Alliance Explore!Tech

Cell surface proteome characterization in early pancreatic carcinogenesis using mass-spectrometry and RNA sequencing
Patrick Michl, Medical Faculty Heidelberg, Heidelberg University + Uddipta Biswas, Medical Faculty Heidelberg, Heidelberg University + Marcin Luzarowski, UniHD + David Ibberson, Heidelberg University Deep Sequencing Core Facility

Engineered micro system to study microtubule regulators
Maiwen Caudron-Herger, DKFZ + Ulrike Engel, Heidelberg University Nikon Imaging Center

“EpigeNADics” – Understanding the role of the cofactor NAD in epigenetic alterations
Mirja Tamara Prentzell, DKFZ + Christiane Opitz, DKFZ + Sophie Seifert, DKFZ + Jennifer Schwarz, EMBL Proteomics Core Facility

High-resolution spatial transcriptomics to profile early human neural progenitors
Annarita Patrizi, DKFZ + Lucas Schirmer, Medical Faculty Mannheim, Heidelberg University + Denis Schapiro, Medical Faculty Mannheim, Heidelberg University + Jan-Philipp Mallm, DKFZ Single Cell Open Lab

Identification of sepsis endotypes based on immune cell transcriptomes in single cell resolution
Judith Schenz, Medical Faculty Heidelberg, Heidelberg University + Markus Weigand, Medical Faculty Heidelberg, Heidelberg University + David Ibberson, Heidelberg University Deep Sequencing Core Facility

Lipid codes of extracellular vesicle membranes
Lothar Dieterich, Medical Faculty Mannheim, Heidelberg University + Bernhard Drotleff, EMBL Metabolomics Core Facility (MCF)

Mapping IgA nephropathy at single cell resolution
Louisa Gerhardt, Medical Faculty Mannheim, Heidelberg University + Julio Saez-Rodriguez, Medical Faculty Heidelberg, Heidelberg University + Jan-Philipp Mallm, DKFZ Single Cell Open Lab

Metabolomic profiling of patients with sepsis and septic shock
Michael Behnes, Medical Faculty Mannheim, Heidelberg University + Thomas Bertsch, Medical Faculty Mannheim, Heidelberg University + Moritz Schmidberger, Medical Faculty Mannheim, Heidelberg University + Gernot Poschet, Heidelberg University Metabolomics Core Technology Platform

Modulating chemotherapy response in AML through vitamin B2 starvation
Hamed Alborzinia, DKFZ + Daniel Hübschmann, DKFZ + Gernot Poschet, Heidelberg University Metabolomics Core Technology Platform

Neuronal circuit all-optical programming environment
Andrey Formozov, Medical Faculty Mannheim, Heidelberg University + J. Simon Wiegert, Medical Faculty Mannheim, Heidelberg University + Inga Ulusoy, Heidelberg University Scientific Software Center (SSC), IWR

Pharmacokinetics and metabolomic fingerprinting of insecticides used in vector control
Victoria Ingham, Medical Faculty Heidelberg, Heidelberg University + Justin Crocker, EMBL + Carsten Hopf, Medical Faculty Mannheim, Heidelberg University, Center for Mass Spectrometry and Optical Spectroscopy

Pushing the limits with spatially-driven low-input multi-omics
Sinem Saka, EMBL + Dominic Helm, DKFZ Proteomics Core Facility

Read twice: T cell phenotypic and receptor mapping across space
Lukas Bunse, DKFZ + Miriam Ratliff, Medical Faculty Mannheim, Heidelberg University + Felix Sahm, Medical Faculty Heidelberg, Heidelberg University + Philipp Mallm, DKFZ Single Cell Open Lab

Spatial mapping of the bone marrow niche remodeling in hematological (pre-)malignancies
Judith Zaugg, EMBL + Caroline Pabst, Medical Faculty Heidelberg, Heidelberg University + Borhane Guezguez, DKFZ + Philipp Mallm, DKFZ Single Cell Open Lab

Spatial neuro-metabolomic fingerprinting for the identification of psychedelic drug actions
Marcus Meinhardt, ZI + Carsten Hopf, Medical Faculty Mannheim, Heidelberg University, Center for Mass Spectrometry and Optical Spectroscopy

