CIMAC Specimen Collection Umbrella
Version
5/5/23 Ver 9 (03-26-2024)
11/19/19 Ver 8 (11-04-2021)
CIMAC-CIDC Network
ATACseq: ATAC epigenome profiling Analytic Validation (Stanford)
Version
(04-12-2024)
CIMAC-CIDC Network
ATACseq: inTAC-Seq Protocol (Stanford)
Version
Version 1.0 (08-01-18) (07-12-2024)
CIMAC-CIDC Network
CITE-Seq: Analytical Performance (DFCI)
Version
9/28/2021 Ver 1.1 (04-29-2024)
CIMAC-CIDC Network
CyTOF Proteomics: Analytic Validation (Stanford)
Version
Ver 2.0 (11-08-2021)
CIMAC-CIDC Network
CyTOF: CIMAC CyTOF Harmonized SOP/Approach
Version
1/7/20 Ver 1.0 (11-08-2021)
CIMAC-CIDC Network
EVP: Extracellular vesicle and particles small RNA sequencing Analytical Validation (Mt Sinai)
Version
11/22/2022 Ver 1.0 (04-29-2024)
CIMAC-CIDC Network
Grand Serology ELISA: Analytical Validation (Mt Sinai)
Version
7/25/2019 Ver 2.1 (04-12-2024)
CIMAC-CIDC Network
Grand Serology ELISA: SOP (Mt Sinai)
Version
10-9-2019 (11-08-2021)
CIMAC-CIDC Network
Microbiome: 16S rRNA microbiome sequencing Analytical Validation (Mt Sinai)
Version
11/4/2019 Ver 1.1 (04-12-2024)
CIMAC-CIDC Network
Microbiome: 16S rRNA with MiSeq (Mt Sinai)
Version
Version 1.0 (11-30-18) (07-12-2024)
CIMAC-CIDC Network
Microbiome: 16S V4 ribosomal RNA (rRNA) Sequencing Analytical Validation (MD Anderson)
Version
9/28/2020 Ver 1.0 (04-12-2024)
CIMAC-CIDC Network
Microbiome: 16S V4 Sequencing SOP (MD Anderson)
Version
11-19-20 (07-12-2024)
CIMAC-CIDC Network
Microbiome: Human Fecal Sample Collection (Cryo) (Mt Sinai)
Version
Version 2 (03-05-19) (07-12-2024)
CIMAC-CIDC Network
Microbiome: Human Fecal Sample Collection (DNA) (Mt Sinai)
Version
Version 2 (03-05-19) (07-12-2024)
CIMAC-CIDC Network
Microbiome: Human Microbiome Sample Aliquoting (Mt Sinai)
Version
Version 2 (03-05-19) (07-12-2024)
CIMAC-CIDC Network
Microbiome: Microbiome DNA Isolation (Mt Sinai)
Version
Version 1 (11-17-18) (07-12-2024)
CIMAC-CIDC Network
MICSSS: Aperio AT2 DX Leica Biosystems Slide Scanner (Mt Sinai)
Version
06-06-24 (07-12-2024)
CIMAC-CIDC Network
MICSSS: CIMAC IHC Slide Scanner SOP (Mt Sinai)
Version
2019-10-03 (11-08-2021)
CIMAC-CIDC Network
MICSSS: Digital Image Analysis of Whole Slide Images SOP (Mt Sinai)
Version
2019-10-03 (11-08-2021)
CIMAC-CIDC Network
MICSSS: Multiplex IHC Analytical Validation (Mt Sinai)
Version
2/19/2019 Ver 2.0 (04-12-2024)
CIMAC-CIDC Network
MICSSS: Multiplex Immunohistochemical Consecutive Staining on a Single Slide (MICSSS) SOP (Mt Sinai)
Version
Version 2 (11-03-2022) (07-16-2024)
2019-10-03 (11-08-2021)
CIMAC-CIDC Network
Multiplex Immunofluorescence (mIF): Panel Vectra 1 and Panel Vectra 2 SOP (MD Anderson)
Version
1/28/2019 (11-08-2021)
CIMAC-CIDC Network
Multiplex Immunofluorescence (mIF): Analytical Validation for Vectra 9C (MD Anderson)
