Chemical Biology Consortium Sweden
The mission of Chemical Biology Consortium Sweden (CBCS) is to provide a state-of-the-art platform and expertise for the generation of high-quality bioactive chemical tools (small organic molecules) for applications within life science research in general and with the ultimate goal to explore complex biology. For more information, visit the CBCS external webpage.
CBCS was established in 2010 as a nation-wide infrastructure for chemical biology research consisting of two units, one at Karolinska Intitutet, LCBKI, and the other at Umeå University, LCBU. In 2012 CBCS became an integrated platform at SciLifeLab. In 2022, CBCS recieved support from the Swedish Research Council as a prioritized national infrastructure and is expanding its services to include local access nodes at Lund, Gothenburg, Linköping, and Uppsala Universities. Each university bring their own expertise in new techniques, for example phenotypic profiling using cell painting at UU, screening of ion channels at LiU, biosafety level 3 screening at KI and LiU (and UmU in the future), and increased our contacts with AstraZeneca through University of Gothenburg.
Our units comprise compound handling labs (hosting the SciLifeLab Compound Collection of ca 350,000 molecules), screening labs (microtiter format liquid handling robotics and a wide range of plate readers), and chemistry labs (equipment and instrumentation for organic chemistry synthesis and analysis). CBCS coordinates, and makes available, a powerful and integrated platform for the discovery, development and utilization of small-molecules and chemical tools for life-science application. We provide expertise support and experimental resources within assay development, computational chemistry, cheminformatics, chemical library screening and development, medicinal/synthetic chemistry, target identification.
Services
- Access to small-molecule compound libraries and robotic instrumentation
- Expertise in assay development and automation
- High-throughput screening: biochemical target-based, cell-based and phenotypic
- High-throughput imaging technology
- Expertise in screening for antimicrobial compounds and plant-based screens
- Hit identification and optimization
- Computational chemistry and modelling
- Medicinal chemistry expertise
- Chemical proteomics & target identification of small molecule ligands
- Mechanism of Action studies
- The Drug Repurposing set from SPECS is now available through Compound Center
For more Information on our available services, visit our website.
Applications
CBCS works according to a collaborative research model based on mutual commitment from our group and the involved Investigator.
For more substantial projects, a formal process initiated by an application is implemented to ensure that resources are prioritized based on transparent criteria, such as scientific excellence, novelty, technical feasibility and relevance. Our Project Review Committee (PRC) consists of CBCS-independent experts in the chemical biology research field, also including industry representation.
Upcoming dates for Project Review Committee (PRC) meeting and the proposal submission deadline are published on our website www.cbcs.se
Nodes
The KI node comprise compound handling labs (hosting the SciLifeLab Compound Collection of ca 350,000 molecules), screening labs (microtiter format liquid handling robotics and a wide range of plate readers), and chemistry labs (equipment and instrumentation for organic chemistry synthesis and analysis). CBCS coordinates, and makes available, a powerful and integrated platform for the discovery, development and utilization of small-molecules and chemical tools for life-science application. We provides expertise support and experimental resources within assay development, computational chemistry, cheminformatics, chemical library screening and development, medicinal/synthetic chemistry, target identification.
BSL3 Biomedicum is a fully equipped facility performing a wide range of research activities with any pathogens that require biosafety level 3 laboratory. The facility is equipped with state-of-the-art equipment such as liquid-handling robotics, plate reader and flow cytometry and expertise staff specialized in high-throughput screening, as exemplified in Figure 1.
Contact details
Antonio Gigliotti Rothfuchs, BSL3 Director
antonio.rothfuchs@ki.se
Marjo-Riitta Puumalainen,BSL3 coordinator
marjo-riitta.puumalainen@ki.se
CBCS Umeå node
CBCS Umeå (former LCBU) has since 2006 assisted academic research groups, research institutes, and SMEs with the identification and development of bioactive small molecules.
CBCS Umeå is located at the Department of Chemistry, Umeå University and provides expertise support and experimental resources within assay development, computational chemistry, cheminformatics, chemical library screening and development, medicinal/synthetic chemistry, and target identification.
We have long expertise in phenotypic screening and a newly purchased high-content screening microscope from Molecular devises (ImageXpress). We have recently also invested in a High Throughput Flow Cytometry instrument, the Intellicyte IQue3. The IQue3 is an advanced flow cytometry platform that allows researchers to acquire and analyze high content, multiplexed assays needed to assess immune cell function by combining cell immuno-phenotyping, cell health, and secreted protein (cytokine) analysis in every well of a microtiter plate.