STRETCH-HEART: A biomimetic microfluidic chip for maturing multicellular cardiac tissue with integrated electrophysiological stimulation
Daniela Duarte Campos, Heidelberg University + Constanze Schmidt, Medical Faculty Heidelberg, Heidelberg University + Oscar O’Dwyer Lancaster-Jones, Heidelberg University + Sadaf Pashapour, Heidelberg University Scientific Core Facility for Microfabrication and Microfluidics

The relevance of intermediate monocytes in the genesis of organic dysfunction after congenital heart surgery
Matthias Gorenflo, Heidelberg University + Moritz Merbecks, Heidelberg University + Tsvetomir Loukanov, Heidelberg University + Steffen Schmitt, DKFZ Flow Cytometry Core Facility

The role of endothelial Sox9 in aging-induced cardiac failure
Felix Armin Trogisch, Medical Faculty Mannheim, Heidelberg University + Gernot Poschet, Heidelberg University Metabolomics Core Technology Platform

Thermal stability-assisted pY-ome
Gianluca Sigismondo, Medical Faculty Heidelberg, Heidelberg University + Mikhail Savitski, EMBL Proteomics Core Facility

X-Clarity for automated tissue clearing and lightsheet microscopy in neurooncology
Matthia Andrea Karreman, Medical Faculty Heidelberg, Heidelberg University + Michael O. Breckwoldt, Medical Faculty Heidelberg, Heidelberg University + Felix Bestvater, DKFZ Light Microscopy Core Facility

A comprehensive fluorophore library for imaging Plasmodium falciparum
Julien Guizetti, Medical Faculty Heidelberg, Heidelberg University + Markus Ganter, Medical Faculty Heidelberg, Heidelberg University + Gautam Dey, EMBL + Claire Deo, EMBL Chemical Synthesis Core Facility (CSCF)

Advancing spatial transcriptomics for Drosophila: A novel approach to enhance resolution and accuracy
Josephine Bageritz, Heidelberg University + Eileen Furlong, EMBL + Lukas Marthur, EMBL MULTI-SPACE platform of the Innovation Campus

Combining padlock probe-based RNA detection with protein and DNA readouts into a flexible, fully controllable spatial omics methodology (Padlock Plus ‘X’)
Giriram Mohana, EMBL + Yulia Ermakowa, EMBL + Anne Rademacher, DKFZ + Rainer Pepperkok, EMBL Advanced Light Microscopy Core Facility

Deciphering metastasis in pancreatic cancer
Sebastian Schölch, Medical Faculty Heidelberg, Heidelberg University + Johanna Betzler, DKFZ + Jan-Philipp Mallm, DKFZ Single Cell Open Lab

Diagnosis of Systemic Lupus Erythematosus Nephritis using Nuclear Magnetic Resonance Metabolomics
Margarida Souto-Carneiro, Medical Faculty Heidelberg, Heidelberg University + Karolina Gente, Medical Faculty Heidelberg, Heidelberg University + Jürgen Graf, Heidelberg University NMR-Service

Establishing an end-to-end Seq-Scope platform for high-resolution spatial transcriptomics
Denis Schapiro, Medical Faculty Heidelberg, Heidelberg University + Florian Leuschner, Medical Faculty Heidelberg, Heidelberg University + Arica Beisaw, Medical Faculty Heidelberg, Heidelberg University + Bianka Berki, Heidelberg University Deep Sequencing Core Facility

High-resolution light-sheet microscopy for imaging of early mammalian development
Jan Ellenberg, EMBL + Thomas Strowitzki, Medical Faculty Heidelberg, Heidelberg University + Timo Zimmermann, EMBL Imaging Centre

Identification of a first generation of small molecule inhibitors of the Hsp70 disaggregase as novel therapeutic approach to slow down the progression of neurodegeneration
Bernd Bukau, Heidelberg University + Ulrike Uhrig, EMBL Chemical Biology Core Facility (CBCF)

Inference of animal life history strategies from organismal-scale single-cell transcriptomics
Hanh Vu, EMBL + Stephan Wolf, DKFZ Genomics and Proteomics Core Facility

Molecular characterization of circulating cancer-associated fibroblasts (cCAFs) in pancreatic cancer and metastasis
Lei Zhu, DKFZ + Karen Bieback, Medical Faculty Mannheim, Heidelberg University, Flow Cytometry Core Facility Mannheim