Version
3/3/2023 Ver 1.0 (04-12-2024)
CIMAC-CIDC Network
Multiplex Immunofluorescence (mIF): Immunohistochemistry (IHC) Analytical Validation (DFCI)
Version
08-07-18 (07-12-2024)
CIMAC-CIDC Network
Multiplex Immunofluorescence (mIF): Panel Vectra 9C SOP (MD Anderson)
Version
Version 1.0 (08-29-22) (07-12-2024)
CIMAC-CIDC Network
Multiplex Immunofluorescence (mIF): Analytical Validation for Vectra Panels 1 and 2 (MD Anderson)
Version
6/3/2019 Ver 1.0 (04-12-2024)
CIMAC-CIDC Network
Multiplex Immunofluorescence (mIF): SOP (DFCI)
Version
1/1/17 Ver 15.1 (11-04-2021)
CIMAC-CIDC Network
NanoString nCounter: Analytical Validation (MD Anderson)
Version
12/3/2018 Ver 2.0 (04-12-2024)
CIMAC-CIDC Network
NanoString nCounter: SOP (MD Anderson)
Version
10/12/18 Ver 3.0 (11-08-2021)
CIMAC-CIDC Network
NULISA Analytical Performance (Stanford)
Version
Version 1.0 (01-22-24) (10-23-2024)
CIMAC-CIDC Network
Olink: Analytical Validation (Mt Sinai)
Version
5/9/2018 Ver 1.0 (04-12-2024)
CIMAC-CIDC Network
Olink: Olink Assay using Proseek Multiplex Kit SOP (Mt Sinai)
Version
12/24/18 Ver 3 (11-08-2021)
CIMAC-CIDC Network
RNAscope: Analytical Validation of RNAscope Assay for Immuno-oncology Biomarker Probes (MD Anderson)
Version
02-01-24 (07-12-2024)
CIMAC-CIDC Network
RNAscope: RNAscope In Situ Hybridization Assay SOP (MD Anderson)
Version
Version 2.0 (12-15-23) (07-12-2024)
CIMAC-CIDC Network
RNAseq: Extraction of RNA from FFPE Tissue Sections SOP (MD Anderson)
Version
1/18/2018 (11-08-2021)
CIMAC-CIDC Network
RNAseq: RiboGreen - Detection of RNA on the BioTek Synergy Microplate Reader SOP (MD Anderson)
Version
1/18/2018 (11-08-2021)
CIMAC-CIDC Network
RNAseq: RNA Extraction from Frozen Tissue via QIAamp RNeasy Mini Kit SOP (MD Anderson)
Version
1/18/2018 (11-08-2021)
CIMAC-CIDC Network
RNAseq: RNA Sequencing Analytical Validation (MDACC)
Version
3.0 (12-2-2019) (05-23-2024)
CIMAC-CIDC Network
RNAseq: RNAseq library preparation SOP (MD Anderson)
Version
1/9/2020 (11-08-2021)
CIMAC-CIDC Network
scATACseq: Single-Cell ATAC-Sequencing Analytical Performance (DFCI)
Version
1.1 (8-6-2021) (05-23-2024)
CIMAC-CIDC Network
scATACseq: Single-Cell ATAC Sequencing Analytical Validation (MD Anderson)
Version
3/11/2021 Ver 1.1 (04-15-2024)
CIMAC-CIDC Network
scRNAseq / scATACseq: Nuclei Isolation for Single Cell ATAC and RNA Sequencing (Mt Sinai)
Version
04-27-20 (07-12-2024)
CIMAC-CIDC Network
scRNAseq: Single-Cell RNA sequencing Analytical Performance (Mt Sinai)
Version
3/13/2023 Ver 1 (04-12-2024)
CIMAC-CIDC Network
scRNAseq: Single-Cell RNA Sequencing with TCR Enrichment Analytical Validation (MDACC)
Version
7/18/2023 Ver 2.1 (04-12-2024)
CIMAC-CIDC Network
scTCRseq and bulk TCRseq: Single-cell and bulk RNA-based TCR sequencing Analytical Validation (DFCI)
