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BBMRI.at partner Med Uni Graz: “CRC WSI Cohort - a comprehensive Colorectal Cancer Cohort”

Colorectal Cancer Cohort: "Colorectal Cancer Whole Slide Image Cohort":

an outstanding collection at Med Uni Graz (Institute of Pathology & Biobank Graz)

 

Summary

The "Colorectal Cancer Cohort (CRC-Cohort)" is a huge collection of colorectal cancer resection samples from the Institute of Pathology located at Biobank Graz at Medical University of Graz. It consists of various CRC sub-cohorts from colorectal cancer tissue with associated H&E, histological and immunhistochemical stainings where samples have been analysed and supplemented by digital images of tissue slides in various projects.

 

A very well sub-cohort is the "Colorectal cancer whole slide image cohort" (CRC WSI cohort) which consists of 3 parts, i.e.:

  1. "CRC whole slide image - survival cohort"
  2. "CRC whole slide image - vascular invasion cohort"
  3. "CRC whole slide image – clinical annotation cohort"

 

Profile of  (1) "CRC whole slide image - survival cohort"

Disease Area

Research Area

Colorectal cancer / ICD-10: C18.0

Colorectal cancer, survival prediction, artificial Intelligence, etc.

Sample Types

  • H&E stained FFPE tissue slides (RT storage)
  • Immunohistochemistry (IHC) on FFPE tissue slides (RT storage)
  • Whole slide images of H&E and IHC FFPE tissue slides

Cohort Size

  • Over 180 000 images (resolution 0.25µm/pixel, over 800 TByte)
  • from 100 000 slides (H&E and IHC staining of FFPE tissue sections)
  • from over 6 400 cases
  • comprising tissue from colorectal cancer resections (tumour and non-tumour colon tissue, resection margins, fatty tissue, and associated lymph nodes)

Donors

Inclusion criteria:

Patients with colorectal cancer as a primary diagnosis (C18), samples from 1984 to 2013

  • Patient age: 18 – 100 years
  • Tumour stages: II to III
  • Ratio female : male = 45:55

Associated Data*

  • Pathology diagnosis
  • TNM staging
  • ICD-10 and ICD-O codes
  • Survival data
  • Meta data from whole slide images

Informed Consent

Depending on year of collection with or without informed consent

Access

Access for collaborative research projects depending on ethics committee  approval of Medical University of Graz

Quality Standards

ISO 9001:2015 (Biobank Graz)

Contact

Univ.-Prof. Dr. med. univ. Kurt Zatloukal

Email: kurt.zatloukal@medunigraz.at                        

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Profile of (2) "CRC whole slide image - vascular invasion cohort"

Disease Area

Research Area

Colorectal cancer / ICD-10: C18.0

Colorectal cancer, inflammation, artificial Intelligence, etc.

Sample Types

  • H&E stained FFPE tissue slides (RT storage)
  • (Immuno)histochemistry (IHC) on FFPE tissue slides, Elastica van Giesson staining, vascular endothelial marker IHC (CD-31) (RT storage)
  • Whole slide images of H&E and IHC FFPE tissue slides

Cohort Size

  • Approx. 800 whole slide images (resolution 0.25µm/pixel)
  • from ~ 800 slides (H&E, histochemical and IHC staining of FFPE tissue sections)
  • from over 260 cases
  • comprising colorectal tumour tissue

Donors

Inclusion criteria:

Patients with colorectal cancer as a primary diagnosis (C18), samples from 1984 to 2013

  • Age: 18 – 100 years
  • Stages: I to IV
  • Female, male

Associated Data*

  • Pathology diagnosis
  • TNM staging
  • ICD-10 and ICD-O codes
  • Clinical data*
  • Survival data
  • Meta data from whole slide images

     *see details about associated data below

Informed Consent

Depending on year of collection with or without informed consent

Access

Access for collaborative research projects depending on ethics committee  approval of Medical University of Graz

Quality Standards

ISO 9001:2015 (Biobank Graz)

Contact

Univ.-Prof. Dr. med. univ. Kurt Zatloukal

Email: kurt.zatloukal@medunigraz.at                       

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Profile of (3) "CRC whole slide image – clinical annotation cohort"

Disease Area

Research Area

Colorectal cancer / ICD-10: C18.0

Colorectal cancer, artificial Intelligence, etc.

