2

description:
Isolated tumor cells from primary G1 tumors transplanted into cerebellum of NSG mice. Sample name: G1 luc#14 mouse 40 p4
ip_275_05_FPKM


title: G1#1439 Tum2 1

description:
Isolated tumor cells from primary G1 tumors transplanted into cerebellum of NSG mice. Sample name: G1 luc#14 mouse 39 p3
ip_275_04_FPKM


title: Patient 124 CBCS_N124


title: BC_64372


title: G1#14p6 Tum1 5

description:
Isolated tumor cells from Gorlin iPS NES cells orthotopically transplanted into the cerebellum of NSG mice. Sample name: G1 luc#14 p6
ip_275_02_FPKM

source_name: Isolated tumor cells

value: Isolated tumor cells


title: Patient 122 CBCS_N122

value: primary breast tumor


title: G1#14p15 Tum1 6

description:
Isolated tumor cells from Gorlin iPS NES cells orthotopically transplanted into the cerebellum of NSG mice. Sample name: G1 luc#14 p15
ip_275_03_FPKM


title: Patient 118 CBCS_N118


title: BC_64371


title: G1#14p5 Tum1 4

description:
Isolated tumor cells from Gorlin iPS NES cells orthotopically transplanted into the cerebellum of NSG mice. Sample name: G1 luc#14
ip_275_01_FPKM


title: G1#14 Tum1 2

description:
Isolated tumor cells from Gorlin iPS NES cells orthotopically transplanted into the cerebellum of NSG mice. Sample name: G1 luc#14 p5
up_217_08_FPKM


title: Patient 128 CBCS_N128


title: BC_64370


title: G1#15 Tum1 3

description:
Isolated tumor cells from Gorlin iPS NES cells orthotopically transplanted into the cerebellum of NSG mice. Sample name: G1 luc#15 p4
up_217_09_FPKM


title: Patient 119 CBCS_N119


title: G1#8 Tum1 1

description:
Isolated tumor cells from Gorlin iPS NES cells orthotopically transplanted into the cerebellum of NSG mice. Sample name: G1 luc#8 p5
up_217_07_FPKM


title: G1 NES 3

description:
iPS NES cells derived from keratinocytes from Gorlin patient 1. Sample name: G1 luc p48-2
up_217_06_FPKM

source_name: iPS NES cells

value: iPS NES cells


title: BC_64369

value: Neocortex


title: Patient 120 CBCS_N120

value: LumB


title: Patient 121 CBCS_N121


title: Ctrl NES 1

description:
iPS NES cells derived from keratinocytes from healthy patient. Sample name: Ctrl 1 luc p41
up_217_01_FPKM


title: G1 NES 2

description:
iPS NES cells derived from keratinocytes from Gorlin patient 1. Sample name: G1 luc p54
up_217_05_FPKM


title: Ctrl NES 2

description:
iPS NES cells derived from keratinocytes from healthy patient. Sample name: Ctrl 1 luc p43
up_217_02_FPKM


title: BC_64366

value: Emx1 lineage


title: BC_64368


title: BC_64367


title: 231M4_Mock

city: Minato-ku

first: Kei

last: Sato

state: Tokyo

address: 4-6-1 Shiroganedai

department: Department of Microbiology and Immunology

country: Japan

institute: The Institute of Medical Science, The University of Tokyo

data_processing:
Basecalls performed by Illumina MiSeq
Sequenced reads were trimmed for adaptor sequence, and were sorted by indexes in Illumina MiSeq
Reads were aligned to the hg38 genome assebly using TopHat2
Mapped reads seperated by genes, and the reads mapped for each gene were clusterd by molecular barcode
The number of cluteres for each was counted, which provides the number of molecules detected for each gene
Genome_build: hg38
Supplementary_files_format_and_content: The spike-in normalized copy number of RNA moelcules per tube for each gene is listed. Data from technical replicates has been merged.

source_name: Splenic human CD4-positive T cells

growth_protocol: HIV1-GFP was intraperitoneally inoculated into 6 humanized mice.