Non-invasive oxytocin gene expression imaging using gas vesicles as a contrast agent
Eduard Maier, ZI + Rachel Mellwig, EMBL Electron microscopy core facility (EMCF)

Quantifying chromatin fibers across entire regulatory regions at single molecule resolution
Ralph Grand, Heidelberg University + Izlem Su Akan, Heidelberg University + Martina Capriati, Heidelberg University + Vladimir Benes, EMBL Genomics Core Facility (GeneCore)

Screening platform for assessing intra-tumor heterogeneity in 3D artificial tumors
Aldo Leal-Egaña, Heidelberg University + Thomas Ruppert, Heidelberg University Core Facility for Mass Spectrometry & Proteomics + Karen Bieback, Medical Faculty Mannheim, Heidelberg University, Flow Cytometry Core Facility Mannheim

Simultaneous measurement of past and present promoter‐enhancer interactions and associated proteins
Angelika Feldmann, DKFZ + Arnaud Krebs, EMBL + Jan-Philipp Mallm, DKFZ Single-cell Open Lab

Single cell analysis of host-microbiota interactions
Mohammad Rahbari, DKFZ + Mathias Heikenwälder, DKFZ + Georg Zeller, EMBL + Jan-Philipp Mallm, DKFZ Single-cell Open Lab

Smart IoT-based passive bioacoustic monitoring of site-specific co-presence and diversity of avian and mammalian zoonotic wildlife hosts and humans: Proof-of-Concept and Pilot
Joacim Rocklöv, Heidelberg University + Claudia Denkinger, Medical Faculty Heidelberg, Heidelberg University + Marina Treskova, Heidelberg University + Inga Ulusoy, Heidelberg University Scientific Software Center (SSC), IWR

Spatial analysis of multiplexed RNA and protein detection (STARnP)
Martina Seiffert, DKFZ + Denis Schapiro, Medical Faculty Heidelberg, Heidelberg University + Jan-Philipp Mallm, DKFZ Single-cell Open Lab

Spatial mapping of gene regulatory networks driving histological transformation of follicular lymphoma
Sinem Saka, EMBL + Judith Zaugg, EMBL + Sascha Dietrich, Medical Faculty Heidelberg, Heidelberg University + Jan-Philipp Mallm, DKFZ Single-cell Open Lab

Spatial transcriptomics for characterization of microenvironmental interactions in CAR-T cell therapy
Marc-Steffen Raab, Medical Faculty Heidelberg, Heidelberg University + Alexandra Maria Poos, Medical Faculty Heidelberg, Heidelberg University + Jan-Philipp Mallm, DKFZ Single-cell Open Lab

The role of spliceome in skeletal muscle insulin resistance
Thomas Fleming, Medical Faculty Heidelberg, Heidelberg University + Julia Szendroedi, Medical Faculty Heidelberg, Heidelberg University + Ekaterina von Rauchhaupt, Medical Faculty Heidelberg, Heidelberg University + Dominic Helm, DKFZ Proteomics Core Facility

Uncovering metabolic vulnerabilities in primary and metastatic Ewing sarcoma
Kimberley Hanssen, DKFZ + Thomas Grünewald, DKFZ + Gernot Poschet, Heidelberg University Metabolomics Core Technology Platform

Virtual assessment of interpersonal predictors of aggressive and cooperative behavior
Christoph Korn, Medical Faculty Heidelberg, Heidelberg University + Kornelius Kammler-Sücker, ZI Center for Innovative Psychiatric and Psychotherapeutic Research (ZIPP)

Cellular stress management – uncovering mitochondrial stress signaling pathways in the neuronal system – MitoPhosOn
Nina Bonekamp, Medical Faculty Mannheim, Heidelberg University + Marcin Luzarowski, Core Facility for Mass Spectrometry and Proteomics (CFMP), Heidelberg University

T cell receptor clonality analysis by spatial transcriptomics – CloneSpace
Christel Herold-Mende, Medical Faculty Heidelberg, Heidelberg University + Martina Seiffert, DKFZ + Niels Weinhold, Medical Faculty Heidelberg, Heidelberg University + Jan-Philippe Mallm, Vizgen Merscope System, Innovation Campus Multi-Space Hub BioQuant, DKFZ

