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Home Pathology Portal Key Reference Documents for the Portal
Key Reference Documents for the Portal
Pathology Portal

Work in Progress

Unpublished items that either need to removed or held here until they are ready

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Dataset for the histopathological reporting of lymphomas

Type: Web link
3 out of 5 (1 rating)
Authored by Royal College of Pathologists

Urology EQA circulation AE case 13

Type: Case
Not yet rated
Authored by Urology EQA scheme - Jon Oxley, North Bristol NHS Trust, Consultant Pathologist

Urology EQA circulation AE case 12

Type: Case
Not yet rated
Authored by Urology EQA scheme - Jon Oxley, North Bristol NHS Trust, Consultant Pathologist

Guidelines on autopsy practice: acute anaphylaxis (includes anaphylactic shock and anaphylactic asthma)

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Testing strategies for Lynch syndrome in people with endometrial cancer

Type: Web link
Not yet rated
Authored by Royal College of Pathologists - British Gynaecological Cancer Society - The British Association of Gynaecological Pathologists

Dataset for histopathological reporting of anal cancer

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Industrial/occupational-related lung disease deaths including asbestos

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for reporting nodal excisions and neck dissections

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of renal tumours in childhood

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for adult renal parenchyma neoplasms

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for mucosal malignancies of the nasal cavities & paranasal sinuses

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of carcinomas and mucinous neoplasms of the appendix

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathways for gastrointestinal and pancreatobiliary pathology

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Bodies recovered from water

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Stillbirth: Third trimester antepartum and intrapartum

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathways for head and neck pathology

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Postoperative deaths

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Post-mortem cross-sectional imaging in adults for non-forensic deaths: guidelines

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Non-invasive follicular thyroid neoplasm with papillary-like nuclear features

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for the histopathological reporting of mesothelioma

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of lung cancer

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for salivary gland neoplasms

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of carcinomas of the pancreas, ampulla of Vater and common bile duct

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathways for urological pathology

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for neuroendocrine neoplasms of the gastroenteropancreatic tract

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathways for endocrine pathology

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for parathyroid cancer histopathology reports

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathology reporting of liver resection specimens (including gall bladder) and liver biopsies for primary and metastatic carcinoma

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for penile and distal urethral cancers

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of testicular neoplasms

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on Autopsy Practice: Sickle cell disease and persons with sickle cell trait

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Sudden death with likely cardiac pathology

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for mucosal malignancies of the larynx

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Aviation-related fatalities

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Fetal autopsy (2nd trimester fetal loss and termination of pregnancy for congenital anomaly)

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Neonatal death

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: bariatric surgery

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathway for native medical renal biopsies

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of oesophageal and gastric carcinoma

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Pathology reporting of breast disease, incorporating the breast cancer dataset

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for carcinomas of the oropharynx & nasopharynx

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of primary bone tumours

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathways for renal transplant biopsies

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: drugs or poisoning

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for reporting of thymic epithelial tumours

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathways for non-neoplastic thoracic pathology

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for mucosal malignancies of the oral cavity

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Reporting primary cutaneous malignant melanoma and regional lymph nodes : dataset

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for reporting of gastrointestinal stromal tumours

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Cancer dataset for the histological reporting of adrenal cortical carcinoma and phaeochromocytoma/paraganglioma

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for reporting primary cutaneous adnexal carcinomas and regional lymph nodes

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Tissue pathways for diagnostic cytopathology

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for histopathological reporting of tumours of the urinary collecting system

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Dataset for thyroid cancer histopathology reports

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines for breast screening non-operative diagnostic procedures and reporting

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidelines on autopsy practice: Deaths in patients with epilepsy including sudden deaths

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Guidance on the reporting of thyroid cytology specimen

Type: Web link
Not yet rated
Authored by Royal College of Pathologists

Bioinformatics for T-Cell immunology-Flow cytometry analysis- Part1 (web link vers.)

Type: Web link
Not yet rated
Authored by Artuur Couckuyt, VIB – IRC – University Ghent,European Molecular Biology Laboratory-European Bioinformatics Institute, Scientist - Katrien Quintelier, Ghent University,European Molecular Biology Laboratory-European Bioinformatics Institute(EMBL-EBI), Post Doc

Bioinformatics for T-Cell immunology-Single Cell Expression Atlas Part 2 (web link vers.)