extract_protocol:
RNAs from cell lysate obtained by heat elevation is directly used for the next RT reaction
Libraries were prepared by using molecular barcoding technique. First, for normalization, the same amount of spike-in RNAs, a known number of External RNA Controls Consortium (ERCC) RNA molecules, was added into every tube which contains 100 cells. Then, the cells were lysed and RNA molecules were fragmentated by temperature elevation. cDNAs were generated by reverse transcription using a reverse transcription primer, in which the first common primer sequence, molecular barcode, fourteen T bases, and one V (A or G or C) base are tandemly arranged from 5' end. In the reverse transcription, the second common primer sequence was also attached to 3' end of each generated cDNA molecule by template switching. Subsequently, cDNAs were amplified by PCR using two primers; one primer contains an illumina adapter sequence, sample index, and the first common primer sequence, and the other primer has another illumina adapter sequence, sample index, and the second common primer sequence.

treatment_protocol: At 2 weeks post-infection, splenic human leukocytes were obtained from 6 infected mice and 7 mock-infected mice. Then, GFP-positive cells and GFP-negative CD4-positive T cells of infected mice and CD4-positive T cells of mock-infected mice were sorted.

tag: mouse type

value: Mock-infected humanized mouse

tag: time point

value: 2 weeks post-infection

tag: mouse id

tag: sample in processed data

value: Mock


title: 231F5_Mock

tag: cell type


title: Patient 86 CBCS_N86

tag: tissue

value: Negative

value: Normal


title: Patient 117 CBCS_N117


title: 232F2_Mock


title: Patient 85 CBCS_N85

value: Basal


title: 225F4_Mock


title: Patient 87 CBCS_N87

value: LumA


title: 278M4_GFPn

value: HIV1-GFP infected humanized mouse

value: GFP-


title: 280M1_GFPp

value: GFP+


title: 280M1_GFPn


title: BC_64364

tag: mother strain

tag: father strain

value: Cast

value: female


title: Patient 115 CBCS_N115

value: primary breast tumor


title: Patient 114 CBCS_N114


title: G1 NES 1

description:
iPS NES cells derived from keratinocytes from Gorlin patient 1. Sample name: G1 luc p48
up_217_04_FPKM

value: iPS NES cells


title: Patient 116 CBCS_N116


title: 278M4_GFPp


title: Ctrl NES 3

description:
iPS NES cells derived from keratinocytes from healthy patient. Sample name: Ctrl 1 luc p45
up_217_03_FPKM


title: BC_64362

value: Neocortex

tag: age

tag: Sex


title: 278F1_GFPp


title: 278F1_GFPn


title: Patient 113 CBCS_N113

tag: study phase

tag: estrogen receptor status


title: 271F1_Mock_3

description: rep1-3: independent library preparations;