Version
August 2019 (04-12-2024)
CIMAC-CIDC Network
scTCRseq: Single-Cell TCRseq Analytical Validation (Stanford)
Version
1.2 (10-5-2018) (05-23-2024)
CIMAC-CIDC Network
scTCRseq: Standard Operating Procedure for Single Cell TCR Sequencing (sc-rhTCRseq1) (DFCI)
Version
12-12-19 (07-12-2024)
CIMAC-CIDC Network
Singleplex IHC: Immunohistochemistry Analytical Validation (MDACC)
Version
1.0 (5-30-2018) (05-23-2024)
CIMAC-CIDC Network
Singleplex IHC: CD3 Immunohistochemistry SOP (DFCI)
Version
1/1/17 Ver 13.3 (11-08-2021)
CIMAC-CIDC Network
Singleplex IHC: Scoring of Chromogenic IHC CD4 (+) Tumor-Infiltrating Lymphocytes (TILs) SOP (DFCI)
Version
7/1/15 Ver 14.1 (11-08-2021)
CIMAC-CIDC Network
Singleplex IHC: Singleplex Chromogenic IHC SOP (MD Anderson)
Version
6/15/18 Ver 1.0 (11-08-2021)
CIMAC-CIDC Network
Spatial transcriptomics: GeoMx Digital Spatial Profiler (DSP) nCounter Protein Assay SOP (MD Anderson)
Version
Version 1 (09-05-22 (07-12-2024)
CIMAC-CIDC Network
snRNAseq: Single Nucleus RNA Sequencing Analytical Performance (DFCI)
Version
Version 2.0 (08-09-24) (10-23-2024)
CIMAC-CIDC Network
Spatial transcriptomics: NanoString GeoMx Digital Spatial Profiling Analytical Validation of Immuno-oncology Protein Targets (MD Anderson)
Version
8/21/2023 (04-12-2024)
CIMAC-CIDC Network
Spatial transcriptomics: SOP For Data Management Using the GeoMx DSP Analysis Software Suite (MD Anderson)
Version
09-05-22 (07-12-2024)
CIMAC-CIDC Network
Spatial transcriptomics: SOP for Pathological Assessment and Region of Interest Selection using the NanoString GeoMx Digital Spatial Profiler (MD Anderson)
Version
09-06-22 (07-12-2024)
CIMAC-CIDC Network
Spatial transcriptomics: Visium Spatial RNA Sequencing Analytical Performance (Mt Sinai)
Version
9/14/2022 Ver 1 (04-12-2024)
CIMAC-CIDC Network
TCRseq: Repertoire TCRseq using RNA Analytical Performance (DFCI)
Version
6/4/2019 Ver 4.0 (04-12-2024)
CIMAC-CIDC Network
WES: Agilent SureSelect Target Enrichment System for Illumina Paired-End Multiplexed Sequencing Library Protocol SOP (MD Anderson)
Version
7/18/2018 (11-08-2021)
CIMAC-CIDC Network
WES: CIMAC Library Preparation Using TWIST Kit SOP (MD Anderson)
Version
V.1.0 (11-08-2021)
CIMAC-CIDC Network
WES: Extraction of DNA from FFPE Tissue Sections SOP (MD Anderson)
Version
1/18/2018 (11-08-2021)
CIMAC-CIDC Network
WES: Manual DNA Isolation from Frozen Tissue using 50 mL Tubes and the QIAamp DNA Mini Kit SOP (MD Anderson)
Version
1/18/2018 (11-08-2021)
CIMAC-CIDC Network
WES: PicoGreen - Detection of dsDNA on the BioTek Synergy Microplate Reader SOP (MD Anderson)
Version
1/18/2018 (11-08-2021)
CIMAC-CIDC Network
WES: Whole Exome Sequencing Analytical Validation (MD Anderson)
Version
10/14/2019 Ver 4.0 (04-12-2024)
CIMAC-CIDC Network