Multi-modal spatial transcriptomics of liver tissue during disease to map microenvironment interactions, infiltrating bacteria and virus infection – LiverMap
Carl Herrmann, Medical Faculty Heidelberg, Heidelberg University + Mathias Heikenwälder, DKFZ + Karsten Rippe, DKFZ + Georg Zeller, EMBL + Jan-Philippe Mallm, Single-cell Open Lab, DKFZ and Bioquant, Heidelberg University

MetAbolomics pIpeliNe For Rare inborn errors of Amino acid Metabolism – MAINFRAME
Sabine Jung-Klawitter, Medical Faculty Heidelberg, Heidelberg University + Gernot Poschet, Metabolomics Core Technology Platform, Heidelberg University

Visualization of Large 3D Tissue Samples – ViLTiS
Kai Melde, Heidelberg University + Dimitris Missirlis, Heidelberg University + Peer Fischer, Heidelberg University + Felix Bestvater, Light Microscopy Core Facility, DKFZ

Level-up: Alliance research infrastructure scientists education – 2RISE
Rainer Pepperkok, EMBL + Tanja Nincovic, EMBL + Elisa May, DKFZ + Gernot Poschet, Heidelberg University + Georg Stoecklin, Core Facility Platform Mannheim (CFPM), Medical Faculty Mannheim, Heidelberg University + Gabriele Ende, ZI

Development of a functional genomics platform:  Joint profiling of chromatin accessibility and gene expression from the same nucleus using combinatorial indexing and overloading – Jointpro
Kyung-Min Noh, EMBL + Jan-Philippe Mallm, Single-cell Open Lab, DKFZ and Bioquant, Heidelberg University

Discovery of metabolic pathways with diagnostic and therapeutic implications in critically ill patients with sepsis-induced acute kidney injury – Discom
Christian Nusshag, Medical Faculty Heidelberg, Heidelberg University + Gernot Poschet, Metabolomics Core Technology Platform, Heidelberg University

The Dipeptide-Ome in Health and Disease – Unraveling far-reaching impact of neglected metabolites – Diptome
Verena Peters, Medical Faculty Heidelberg, Heidelberg University + Claus Peter Schmitt, Medical Faculty Heidelberg, Heidelberg University + Gernot Poschet, Metabolomics Core Technology Platform, Heidelberg University

Quantitative detection of oxidized nucleotides by UPLC-MS/MS – OxiNucleo
Stephanie Roessler, Medical Faculty Heidelberg, Heidelberg University + Gernot Poschet, Metabolomics Core Technology Platform, Heidelberg University

Development of microfluidic chips to model human peripheral nociceptive neuron–glia interactions in vitro – DEV-Micro
Katrin Schrenk-Siemens, Medical Faculty Heidelberg, Heidelberg University + Claudio Acuna, Medical Faculty Heidelberg, Heidelberg University + Sadaf Pashapour, Scientific Core Facility for Microfabrication and Microfluidics, Heidelberg University

A novel highly efficient protocol for high-throughput studies of RNA and RNA-binding proteins interactome – DiCLIP
Konstantinos Stellos, Medical Faculty Mannheim, Heidelberg University + Vladimir Benes, GeneCore Facility, EMBL

Combining Immuno-SABER and STED microscopy for studying the Cancer Neuroscience of gliomas with multiplexed superresolution – SABER_STED
Varun Venkararamani, Medical Faculty Heidelberg, Heidelberg University + Sinem Saka, EMBL + Stefan Terjung, Advanced Light Microscopy Facility (ALMF), EMBL

Metabolic mechanisms underlying the cardioprotective effect of SGLT inhibitor therapy – MetAbol
Felix Wiedmann, Medical Faculty Heidelberg, Heidelberg University + Gernot Poschet, Metabolomics Core Technology Platform, Heidelberg University

Exon intron split analysis (EISA) of RNA sequencing as a tool to understanding immediate stress induced changes in 3D bioprinted organoids – EISA
Daniela Campos, Heidelberg University + Vladimir Benes, Genomics Core Facility, EMBL

Recombinant protein production for facilitating molecular investigations of non-classical model organisms – MODEL
Michael Dorrity, EMBL + Hanh Vu, EMBL + Gautam Dey, EMBL + Detlev Arendt, EMBL + Kim Remans, Protein Expression and Purification Core Facility, EMBL