title: 271F1_Mock_2


title: BC_64365


title: 271F1_Mock_1


title: BC_64361


title: 268F3_Mock_3


title: 268F3_Mock_1


title: 268F3_Mock_2


title: Patient 112 CBCS_N112

tag: pam50 molecular subtype


title: BC_64363


title: BC_64359


title: BC_64357


title: BC_64358


title: 266F5_Mock_2


title: Patient 111 CBCS_N111


title: Patient 110 CBCS_N110


title: Patient 109 CBCS_N109


title: BC_64356


title: 268F2_GFPp_1


title: 268F2_GFPp_3


title: 268F2_GFPp_2


title: BC_64360


title: 268F2_GFPn_2


title: 268F2_GFPn_1


title: 268F1_GFPp_3


title: BC_64355


title: 268F2_GFPn_3


title: 266F5_Mock_3


title: Patient 107 CBCS_N107


title: 268F1_GFPn_3


title: 268F1_GFPp_1


title: 266F5_Mock_1


title: Patient 167 CBCS_N167


title: BC_64354


title: BC_64352


title: BC_64353


title: Patient 52 CBCS_N52


title: 268F1_GFPp_2


title: Patient 106 CBCS_N106


title: 267F2_GFPp_3


title: BC_64351


title: 268F1_GFPn_1


title: 268F1_GFPn_2


title: Patient 164 CBCS_N164


title: 267F2_GFPp_2


title: Patient 108 CBCS_N108


title: 267F2_GFPn_3


title: 267F2_GFPp_1


title: BC_64350


title: BC_64349


title: Patient 166 CBCS_N166


title: 267F2_GFPn_2


title: Patient 165 CBCS_N165


title: 267F2_GFPn_1


title: BC_64348


title: Patient 83 CBCS_N83


title: BC_64347


title: Patient 105 CBCS_N105


title: BC_64346


title: BC_64345


title: Patient 104 CBCS_N104


title: BC_64344


title: Patient 1239 CBCS_N1239

value: Positive


title: Patient 1238 CBCS_N1238


title: BC_64342

value: Emx1 lineage


title: BC_64343


title: Patient 1237 CBCS_N1237


title: Patient 1236 CBCS_N1236


title: Patient 1235 CBCS_N1235


title: BC_64340


title: Patient 1234 CBCS_N1234

value: Weak Positive / Borderline


title: BC_64339


title: Patient 1233 CBCS_N1233


title: BC_64341


title: Patient 1232 CBCS_N1232


title: PVCre_ST_rep 4

city: Seville

first: Xavier

last: d'Anglemont de Tassigny

address: Hospital Universitario Virgen del Rocio. Calle Antonio Maura Montaner

department: Cell Neurobiology and Biophysics

country: Spain

institute: Instituto de Biomedicina de Sevilla (IBiS)

hyb_protocol: 5.2 µg of cRNA was hybridized for 16 hr at 45ºC on GeneChip Mouse Transcriptome 1.0 Array (Affymetrix). GeneChips were washed and stained in the GeneChip Fluidics Station 450 (Affymetrix).

scan_protocol: GeneChips were scanned using GeneChip Scanner 3000 (Affymetrix) following protocols outlined in the user manual for cartridge arrays.

data_processing: Data were processed for gene-level background subtraction, normalization and signal summarization (SST-RMA) using Affymetrix Expression Console.

label: biotin

source_name: Brain striatum, parvalbumin neuron, PV-Cre

label_protocol: Amplification was performed with 5 ng of total RNA input following procedures described in the WT PLUS Reagent Kit user manual (Affymetrix). 5.5 μg of single-stranded cDNA product was fragmented and labeled following protocols outlined in the user manual.

growth_protocol: not applicable

extract_protocol: Total RNA was isolated using Trizol method (Life Technologies) according to the manufacturer's instructions.

tag: strain

tag: gender

value: male

value: 30 days

value: Dorsal striatum

tag: genotype

value: PVCre/+; tdTomato/+


title: Trachea - E11.5 Foxg1Cre;Gli3TFlag/+_rep4

city: Cincinnati

first: Aaron

last: Zorn

state: OH

address: 240 Albert Sabin Way, Bld S

department: Developmental Biology

institute: Cincinnati Children's Hospital and Medical Center

description: Trachea-E11.5_Gli3TFlag_RawCounts.xlsx; Trachea-E11.5_Gli3TFlag_TPM.xlsx

data_processing:
Raw reads in fastq format were mapped and quantified using RSEM (v1.3.0) using Computational Suite for Bioinformaticians and Biologists (CSBB v3.0)
Reads were mapped to mm10 version of mouse genome
Raw counts and TPM(Transcripts per million) per gene across samples were reported
Genome_build: mm10 (mus musculus)
Supplementary_files_format_and_content: raw counts and TPM files in .xls format

source_name: Embryonic trachea

extract_protocol:
RNA was extracted using a Qiagen RNeasy Micro Kit (Qiagen #74004).
Following amplification using the Tecan Ovation RNA-seq system v2, library construction was performed using the Illumina Nextera XT DNA Library Preparation Kit. Sequencing was performed at a depth of  15-20 million reads for E10.5 data, 10-15 million reads for E11.5 data, using a single read of 75 bp for both.

tag: developmental stage


title: Trachea - E11.5 Foxg1Cre;Gli3TFlag/+_rep3


title: PVwt_ST_rep 4

source_name: Brain striatum, parvalbumin neuron, no Cre

value: PV-tdTomato/+


title: Trachea - E11.5 Gli3TFlag/+_rep3

value: Control


title: Trachea - E11.5 Foxg1Cre;Gli3TFlag/+_rep1


title: PVCre_ST_rep 3


title: PVwt_CTX_rep 3

source_name: Brain cortex, parvalbumin neuron, no Cre

value: Motor + somatosensory cortex


title: PVCre_CTX_rep 3

source_name: Brain cortex, parvalbumin neuron, PV-Cre


title: PVCre_CTX_rep 1


title: Patient 1231 CBCS_N1231

value: Unknown


title: PVCre_ST_rep 1


title: Trachea - E11.5 Gli3TFlag/+_rep2


title: PVCre_CTX_rep 2


title: PVwt_CTX_rep 1


title: PVwt_ST_rep 3


title: PVCre_CTX_rep 4


title: BC_64338


title: Trachea - E11.5 Gli3TFlag/+_rep1


title: BC_64337


title: PVwt_CTX_rep 2


title: Foregut - E10.5 Foxg1Cre;Gli3TFlag/+_rep3

description: Foregut-E10.5_Gli3TFlag_RawCounts.xlsx; Foregut-E10.5_Gli3TFlag_TPM.xlsx