Type: Web link
Not yet rated
Authored by Nancy George, European Molecular Biology Laboratory-European Bioinformatics Institute(EMBL-EBI), Scientific Curator – Papatheodorou team: Gene Expression

Bioinformatics for T-Cell immunology-Single Cell Expression Atlas Part 1 (web link vers.)

Type: Web link
Not yet rated
Authored by Nancy George, European Molecular Biology Laboratory-European Bioinformatics Institute(EMBL-EBI), Scientific Curator – Papatheodorou team: Gene Expression

Bioinformatics for T-Cell immunology (web link vers.)

Type: Web link
Not yet rated
Authored by Cecilia Domínguez Conde, EMBI-EBI, Group Leader at the Population & Medical Genomics programme of the Genomics Centre at EMBI-EBI

Bioinformatics for T-Cell immunology-Bioinformatics tools and resources for immunology (web link vers.)

Type: Web link
Not yet rated
Authored by Anna Lorenc – Wellcome Sanger Institute, Anna Lorenc – Wellcome Sanger Institute, Computational biologist in Gosia Trynka’s lab of Immune Genomics at Wellcome Sanger-EMBI-EBI

Bioinformatics for T-Cell immunology-Flow cytometry analysis- Part 2 (web link vers.)

Type: Web link
Not yet rated
Authored by Artuur Couckuyt, VIB – IRC – University of Ghent,European Molecular Biology Laboratory-European Bioinformatics Inst - Katrien Quintelier, University of Ghent, European Molecular Biology Laboratory-European Bioinformatics Institute, Scient

Bioinformatics for T-Cell immunology-Flow cytometry analysis- Part 3 (web link vers.)

Type: Web link
Not yet rated
Authored by Artuur Couckuyt, University Ghent, European Molecular Biology Laboratory-European Bioinformatics Institute.

Bioinformatics for T-Cell immunology-Multiple ways to integrate multi-omics data – case studies from studying human diseases Part 1 (web link vers.)

Type: Web link
Not yet rated
Authored by Tamás Korcsmáros, Imperial College London / Earlham Institute.EMBL-EBI - Matthew Madgwick, Earlham Institute, European Molecular Biology Laboratory-European Bioinformatics Institute.

Bioinformatics for T-Cell immunology-Multiomics data integration- Part 2 (web link vers.)

Type: Web link
Not yet rated
Authored by Matthew Madgwick, Earlham Institute

Bioinformatics for T-Cell immunology-Multiomics data integration- Part 3a (web link vers.)

Type: Web link
Not yet rated
Authored by Gaurhari Dass, European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI)., Senior Cloud Architect

Bioinformatics for T-Cell immunology- Multiomics data integration Part 3b (web link vers.)

Type: Web link
Not yet rated
Authored by Gaurhari Dass, EMBL-EBI, Senior Cloud Architect in OmicsDI

Bioinformatics for T-Cell immunology- Multiomics data integration Part 3c (web link vers.)

Type: Web link
Not yet rated
Authored by Gaurhari Dass – EMBL-EBI, EMBL-EBI, Senior Cloud Architect in OmicsDI

Bioinformatics for T-Cell immunology-Introduction to machine and deep learning analysis- Part 1 (web link vers.)

Type: Web link
Not yet rated
Authored by Craig Russell, – EMBL-EBI, Staff scientist at the European Bioinformatics Institute – EMBL

Bioinformatics for T-Cell immunology- Multiomics data integration Part 4 (web link vers.)

Type: Web link
Not yet rated
Authored by Tamás Korcsmáros, Imperial College London / Earlham Institute - Matthew Madgwick, Earlham Institute

test mrxs EY 3/2/23

Type: Case
Not yet rated
Authored by Esther Youd

Bioinformatics for T-Cell immunology-Introduction to machine and deep learning analysis- Part 2 (web link vers.)

Type: Web link
Not yet rated
Authored by Maaly Nassar, Elsevier (SciBite team), Senior data scientist at Elsevier (SciBite team)

Bioinformatics for T-Cell immunology-Introduction to machine and deep learning analysis- Part 3 (web link vers.)

Type: Web link
Not yet rated
Authored by Blagoje Soskic, Fondazione Human Technopole/ European Molecular Biology Laboratory-European Bioinformatics Institute, Research Group Leader

Bioinformatics for T-Cell immunology-Introduction to machine and deep learning analysis- Part 4 (web link vers.)