Sample Types

  • H&E stained FFPE tissue slides (RT storage)
  • Immunohistochemistry (IHC) on FFPE tissue slides (RT storage)
  • Whole slide images of H&E and IHC FFPE tissue slides

Cohort Size

  • Approx. 1800 whole slide images (resolution 0.25µm/pixel)
  • from ~ 800 slides (H&E and IHC staining of FFPE tissue sections)
  • from over 100 cases
  • comprising tissue from colorectal cancer resections (tumour and non-tumour colon tissue, resection margins, fatty tissue, and associated lymph nodes)

Donors

Inclusion criteria:

Patients with colorectal cancer as a primary diagnosis (C18), samples from 1984 to 2013

  • Age: 18 – 100 years
  • Stages: II and III
  • Female, male

Associated Data*

  • Pathology diagnosis
  • TNM staging
  • ICD-10 and ICD-O codes
  • Clinical data*
  • Survival data
  • Meta data from whole slide images

*see details about associated data below

Informed Consent

Depending on year of collection with or without informed consent

Access

Access for collaborative research projects depending on ethics committee  approval of Medical University of Graz

Quality Standards

ISO 9001:2015 (Biobank Graz)

Contact

Univ.-Prof. Dr. med. univ. Kurt Zatloukal

Email: kurt.zatloukal@medunigraz.at                        

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

Find the overall Colorectal Cancer Cohort in the BBMRI-ERIC Directory>>

 

Scientific publications & press – examples (Sub-cohort (1)):

 

 

 


Projects

 

  • Sub-cohort (1): Industry collaboration
  • Sub-cohort (2) and (3): Both sub-cohort are sub-collection of the CRC collection that was part of the EU H2020 project ADOPT BBMRI-ERIC (grant agreement number: 676550)

 

View video on ADOPT BBMRI-ERIC & Colorectal Cancer (Euronews)>>

 

Find details about the European CRC Cohort here>>

 

*Data associated with sub-cohort "ADOPT CRC Cohort"

  • Sex
  • Participation in clinical study (yes/no)
  • Age at primary diagnosis
  • Time of recurrence (metastasis)
  • Family history of cancer
  • Other diseases:
    • other cancers
    • Inflammatory bowel disease
    • Intestinal polyps
    • other disease requiring therapy (e.g., cardio-vascular, endocrine. musculoskeletal)
  • Tumor markers (e.g., CEA) (if available)
  • Vital status and survival information
    • Timestamp of last update of vital status
    • Overall survival status
  • Surgery: aggregate object
    • Time difference between initial diagnosis and surgery
    • Surgery radicality
    • Type of surgery
  • Pharmacotherapy:
    • REQUIRED if occurred
    • Start of pharmacotherapy (relative date referring to the primary diagnosis)
    • Scheme of pharmacotherapy
  • Targeted therapy:
    • REQUIRED if occurred
    • Start of targeted therapy (relative date referring to the primary diagnosis)
    • End of targeted therapy (relative date referring to the primary diagnosis)
  • Radiation therapy:
    • REQUIRED if occurred
    • Start of radiotherapy (relative date referring to the primary diagnosis)
    • End of radiotherapy (relative date referring to the primary diagnosis)
  • Response to therapy
    • The response is linked to the patient and specified by a timestamp. This is to avoid need to specify to which therapy the response is, since there might be combination of different therapies.
    • Specific response
  • Molecular markers (if available)
    • Microsatellite instability
    • Mismatch repair gene expression – IHC array for different genes (common for 3; if applicable)
    • Risk situation (only HNPCC)
    • RAS mutation status (if applicable)
    • BRAF, PIC3CA. HER2 mutation status (optional)
  • Histopathology
    • pTNM
    • UICC staging
    • WHO grading
    • Histological classification (according to WHO)
    • Localization of the tumor
    • High resolution digital images (resolution < 0.25 Microns/pixel) of the tumor, resection margin and lymph nodes
  • Diagnostic exam
    • Result of colonoscopy
    • Array of diagnostic methods (results of liver imaging, lung imaging, MRI, CT; if occurred)