source_name: Embryonic foregut


title: PVwt_CTX_rep 4


title: PVwt_ST_rep 2


title: PVwt_ST_rep 1


title: BC_64336


title: Foregut - E10.5 Foxg1Cre;Gli3TFlag/+_rep1


title: PVCre_ST_rep 2


title: Trachea - E11.5 Foxg1Cre;Gli3TFlag/+_rep2


title: BC_64335


title: Foregut - E10.5 Gli3TFlag/+_rep3


title: Foregut - E10.5 Gli3TFlag/+_rep2


title: Patient 1229 CBCS_N1229

value: Normal


title: BC_64334

value: Cast


title: Patient 1228 CBCS_N1228

value: LumB


title: BC_64332

value: female


title: BC_64333


title: PCM1 KO hippocampus rep2

city: Chicago

first: Tanner

middle: Oliver

last: Monroe

state: IL

address: 303 E. Superior Street

institute: Lurie Children's Hospital

data_processing:
RNA-seq data were processed using the TrimGalore toolkit (www.bioinformatics.babraham.ac.uk/projects/trim_galore), which employs Cutadapt to trim low quality bases and Illumina sequencing adapters from the 3’end of the reads. Only reads that were 20 nt or longer were subjected to further analysis.
Reads were mapped to the GrCm38r73 version of the mouse genome and transcriptome using the STAR RNA-seq alignment tool. Reads were kept for subsequent analysis if they mapped to a single genomic location.
Gene counts were compiled using the HTSeq tool. Only genes that had at least 10 reads in any given library were used in subsequent analysis.
Genome_build: GrCm38r73
Supplementary_files_format_and_content: *_count.txt: Read count files are provided with the first column being the mapped gene and the second being the count data in tab-delimited text files.

source_name: hippocampus

extract_protocol:
Tissue from various brain regions of Pcm1-/- and littermate WT mice was dissected and snap-frozen on the same day. Using the RNeasy mini kit (Qiagen), RNA was isolated and both quantity and quality were determined using the Agilent RNA ScreenTape assay and TapeStation.
RNA sequencing libraries were prepared using KAPA stranded mRNA-seq kits.

