DAC

UCSF Brain Tumor Bioinformatics DAC

Dac ID Contact Person Email Access Information
EGAC00001000515 Aaron Diaz aaron [dot] diaz [at] ucsf [dot] edu No additional information is available

This DAC controls 46 datasets:

Dataset ID Description Technology Samples
EGAD00001002269 We expressed PDGFRAmut, wild-type PDGFRA and a GFP control from lentivirus, in two primary GBM patient-derived cell lines that we had cultured as monolayers. Illumina HiSeq 4000 1
EGAD00001002270 We collected fresh tissue from an untreated GBM (SF10282) directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine, resulting in sequencing libraries from 96 individual cells. Illumina HiSeq 2500 1
EGAD00001002271 We collected fresh tissue from an untreated GBM (SF10345) directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine, resulting in sequencing libraries from 96 individual cells. Illumina HiSeq 2500 1
EGAD00001002272 We collected fresh tissue from an untreated GBM (SF10360) directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine, resulting in sequencing libraries from 96 individual cells. Illumina HiSeq 2500 1
EGAD00001002273 We performed bulk exome-seq on a primary GBM and a blood sample from SF10345 Illumina HiSeq 2500 1
EGAD00001002274 We performed bulk exome-seq on a primary GBM and a blood sample from SF10360 Illumina HiSeq 2500 1
EGAD00001002275 We performed bulk exome-seq on a primary GBM and a blood sample from SF10282 Illumina HiSeq 2500 1
EGAD00001003107 We collected fresh tissue from an untreated GBM directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine after selection of CD11b+ cells using magnetic beads. Illumina HiSeq 2500 1
EGAD00001003108 We collected fresh tissue from an untreated GBM directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine after selection of CD11b+ cells using magnetic beads. Illumina HiSeq 2500 1
EGAD00001003109 We collected fresh tissue from an untreated GBM directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine after selection of CD11b+ cells using magnetic beads. Illumina HiSeq 2500 1
EGAD00001003110 We collected fresh tissue from an untreated GBM directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine after selection of CD11b+ cells using magnetic beads. Illumina HiSeq 2500 1
EGAD00001003111 We collected fresh tissue from an untreated GBM directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine after selection of CD11b+ cells using magnetic beads. Illumina HiSeq 2500 1
EGAD00001003112 We collected fresh tissue from an untreated GBM (SF10592) directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine, resulting in sequencing libraries from 96 individual cells. Illumina HiSeq 2500 1
EGAD00001003113 We collected fresh tissue from an untreated GBM (SF10679) directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine, resulting in sequencing libraries from 96 individual cells. Illumina HiSeq 2500 1
EGAD00001003114 We collected fresh tissue from an untreated GBM (SF10281) directly from the operating room and subjected the biopsy to single-cell RNA-seq with the fluidigm C1 machine, resulting in sequencing libraries from 96 individual cells. Illumina HiSeq 2500 1
EGAD00001005391 SF11977 single cell RNA-seq IDHR132H Wild-type GBM Female, 61 Single Cell RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005392 SF11956 IDHR132H WT GBM. Male, 63. Single Cell RNA seq from high grade glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005393 SF11644 Primary GBM Gender Male age 57. Single Cell RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005394 Single cell RNA-Seq Primary diffuse astrocytoma G2. IDH mutant, ATRX mutant. Gender Male Age 34. Single Cell RNA seq from primary astrocytoma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005395 Single cell Primary astrocytoma G2. IDH mutant, ATRX negative. Male, 44. Single Cell RNA seq from primary astrocytoma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005396 Single cell RNA-Seq Low Grade Astrocytoma IDHR132H mutant. Male, 64. Single Cell RNA seq from primary astrocytoma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005397 SF11949 Primary oligodendroglioma G3 IDH1 Mutant. Male, 40 Single Cell RNA seq from primary astrocytoma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005398 IDH1 mutant oligodendroglioma male, 40. Single Nuclei ATAC seq data from low grade human glioma sample. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005399 Single Nuclei RNA-Seq Primary High-grade Glioma. Gender Female Age 51. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference Illumina NovaSeq 6000 1
EGAD00001005401 Single Nuclei RNA-Seq Primary High-grade Glioma. Gender Male Age 73. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005402 Single Nuclei RNA-Seq Primary High-grade Glioma. Gender Female age 40. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005403 Single Nuclei RNA Seq of primary GBM. Gender Female Age 44. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference Illumina NovaSeq 6000 1
EGAD00001005405 IDH1 mutant GBM 55, Male. Single Nuclei ATAC seq data from high grade human glioma samples. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005406 IDHR132H Wildtype GBM. Male, 63 Single Nuclei ATAC seq data from high grade human glioma samples. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005407 High grade glioma sample, Gender Male Age 46. Single Nuclei ATAC seq data from high grade human glioma samples. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005408 SF11331 Primary GBM Male,55 Single Nuclei ATAC seq data from high grade human glioma sample. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005409 SF10022 single nuclei RNA-Seq Primary High-grade glioma. gender Male Age 65. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference Illumina NovaSeq 6000 1
EGAD00001005410 Single Nuclei RNA-Seq Primary GBM. Gender Female Age 51. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005411 Single Cell RNA seq from Recurrent oligodendroglioma sample. Gender Male Age 67. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference through Cellranger count (10xGenomics.) Illumina NovaSeq 6000 1
EGAD00001005412 Single Nuclei RNA-Seq Primary IDHR132H Wild-type GBM. Male, 61. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005413 SF11612 Recurrent oligodendroglioma. Gender Male Age 67. Single Nuclei ATAC seq data from low grade human glioma samples. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005414 Single Nuclei ATAC Seq IDHR132H mutant Astrocytoma . Male, 64. Single Nuclei ATAC seq data from low grade human glioma sample. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005415 Single Nuclei RNA-Seq Primary High-grade Glioma. Gender male age 39. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference Illumina NovaSeq 6000 1
EGAD00001005418 SF11979 snATAC, IDHR132H WT GBM Female, 76 Single Nuclei ATAC seq data from high grade human glioma samples. NovaSeq6000 was used for ATAC seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005428 Single Nuceli Primary GBM 73 Male. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005429 Single Cell Prmary high grade glioma IDHR132H Wild-type Female 76 Single Cell RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001005430 Single Nuclei Primary GBM IDHR132H Wildtype. Female 76. Single Nuclei RNA seq from high grade primary glioma sample. NovaSeq6000 was used for RNA seq. The files uploaded are bam files created with grch38 reference. Illumina NovaSeq 6000 1
EGAD00001006017 Single Cell RNA-Seq of Primary GBM. Gender Female, Age, 57. Illumina NovaSeq 6000 1
EGAD00001006018 Mixed Sample of scRNA-Seq primary low grade glioma. Genders: Male, Age: 34, 44. Illumina NovaSeq 6000 1
EGAD00001006019 Single Cell-RNA Seq of Wildtype Primary GBM for Female, Age 50. Illumina NovaSeq 6000 1
EGAD00001006020 Primary diffuse astrocytoma G3 Male, 74 Illumina NovaSeq 6000 1