Type: Web link
Not yet rated
Authored by Maira Ihsan, European Molecular Biology Laboratory-European Bioinformatics Institute , EMBL-EBI., User Support Bioinformatician

Bioinformatics for T-Cell immunology-Single-cell RNA seq analysis Part 2 (web link vers.)

Type: Web link
Not yet rated
Authored by Nancy George, EMBL-EBI, Scientific Curator – Papatheodorou team: Gene Expression

Bioinformatics for T-Cell immunology-Single-cell RNA seq analysis Part 3 (web link vers.)

Type: Web link
Not yet rated
Authored by Nancy George, EMBL-EBI, Scientific Curator – Papatheodorou team: Gene Expression

Bioinformatics for T-Cell immunology-scRNA-seq bioinformatics Part 1 (web link vers.)

Type: Web link
Not yet rated
Authored by Nancy George, EMBL-EBI, Scientific Curator – Papatheodorou team: Gene Expression

Bioinformatics for T-Cell immunology-scRNA-seq bioinformatics- Part 2 (web link vers.)

Type: Web link
Not yet rated
Authored by Cecilia Domínguez Conde, Population & Medical Genomics programme of the Genomics Centre, EMBI-EBI, Group Leader - Rasa Elmentaite, Wellcome Sanger Institute &European Molecular Biology Laboratory-EBI, Staff scientist in Sarah Teichmann’s team at Wellcome Sanger Institute.

One Minute Micro: Bowel Sepsis - animation

Type: Web link
5 out of 5 (1 rating)
Authored by Angharad Davies, Swansea University Medical School

One Minute Micro: Meningitis - animation

Type: Web link
5 out of 5 (1 rating)
Authored by Angharad Davies, Swansea University Medical School

One Minute Micro - Urinary Tract Infection

Type: Web link
5 out of 5 (1 rating)
Authored by Angharad Davies, Swansea University Medical School

One Minute Micro: Introduction to Gram stains - animation

Type: Web link
5 out of 5 (1 rating)
Authored by Angharad Davies, Swansea University Medical School

One Minute Micro: Streptococci - animation

Type: Web link
5 out of 5 (1 rating)
Authored by Angharad Davies, Swansea University Medical School

One Minute micro: Staphylococci - animation

Type: Web link
5 out of 5 (2 ratings)
Authored by Angharad Davies, Swansea University Medical School

One Minute Micro: Community Respiratory Pathogens

Type: Web link
5 out of 5 (1 rating)
Authored by Angharad Davies, Swansea University Medical School

Crospovidone

Type: Case
Not yet rated
Authored by Dr Yale Rosen, Atlas of Pulmonary Pathology

Paediatric Case #1

Type: File
Not yet rated
Authored by Peter Helliwell, Great Ormond Street Hospital

Autopsy - external - L1 - case 1

Type: Image
Not yet rated
Authored by Esther Youd, University of Glasgow, Autopsy Pathologist

Introducing the Pathology Portal

Type: Video - 1 min 55 sec
Not yet rated
Authored by Jo Martin, Queen Mary University of London, Professor

Neuropathology - Case 3 [*approved]

Type: Case
Not yet rated
Authored by Matthew Clarke, ICR / UCLH, Academic Clinical Lecturer - Diagnostic Neuropathology

Perineurioma 101

Type: Video - 38 min 35 sec
Not yet rated
Authored by Jerad Gardner, Geisinger, @JMGardnerMD

Histo - lower GI - case - L1

Type: File
Not yet rated
Authored by Simon Cross, The University of Sheffield - The Royal College of Pathologists

Autopsy - brain - L2 - case 1

Type: Image
Not yet rated
Authored by Esther Youd, University of Glasgow, Autopsy Pathologist

Placenta – Thrombus Case 1

Type: Image
Not yet rated
Authored by Susanne Sprung, Institute of Pathology, Medical University of Innsbruck, MD

WIP Placenta – Thrombus Case 2

Type: Image
Not yet rated
Authored by Susanne Sprung, Institute of Pathology, Medical University of Innsbruck, MD

Demo audio

Type: File
Not yet rated
Authored by Tanya Levine, LRCTC