tag: strain/background

value: C57 Bl6J

tag: genotype/variation

value: PCM1 KO

value: Adult

value: Hippocampus


title: PCM1 KO hippocampus rep3


title: Patient 1230 CBCS_N1230

value: primary breast tumor

value: Positive


title: Foregut - E10.5 Foxg1Cre;Gli3TFlag/+_rep2


title: BC_64331

value: Emx1 lineage

value: Neocortex


title: WT hippocampus rep1

value: WT


title: PCM1 KO hippocampus rep1


title: WT hippocampus rep2


title: PCM1 KO frontal cortex rep3

source_name: frontal cortex

value: Frontal cortex


title: Foregut - E10.5 Gli3TFlag/+_rep1

value: Control


title: Patient 1224 CBCS_N1224


title: Patient 1223 CBCS_N1223

value: LumA


title: BC_64330


title: PCM1 KO frontal cortex rep1


title: BC_64327


title: BC_64329


title: Patient 1222 CBCS_N1222

value: Negative


title: PCM1 KO striatum rep3

source_name: striatum

value: Striatum


title: WT frontal cortex rep 1


title: WT frontal cortex rep 2


title: Patient 1221 CBCS_N1221

value: Basal


title: WT hippocampus rep3


title: Patient 1227 CBCS_N1227

value: Normal


title: Patient 1225 CBCS_N1225


title: BC_64326

value: Cast

value: female


title: PCM1 KO striatum rep2

value: C57 Bl6J

value: PCM1 KO


title: WT striatum rep3

value: Adult


title: Patient 1220 CBCS_N1220

value: primary breast tumor


title: Patient 1226 CBCS_N1226

value: Positive

value: LumB


title: TC2, HCMV infected Pool2

city: Jerusalem

first: Dana

last: Wolf

address: Ein Kerem

department: Dept. of clinical Microbiology & Infectious Diseases

country: Israel

institute: Hadassah University Hospital

data_processing:
Raw reads were quality-trimmed at both ends with a quality threshold of 32, then adapters were trimmed from the 3' end with Trim Galore!, version 0.3.7, keeping reads of length above 15.
Trimmed reads were filtered by overall quality with fastq_quality_filter, using parameters -q 20 and -p 90 (FASTX package, version 0.0.14).
Processed reads were aligned to the human genome, version GRCh38, combined with the HCMV genome (accession NC_006273 from NCBI). Alignment was done with TopHat, version 2.0.13, using parameters -G genes.gtf, -N 3, --read-gap-length 5, --read-edit-dist 8, --segment-length 20 and --read-realign-edit-dist 4.
Raw counts were obtained with cuffquant and cuffnorm of the Cufflinks package, version 2.2.1, using parameters -b (bias correction) and -u (using multi-mapped), and masking short non-coding genes, such as miRNAs (with -M parameter).
Genes with less then 6 reads were discarded, then normalization and differential expression were calculated with the R package DESeq2, version 1.12.4, using a design that included both the pool and the treatment. Default parameters were used, except not using the independent filtering algorithm.
In addition to significant genes (padj<0.1), we defined other genes of interest (termed "best") as ones that had a baseMean > 10, a |lfcMLE| > 5/baseMean^0.5 + 0.7, and either up-regulated in both pools or down-regulated in both pools.
Genome_build: GRCh38 with NC_006273
Supplementary_files_format_and_content: An Excel file. First 2 rows are header rows, then a row for each gene. Columns include general gene details (A to J), raw counts in each sample (K to N), normalized counts in each sample (O to R), results from the DESeq2 analysis (S to Y), classification according to significance and "best" (Z, "TRUE" means significant; "THR" means non-significant but passes interest threshold; "FALSE" for all the rest) and two binary decision columns for significance and significance+interest (AA to AB).

source_name: Nasal turbinate tissue

growth_protocol: The tissues were incubated in enriched RPMI medium with 10% fetal bovine serum, 2.5 μg glucose/ml, 2 mM glutamine, 100 IU/ml penicillin, 100 μg/ml streptomycin (Biological Industries, Beit Haemek, Israel), and 0.25 μg/ml amphotericin B at 37°C , 5% CO2.

extract_protocol:
Tissues were washed extensively, frozen and RNA was purified using M&N Nucleospin RNA purification kit according to the protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols for the TruSeq library preparation kit.

treatment_protocol: Tissues were placed in 48-well plates (~5 slices/well to maintain optimal viability) and were inoculated with the virus (5x104 PFU/well) for 12 h to allow effective viral adsorption. Following viral adsorption, the cultures were extensively washed. RNA was extracted 24h post infection.

tag: pool number

tag: infection

value: HCMV infected

tag: time point

value: 24 hours post infection

value: Nasal turbinate tissue


title: BC_64328

tag: cell type

value: Emx1 lineage

tag: tissue

value: Neocortex


title: Patient 49 CBCS_N49

value: Unknown

value: LumA


title: ppsA-E deletion

city: Ann Arbor

first: Taylor

last: Nye

address: 1105 N University Ave

department: MCDB

institute: University of Michigan

library_source: genomic

data_processing:
Library strategy: DNA-seq
Read alignment performed using bowtie2 (v 2.3.5.1)
Sorting and filtering for QV > 30 with samtools (v 1.10)
Removal of PCR duplicates performed using Picard tools (2.23.0)
Genome_build: CP020102.1
Supplementary_files_format_and_content: Genome coverage at each position was calculated using genomeCoverageBed from bedtools (v2.29.1). The coverage at each position for each replicate is indicated as well as the average coverage at each position in the .csv file for the B. subtilis chromosome.