Personnel
Eric Chorell, Platform Scientific Director (Umeå)
Stina Berglund Fick, Head of Unit (Umeå)
Anna Eriksson
Weixing Qian
Cecilia Lindgren
Contact
- Erik Chorell, erik.chorell@umu.se
- Stina Berglund Fick, stina.berglund.fick@umu.se
CBCS Gothenburg node
Mail/Visiting address
Swedish NMR Centre at the University of Gothenburg
Medicinaregatan 5C
413 90 Gothenburg
Sweden
Mail address
Weixiao Yuan Wahlgren
Swedish NMR Centre at the University of Gothenburg
Box 465
405 30 Gothenburg
Sweden
Parcel delivery address
Weixiao Yuan Wahlgren
Swedish NMR Centre at the University of Gothenburg
Medicinaregatan 1G
413 90 Gothenburg
Sweden
Personnel
Göran Karlsson, Director
goran.karlsson@nmr.gu.se
Weixiao Yuan Wahlgren, contact person
weixiao.yuan.wahlgren@gu.se
Telephone 0706-296074
Ulrika Brath, staff scientist
ulrika.brath@nmr.gu.se
Services provided
- Consulting with compound screening and drug discovery
- Assay development
- Small molecule screening (phenotypic and target based)
- Fragment based screens using NMR spectroscopy
- Hit confirmation and guidance for hit molecule optimization
- Hit complex assessment: macromolecular target structure and dynamics
Infrastructure Gothenburg
- NMR spectrometers for fragment based screens: 800 MHz, 3 mm TCI probe; 700 MHz, 5 mm 19F probe; 600 MHz, 5 mm TCI, 19F and 1H detection optimized, cooled SampleJets
- NMR spectrometers for hit conformation with macromolecular targets: 400 – 900 MHz
- Pipetting robots: Bruker SamplePro Tube L., Single channel, four cooled positions; Agilent Bravo, 96 channels, one cooled position, shaker, magnet position; Opentrons OT-2, multiple dispense, Two single channel pipettes, two cooled positions,
- Plate reader (96), SpectraMax® iD5
- Cell culture lab, CO2 incubator, light microscope, centrifure, cell dispenser etc.
- Maybridge and Bionet small molecule libraries with NMR annotation. In total 1200 compounds.
- CBCS compounds libraries on demand.
Phenotypic Profiling using Cell Painting
Phenotypic profiling of cells by high-throughput high-content microscopy allows for the identification of morphological changes in the cell that are indicative, for instance, of the mode of action (MoA) of a drug, novel compound or biological.
Morphological changes in the cell can be measured using two major approaches: 1) making use of image analysis software (e.g. Cell Profiler) to identify and segment the cells, and subsequently extracting selected cellular features, and 2) using Deep Learning (DL) to extract relevant cellular features in an unbiased manner. Upon the extraction and selection of the morphological features, morphological profiles are generated that are unique per each cell type or perturbation. This is achieved through extensive analysis of the vast number of features extracted at a single cell level.
b) Experiments are carried out in our automated cell profiling lab.
Our node has extensive experience in large scale data handling and analysis, and we have built a complete IT infrastructure capable of storing and analyzing the large quantities of images and subsequent data generated from Cell Painting experiments.
We offer morphological profiling using Cell Painting as a service, including:
- Cell Painting protocol optimization for a given cell line.
- Cell Painting experiments carried out using our automated lab.
- The necessary cell culture work.
- Automated imaging, image and data analysis, and visualization.
Personnel
- Jordi Carreras-Puigvert, Head of Unit
- Ola Spjuth, Platform Scientific Director Uppsala
- Malin Jarvius, Node Manager
- Martin Johansson, Researcher
Contact
- Jordi Carreras-Puigvert (jordi.carreras.puigvert@farmbio.uu.se)
- Malin Jarvius (malin.jarvius@farmbio.uu.se)
- Visiting address: BMC, Husargatan 3, Uppsala
Mail/Visiting address
Lund University
Chemical Biology & Therapeutics
BMC D10, Sölvegatan 19
22184 Lund
Sweden
Parcel/delivery address
Lunds universitet – BMC godsmottagning D09
Fredrik Ek, D10
Baravägen 18
222 41 Lund
Sweden
Personnel
Roger Olsson, Platform Scientific Director
Roger.Olsson@med.lu.se
Fredrik Ek, contact person
Fredrik.ek@med.lu.se
Telephone 0727-172205
Martin Hjort
Martin.Hjort@med.lu.se
Services provided
- Consulting within drug discovery and medicinal chemistry
- Assay development
- Small molecule screening (phenotypic and target based)
- HTS-imaging
- Hit confirmation and analysis and guidance for further development
- Novel cell transfection method using in house developed NanoStraw technique for gene editing of sensitive cells
Infrastructure Lund
- Agilent screening system with Bravo pipetting robotic (96 and 384 wells plate format), BenchCel and PlateLoc.
- Multidrop dispenser
- HTS-imaging and plate reader Tecan Spark Cyto 400 with incubator function
- Small molecule libraries of approved drugs, annotated tool compounds and commercial none-biased compounds. In total 8000 compounds.
- CBCS compounds libraries on demand.