Molecular mechanisms underlying enhancer function in gene activation – delMosaic-Seq
Angelika Feldmann, DKFZ + Ralph S. Grand, Heidelberg University + Jan-Philippe Mallm, Single-cell Open Lab, DKFZ and Bioquant, Heidelberg University

Explore!Tech for a streamlined seqFISH+ data processing pipeline – SEQFISH
Eileen Furlong, EMBL + Lukas Mathur, Genome Technology Development, EMBL

Establishing proof of concept low cost, automated, full-sequence plasmid validation supporting molecular biology across the Innovation Campus – CIRCUITSEQ
Edvard Green, Medical Faculty Mannheim, Heidelberg University + Liam Keegan, Heidelberg University + Kim Remans, Protein Expression and Purification Core Facility, EMBL + Liam Keegan, Scientific Software Center Support, Heidelberg University

Using OMG assembly for the generation of a yeast surface display suitable for FACS profiling of the autoimmune epitome in human sera – EPI
Michael Knop, Heidelberg University + Edvard Green, OMG Assembly Platform (Synthetic DNA Technology Platform), DKFZ / Medical Faculty Mannheim, Heidelberg University + Monika Langlotz, Flow Cytometry & FACS Core Facility (FFCF), Heidelberg University

Spatial proteomics by combining laser-capture microdissection and mass spectrometry. – LaserCap
Jeroen Krijgsveld, DKFZ + Stefan Terjung, Advanced Light Microscopy Facility, EMBL

EasyGrid: Advancing sample preparation for cryo-electron microscopy – EasyGrid
Simone Mattei, EMBL + EMBL Imaging Centre

Transcriptomics and proteomics to understand and target immune escape of senescent pulmonary myofibroblasts – FIBRO Wolfgang Merkt, Medical Faculty Heidelberg, Heidelberg University + David Ibberson, Deep Sequencing Lab BQ 40, Heidelberg University + Thomas Ruppert, Core Facility for Mass Spectrometry & Proteomics, ZMBH, Heidelberg University + Daniel Hübschmann, Computational Oncology, Molecular Diagnostics Program, NCT, Medical Faculty Heidelberg, Heidelberg University

Implementation of DNA-barcoded pMHC-I multimer reagents and single cell immune profiling with feature barcoding – DNABARC
Marten Meyer + Frank Momburg + Pornpimol Charoentong + Yanhong Lyu + Patrick Schmidt + Paula Roberti + Selina Börsig + Nadja Bulbuc + Inka Zörnig + Dirk Jäger, DKFZ + David Ibberson, Deep Sequencing Core Facility, Heidelberg University

The NAD-ome as a potential vulnerability of cancer cells – NAD
Christiane Opitz, DKFZ + Gernot Poschet, Metabolomics Core Technology Platform, Heidelberg University

Assessing the potential of the novel EM-Seq method to discover circulating tumor DNA methylation–based biomarkers for early detection of colorectal cancer: a pilot study – PILOT
Janhavi Raut, DKFZ + Vladimir Benes, Genomics Core Facility [GeneCore], EMBL

Serial Section TEM as UniHD – DKFZ Cross-Facility Service – TEM
Karsten Richter, Electronic Microscopy Core Facility, DKFZ + Charlotta Funaya, Electronic Microscopy Core Facility, Heidelberg University

SABER-MIBI for One-step Multiplexing with High Sensitivity
Sinem Saka, EMBL + Felix Hartmann, DKFZ + Jan-Philipp Mallm, Single-cell Open Lab, DKFZ and Bioquant, Heidelberg University

Validating single-cell transcriptomic tissue mapping in neuroinflammation – scTRANS
Lucas Schirmer, Medical Faculty Heidelberg, Heidelberg University + Julio Saez-Rodriguez, SlideSeq, Heidelberg University

Landscape of breast cancer immunogenicity, inferred by mass spectrometry derived spatial dynamics and multiomic data integration – BREAST
Andreas Schneeweiss, Medical Faculty Heidelberg, Heidelberg University + Felix Hartmann, DKFZ + Jan-Philipp Mallm, Single-cell Open Lab, DKFZ and Bioquant, Heidelberg University

In vivo flux measurements of energetic metabolites that “fuel” structural nervous system changes to drive chronic pain – FLUX
Jan Siemens, Medical Faculty Mannheim, Heidelberg University + Michael Büttner, Metabolomics Core Technology Platform, COS, Heidelberg University