molecule: genomic DNA

organism: Bacillus subtilis subsp. subtilis NCIB 3610 = ATCC 6051 = DSM 10

source_name: cells

extract_protocol:
MasterPure Gram Positive DNA Purification Kit
UM Advanced Genomics Core

value: ppsA-E deletion


title: WT striatum rep1

value: WT

value: Striatum


title: rnhP, rnhC, ppsA-E deletion

value: rnhP, rnhC, ppsA-E deletion


title: TC1, HCMV infected Pool1


title: Patient 50 CBCS_N50

value: Weak Positive / Borderline

value: Basal


title: rnhP, rnhC deletion

value: rnhP, rnhC deletion


title: Patient 48 CBCS_N48

value: primary breast tumor


title: TM1, Mock infected Pool1

value: Uninfected


title: Adult_3d_F_1st_scRNAseq

city: Kansas City

first: Mehmet Neset

last: Ozel

state: MO

institute: Stowers Institute for Medical Research

data_processing:
Fastq files were generated either with Illumina "bcl2fastq" (2.18) or CellRanger (2.1.1) "mkfastq".
Alignment and counting were performed with CellRanger (2.1.1 or 3.0.1) "count".
Normalization, scaling, dimensional reduction and clustering of the single-cell transcriptomes were performed using Seurat v3 (detailed in Methods).
Pupal single-cell transcriptomes were classified with a custom neural network (detailed in Methods).
Average gene expression levels and cluster markers were calculated for each cell type at each stage using Seurat v3.
Binarized expression values for each cell type were determined using mixture modeling (Davis et al., 2018)
Genome_build: ENSEMBL-release-88-BDGP6
Supplementary_files_format_and_content: Seurat objects (.rds format) provided for each stage include raw, normalized and scaled expression values for each cell in addition to the identities determined using different methods, as detailed in the paper. Excel files are provided for average and binarized expression levels and also for the cluster markers, where each stage is in a separate type.

molecule: polyA RNA

organism: Drosophila melanogaster

source_name: adult optic lobe

growth_protocol: Standard Drosophila rearing protocols.

extract_protocol:
Chromium™ Single Cell 3’ Reagent Kit v2 (10X Genomics)
Chromium™ Single Cell 3’ Reagent Kit v2 (10X Genomics)

treatment_protocol: No treatments.

value: Canton S

value: female

value: 1-3 days old

value: adult optic lobe


title: PCM1 KO frontal cortex rep2

value: C57 Bl6J

value: PCM1 KO

value: Adult

value: Frontal cortex


title: TM2, Mock infected Pool2

value: 24 hours post infection

value: Nasal turbinate tissue


title: P50-1_scRNAseq

source_name: P50 optic lobe

value: P50 optic lobe


title: Adult_1d_N_2_scRNAseq

value: pooled male and female


title: Adult_3d_S_scRNAseq


title: WT frontal cortex rep 3

value: WT


title: Patient 46 CBCS_N46

source_name: primary breast tumor

value: Unknown

value: Basal


title: PCM1 KO striatum rep1

value: Striatum


title: Adult_1d_N_1_scRNAseq


title: Adult_1d_F_3rd_scRNAseq


title: WT striatum rep2


title: wild type, wt

value: wild type


title: Patient 24 CBCS_N24

value: primary breast tumor

value: Positive

value: LumA


title: Patient 47 CBCS_N47


title: Patient 42 CBCS_N42


title: Patient 43 CBCS_N43

value: LumB


title: Patient 44 CBCS_N44


title: Patient 45 CBCS_N45


title: Patient 41 CBCS_N41


title: Patient 23 CBCS_N23


title: Pcan17_API4

city: Göttingen

first: Victor

last: Chano

address: Buesgenweg 2

department: Forest Genetics and Forest Tree Breeding

country: Germany

institute: University of Göttingen

hyb_protocol: 600 ng of Cy3 probes were mixed and hybridized to a 60K custom microarray (Agilent Technologies) for 17 hours at 65ºC in Gex Hybridization Buffer HI-RPM in a hybridization oven. Arrays were washed according to the manufacturer’s instructions, dried by centrifugation.

scan_protocol: Arrays were scanned at 3 mm resolution on Agilent DNA Microarrays Scanner (G2565BA, Agilent Technologies) and the images were analyzed with Feature Extraction software (Agilent Technologies).

data_processing: For local background correction and normalization, the methods normexp and loess in LIMMA were used, respectively (Smyth and Speed 2003).

