MIRACUM-Pipe : : an adaptable pipeline for next-generation <br>sequencing analysis, reporting, and visualization for clinical decision making

to related objects

Abstract: (1) Background: Next-generation sequencing (NGS) of patients with advanced tumors is becoming an established method in Molecular Tumor Boards. However, somatic variant detection, interpretation, and report generation, require in-depth knowledge of both bioinformatics and oncology. (2) Methods: MIRACUM-Pipe combines many individual tools into a seamless workflow for comprehensive analyses and annotation of NGS data including quality control, alignment, variant calling, copy number variation estimation, evaluation of complex biomarkers, and RNA fusion detection. (3) Results: MIRACUM-Pipe offers an easy-to-use, one-prompt standardized solution to analyze NGS data, including quality control, variant calling, copy number estimation, annotation, visualization, and report generation. (4) Conclusions: MIRACUM-Pipe, a versatile pipeline for NGS, can be customized according to bioinformatics and clinical needs and to support clinical decision-making with visual processing and interactive reporting

Location: Deutsche Nationalbibliothek Frankfurt am Main

Extent: Online-Ressource

Language: Englisch

Notes: Cancers. - 15, 13 (2023) , 3456, ISSN: 2072-6694

Event: Veröffentlichung

(where): Freiburg

(who): Universität

(when): 2023

Creator: Metzger, Patrick
Hess, Maria Elena
Blaumeiser, Andreas
Pauli, Thomas Dieter
Schipperges, Vincent
Mertes, Ralf
Christoph, Jan
Unberath, Philipp
Reimer, Niklas
Scheible, Raphael
Illert, Anna Lena
Busch, Hauke
Geoffroy, Andrieux
Börries, Melanie

DOI: 10.3390/cancers15133456

URN: urn:nbn:de:bsz:25-freidok-2379606

Rights: Open Access; Der Zugriff auf das Objekt ist unbeschränkt möglich.

Last update: 14.08.2025, 10:53 AM CEST

Data provider

This object is provided by:
Deutsche Nationalbibliothek. If you have any questions about the object, please contact the data provider.

Show original at data provider

Associated

Time of origin

2023

Other Objects (12)

Blind normalization of public high-throughput databases

Hochschulschrift | Online-Publikation

Pattern formation and synchronization in excitable systems under the influence of spatiotemporal colored noise

Alteration of proteotranscriptomic landscape reveals the transcriptional regulatory circuits controlling key-signaling pathways and metabolic reprogramming during tumor evolution

Understanding the mTOR signaling pathway via mathematical modeling

Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles

Hochschulschrift

Extrazelluläre Effekte des Ca2+-bindenden Proteins S100A1 : grundlegende Experimente zur Morphologie und Funktion neonataler Kardiomyozyten in Abhängigkeit der Kulturbedingungen

Canonical BMP signaling executes epithelial-mesenchymal transition downstream of SNAIL1

Microglia modulate TNF[alpha]‐mediated synaptic plasticity

BRAFV600E drives dedifferentiation in small intestinal and colonic organoids and cooperates with mutant p53 and Apc loss in transformation

Editing the core region in HPFH deletions alters fetal and adult globin expression for treatment of [beta]-hemoglobinopathies

Early PSA change after [177Lu]PSMA-617 radioligand therapy as a predicator of biochemical response and overall survival

Cardiac regeneration and tumor growth - what do they have in common?

Blind normalization of public high-throughput databases

Hochschulschrift | Online-Publikation

Pattern formation and synchronization in excitable systems under the influence of spatiotemporal colored noise

Alteration of proteotranscriptomic landscape reveals the transcriptional regulatory circuits controlling key-signaling pathways and metabolic reprogramming during tumor evolution

Understanding the mTOR signaling pathway via mathematical modeling

Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles

Hochschulschrift

Extrazelluläre Effekte des Ca2+-bindenden Proteins S100A1 : grundlegende Experimente zur Morphologie und Funktion neonataler Kardiomyozyten in Abhängigkeit der Kulturbedingungen

Canonical BMP signaling executes epithelial-mesenchymal transition downstream of SNAIL1

Microglia modulate TNF[alpha]‐mediated synaptic plasticity

BRAFV600E drives dedifferentiation in small intestinal and colonic organoids and cooperates with mutant p53 and Apc loss in transformation

Editing the core region in HPFH deletions alters fetal and adult globin expression for treatment of [beta]-hemoglobinopathies

Early PSA change after [177Lu]PSMA-617 radioligand therapy as a predicator of biochemical response and overall survival

Cardiac regeneration and tumor growth - what do they have in common?