organism: Pinus canariensis

source_name: Shoot apical meristem

label_protocol: 200 ng of total RNA was reversely transcribed using T7 promotor primer and the cDNA was converted to aRNA using T7 RNA polimerase, which simultaneously amplifies target material and incorporates cyanine 3-labeled CTP

growth_protocol: Pines were grown in greenhouse, using 650 ml conical containers with 3:1 (v/v) peat:vermiculite. After the first year, trees were transferred to soil in experimental garden at UPM facilities, and grown under environmental conditions. At the moment of the beginning of this experiment, trees were 5 years old, approximately 2 m high and 7-10 cm diameter at the base.

extract_protocol: Total RNA was isolated from differentiating xylem samples stored at -80ºC, using the CTAB-LiCl precipitation method (Chang et al. 1993), and purified with the RNeasy Plant Mini Kit (Qiagen, CA, USA). Quantity of total RNA for each sample was measured with Nanodrop model ND-1000 (Thermo Scientific, MA, USA), and RNA quality was checked using the Experion Bioanalyzer (Bio-Rad, CA, USA).

value: Apical shoot in transition from primary to secondary growth

value: 62 months and 2 weeks


title: Pcan17_API5

value: 65 months


title: Pcan17_API2

value: 60 months and 2 weeks


title: Hepatocyte-like cells (HLCs), day-41

city: Funabashi

first: Shota

last: Okuyama

state: Chiba

department: Biology

institute: Toho University

description: Gene expression data of HLCs induced from TT2F mESCs at day-41

hyb_protocol: The obtained biotin-labeled cRNAs were fragmented and hybridized to GeneChip (45 ℃, 60 r.p.m. rotation, 16 h). The arrays were stained and cleaned using an automatic staining and cleaning system, and images of the arrays were acquired using a dedicated GeneChip scanner.

scan_protocol: GeneChips were scanned using the Transcriptome Analysis Console software

data_processing: Gene Chips were analyzed with the Transcriptome Analysis Console software and normalized using the MAS5 algorithm. The expression profile was analyzed only for highly expressed genes with actual log2 values≥ 10. Genes with more than 2-fold increase or decrease in log2 values compared to other samples were considered differentially expressed genes. Heatmaps were created using R's free software, RStudio.

source_name: TT2F mouse ESCs

label_protocol: Biotin-labeled cRNA was synthesized by in vitro transcription reaction using total RNA according to the protocol recommended by Thermo Fisher Scientific.

growth_protocol: FL,AL: Chimeric mice were generated using CYP3A7R transgenic ESCs. FL and AL were extracted from mouse livers grown up to E18.5 and 6W. HLCs: HLCs were obtained by differentiating TT2F mESCs up to day-41 according to the differentiation induction conditions established in this study.

extract_protocol: Total RNA was extracted using the RNeasy Mini Kit (Qiagen).

value: Liver cells

value: Hepatocyte-like cells


title: MPE 4

city: Shatin

first: Ronald

last: Wang

address: Prince of Wales Hospital

department: Obstetrics & Gynaecology

country: Hong Kong

institute: The Chinese University of Hong Kong

description: Gene expression after 3 days

hyb_protocol: Using Gene Expression Hybridiation kit (Agilent), 600 ng of Cy3-labelled cRNA (Cy3 incorporation) was fragmented at 60°C for 30 minutes following the manufacturers instructions. On completion of the fragmentation reaction, samples were hybridized to SurePrint G3 Mouse GE microarray kit 8x60k ver 2.0 (074809, Agilent) for 17 hours at 65°C, rotating in hybridization oven (G2545A , Agilent) at 10 rpm. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.

scan_protocol: Slides were scanned immediately after washing on the Agilent Microarray Scanner G2565BA using a setting AgilentG3_GX_1color (Scan Area 61x21.6 mm, Scan resolution 3 um, Dye channel is set to Green and Green PMT is set to 100%).

data_processing: The scanned images were analyzed with Feature Extraction 10.5.1.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Output data were further analyzed with GeneSpring GX 10.0 with a default setting, with Percentile=75, to generate values of normalized signal intensity.

source_name: MIN6 cells treated with Maidong polysaccharide extract (MPE) for 3 days, replicate 4

label_protocol: Cyanine-3 (Cy3) labeled cRNA was prepared from 100 ng RNA using the Low input Quick Amp labeling kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy mni kit purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.

extract_protocol: Total RNA extracted by TRIzol reagent (Invitrogen, CA) was subjected to gene expression profiling using Agilent microarray platform (Agilent Technologies, CA). RNA was quantified using a Quantus fluorometer (Promega) and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, CA).

treatment_protocol: The MIN6 cell line (passage 20-30) was cultured in DMEM medium (Invitrogen, Carlsbad, CA, USA) with 15% FBS (Gibco, USA), 1% PS (penicillin, streptomycin) (Gibco, USA) and 50 μmol/L 2-Mercaptoethanol (Gibco, USA). The cells were treated with MPE at concentrations of 0, 0.05, 0.5, 5 and 50 μg/mL or vehicle for 24, 48 and 72h for experiments. The cells treated by vehicle (PBS) or MPE for 3 days were harvested for microarray analysis.

tag: cell line

value: MIN6 cells

tag: treatment

value: MPE

tag: day


title: Pcan16_API2

tag: age


title: Pcan16_API5


title: MPE 3

description: Gene expression after 3 days

source_name: MIN6 cells treated with Maidong polysaccharide extract (MPE) for 3 days, replicate 3


title: adult liver (AL), 6W

description: Gene expression data from 6W transgenic mouse adult liver

source_name: transgenic mouse AL

value: Liver


title: Pcan1_API5


title: Patient 40 CBCS_N40

tag: study phase

tag: estrogen receptor status


title: Pcan1_API4


title: Pcan17_API3

value: 61 months and 1 week


title: MPE 2

description: Gene expression after 3 days

source_name: MIN6 cells treated with Maidong polysaccharide extract (MPE) for 3 days, replicate 2


title: H3K27ac HiChIP in human aortic valve interstitial cells

city: Québec

first: Patrick

last: Mathieu

state: QC

address: 2725 Ch Ste-Foy

country: Canada

institute: Quebec Heart and Lung Institute

data_processing:
Paired-end reads were aligned using HiC-Pro with default settings. Contact matrix was generated with Juicebox from the allValidPairs file generated by HiC-Pro. 1D H3K27ac was generated from the BAM file obtain from HiC-Pro.
Genome_build: hg19
Supplementary_files_format_and_content: hic file contains interactions across the entire genome.

source_name: Human aortic valve interstitial cells from non-mineralized aortic valves

extract_protocol:
Human aortic valve interstitial cells were isolated from control non-mineralized aortic valves obtained from patients undergoing heart transplantation. The protocol was approved by the local ethical committee and informed consent was obtained from the subjects. Aortic leaflets were cut into pieces and incubated in 0.3% type I collagenase (Invitrogen, Thermo Fisher Scientific, ON, Canada) at 37°C for 45 minutes, then filtered through a 70 µm mesh, centrifuged for 5 minutes at 1,500 rpm and resuspended in complete media (DMEM, 10% FBS with L-glutamine and sodium pyruvate). Cells were used between passages 3 to 7. H3K27ac HiChIP was performed from about 1 million of cells as described previously (Mumbach et al., 2016, Nat Methods).
Library was generated in 50 µL of a PCR master mix (25 µL of Phusion HF 2X (New England BioLabs, ON, Canada), 1 µL of each Nextera Ad1_noMX and Nextera Ad2.X at 12.5 µM, and 23 µL of water). The following PCR program was performed: 72 °C for 5 min, 98 °C for 1 min, then cycle at 98 °C for 15 s, 63 °C for 30 s, and 72 °C for 1 min. Cycle number was set to 10 considering the amount of DNA. Library was placed on a magnet and eluted into a new tube before purification with clean up & concentrator kit (Zymo Research, Cedarlane, Canada). Library size selection (300-700 bp) was performed by cutting a 2% agarose gel slice and DNA purified with PureLink Quick Gel Extraction (Thermo Fisher, ON, Canada). Library quality was assessed on a BioAnalyser (Agilent, ON, Canada) using Agilent High Sensitivity DNA kit (Agilent, ON, Canada). Paired-end sequencing with 500 million reads was performed with NovaSeq 6000 S4 (UC San Diego IGM Genomics Center).
HiChIP

value: aortic valve interstitial cells

tag: antibody


title: Pcan1_API2


title: Patient 38 CBCS_N38

tag: pam50 molecular subtype


title: Patient 39 CBCS_N39


title: Pcan17_API1

value: 60 months


title: Pcan16_API3