Blind normalization of public high-throughput databases

Hochschulschrift | Online-Publikation

Pattern formation and synchronization in excitable systems under the influence of spatiotemporal colored noise

Alteration of proteotranscriptomic landscape reveals the transcriptional regulatory circuits controlling key-signaling pathways and metabolic reprogramming during tumor evolution

Understanding the mTOR signaling pathway via mathematical modeling

Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles

Hochschulschrift

Extrazelluläre Effekte des Ca2+-bindenden Proteins S100A1 : grundlegende Experimente zur Morphologie und Funktion neonataler Kardiomyozyten in Abhängigkeit der Kulturbedingungen

Canonical BMP signaling executes epithelial-mesenchymal transition downstream of SNAIL1

Microglia modulate TNF[alpha]‐mediated synaptic plasticity

BRAFV600E drives dedifferentiation in small intestinal and colonic organoids and cooperates with mutant p53 and Apc loss in transformation

Editing the core region in HPFH deletions alters fetal and adult globin expression for treatment of [beta]-hemoglobinopathies

Early PSA change after [177Lu]PSMA-617 radioligand therapy as a predicator of biochemical response and overall survival

Cardiac regeneration and tumor growth - what do they have in common?

Cultural heritage institutions wishing to register will find more information here.

Fields marked * need to be filled in.

Username*

Please enter your username

Email*

Please enter your email address

Please do not fill this field

First name

Last name

Password*

Please enter your password

Confirm password*

Please enter the same password

I have read the terms of use and the privacy policy for the collection of personal data and accept them. *

This field is required.

I would like to subscribe to the newsletter of the Deutsche Digitale Bibliothek. See newsletter subscription info.

Account created

Your "My DDB" account has been successfully created. Before you can log in to your account, you must click the confirmation link in the message we just sent to the email address you provided.

MIRACUM-Pipe : : an adaptable pipeline for next-generation <br>sequencing analysis, reporting, and visualization for clinical decision making

Object Details

Contributors, Places and Time

Further information

Data provider

Associated

Time of origin

Other Objects (12)

Blind normalization of public high-throughput databases

Pattern formation and synchronization in excitable systems under the influence of spatiotemporal colored noise

Alteration of proteotranscriptomic landscape reveals the transcriptional regulatory circuits controlling key-signaling pathways and metabolic reprogramming during tumor evolution

Understanding the mTOR signaling pathway via mathematical modeling

Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles

Extrazelluläre Effekte des Ca2+-bindenden Proteins S100A1 : grundlegende Experimente zur Morphologie und Funktion neonataler Kardiomyozyten in Abhängigkeit der Kulturbedingungen

Canonical BMP signaling executes epithelial-mesenchymal transition downstream of SNAIL1

Microglia modulate TNF[alpha]‐mediated synaptic plasticity

BRAFV600E drives dedifferentiation in small intestinal and colonic organoids and cooperates with mutant p53 and Apc loss in transformation

Editing the core region in HPFH deletions alters fetal and adult globin expression for treatment of [beta]-hemoglobinopathies

Early PSA change after [177Lu]PSMA-617 radioligand therapy as a predicator of biochemical response and overall survival

Cardiac regeneration and tumor growth - what do they have in common?

Blind normalization of public high-throughput databases

Pattern formation and synchronization in excitable systems under the influence of spatiotemporal colored noise

Alteration of proteotranscriptomic landscape reveals the transcriptional regulatory circuits controlling key-signaling pathways and metabolic reprogramming during tumor evolution

Understanding the mTOR signaling pathway via mathematical modeling

Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles

Extrazelluläre Effekte des Ca2+-bindenden Proteins S100A1 : grundlegende Experimente zur Morphologie und Funktion neonataler Kardiomyozyten in Abhängigkeit der Kulturbedingungen

Canonical BMP signaling executes epithelial-mesenchymal transition downstream of SNAIL1

Microglia modulate TNF[alpha]‐mediated synaptic plasticity

BRAFV600E drives dedifferentiation in small intestinal and colonic organoids and cooperates with mutant p53 and Apc loss in transformation

Editing the core region in HPFH deletions alters fetal and adult globin expression for treatment of [beta]-hemoglobinopathies

Early PSA change after [177Lu]PSMA-617 radioligand therapy as a predicator of biochemical response and overall survival

Cardiac regeneration and tumor growth - what do they have in common?

Blind normalization of public high-throughput databases

Pattern formation and synchronization in excitable systems under the influence of spatiotemporal colored noise

Alteration of proteotranscriptomic landscape reveals the transcriptional regulatory circuits controlling key-signaling pathways and metabolic reprogramming during tumor evolution

Understanding the mTOR signaling pathway via mathematical modeling

Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles

Extrazelluläre Effekte des Ca2+-bindenden Proteins S100A1 : grundlegende Experimente zur Morphologie und Funktion neonataler Kardiomyozyten in Abhängigkeit der Kulturbedingungen

Canonical BMP signaling executes epithelial-mesenchymal transition downstream of SNAIL1

Microglia modulate TNF[alpha]‐mediated synaptic plasticity

BRAFV600E drives dedifferentiation in small intestinal and colonic organoids and cooperates with mutant p53 and Apc loss in transformation

Editing the core region in HPFH deletions alters fetal and adult globin expression for treatment of [beta]-hemoglobinopathies

Early PSA change after [177Lu]PSMA-617 radioligand therapy as a predicator of biochemical response and overall survival

Cardiac regeneration and tumor growth - what do they have in common?

Related objects

Reset password