University of Helsinki Life Science Research Infrastructures are available to internal and external users as HiLIFE platforms providing technologies and services as detailed within each platform.
The Helsinki In Vivo Animal Imaging Platform (HAIP) hosts high-quality in vivo animal imaging research infrastructures at the University of Helsinki. In vivo animal imaging enables non-invasive dynamic analysis of physiological and pathological processes in animals in vivo. It can be utilized in basic and translational research in life sciences, e.g. in neuroscience, cancer research, in studying cardiovascular and metabolic diseases, in veterinary sciences and in drug development.
The multimodal imaging infrastructures under HAIP include: Optical and US imaging from fish to larger animals, SPECT and PET imaging of rodents and larger animals, including production of the required radiotracer, MRI imaging of larger animals and microtomography of tissue microstructures. The nine life science infrastructures (LSRIs) are located in Meilahti, Viikki and Kumpula campuses. For detailed information, contact the corresponding principal investigators or the overall platform coordinators: Anu Airaksinen (firstname.lastname@example.org, chair) and Pipsa Saharinen (email@example.com, vice-chair).
Instruct-HiLIFE provides solutions to integrated structural cell biology research questions. It is located in Viikki campus with a unique set of complementary services supporting high quality research at the University of Helsinki, other universities and institutions. Instruct-HiLIFE provides services in high-resolution cryoelectron microscopy and image reconstruction (cryoEM; Prof. Sarah Butcher), virus and macromolecular complex production and purification (ICVIR; Prof. Emeritus Dennis Bamford and Docent Minna Poranen), nuclear magnetic resonance (NMR; Docent Hideo Iwai), and X-ray crystallography (Docent Tommi Kajander). Instruct-HiLIFE is part of a national network Instruct-FI (Instruct = Integrated Structural Biology Research Infrastructure) that coordinates the infrastructure, training, and courses in the area of structural biology in Finland. For detailed information, contact the corresponding principal investigators or the Instruct-FI coordinators: Hanna Oksanen (hanna.oksanen(at)helsinki.fi) or Katri Eskelin (katri.eskelin(at)helsinki.fi).
The Helsinki University Biodiversity Collections Research Infrastructure HUBCRI joins and digitises biodiversity collections of the University and provides them as material and data to the research community through a single portal (species.fi). The collections include botanical, zoological, and microbiological collections of preserved or live specimens; genomic resource collections in these fields; palaeontological collections; and large datasets on observations of species occurrences. The resources serve a multitude of fields, such as systematics, evolution, evo-devo, ecology, palaeo-ecology, biogeography, conservation biology, microbiology, biotechnology, archaeology, and plant breeding, as well as numerous applications of these. HUBCRI was established as a platform in 2016, and the services are still developing. Currently species.fi distributes c. 27 million datapoints of plants, fungi, and animals as open data, and fossils and microbial collections are being added as of late 2017.
GM unit at HiLIFE University of Helsinki operates in Viikki campus and provides services related to generation, archiving and maintenance of genetically modified rodent models. As a part of national Biocenter Finland Model Organisms infrastructure network & technology platform we represent range of techniques of which rat transgenesis, cryopreservation and rederivation are uniquely mastered only at our GM core facility in Helsinki. For further information and inquiries, please contact the head of GM unit Satu Kuure (firstname.lastname_at_helsinki.fi). The entire personel of the unit can be contacted via gm-unit_at_helsinki.fi.
Hi-Fly provides Drosophila research-related services to support all scientists at the University of Helsinki. Hi-Fly provides reliable and cost-efficient fly food production and maintains up-to-date information about fly stock collections used for research and education. Hi-Fly also provides technical support to groups, which are not previously familiar with Drosophila research.
Light Microscopy core facilities provide expertise and state-of-the-art equipment for modern multidimensional biological and biomedical imaging applications.
HGI integrates three genome analysis and two bioinformatics research infrastructures at University of Helsinki to provide state-of-the-art genomics and transcriptomics services.
The services currently offered by the platform:
•De novo and re-sequencing of genomes; •Targeted genome sequencing (exomes, custom targets); •Transcriptome sequencing, NGS based gene expression analysis; •Targeted transcriptomics analysis by NGS, microarrays and qRT-PCR; •High throughput array-based genotyping; •Copy number analysis by NGS and arrayCGH; •Metagenomics; •Bioinformatics best practise workflows and web-services for NGS; •Advanced bioinformatics analysis
The platform is constantly setting up new applications and welcomes collaborative development projects supporting molecular biology and biomedical research.
The coordination of our genomics services is based on the focus areas and expertise of the units:
FIMM units: human and model organism genomics, transcriptomics, and systems/personalized medicine services
Viikki units: plants, non-model organisms, metagenomics and de novo genome projects and analysis of genomes without reference sequence
FuGU: transcriptome analyses and targeted genomics services including different DNA and RNA applications
The Flow Cytometry Unit at University of Helsinki integrates three flow cytometry core facilities located at the Meilahti and Viikki campuses. We offer state-of-art analyzing and sorting flow cytometers for university-associated and external researchers. As a customer you have the option to come for training and become an independent user or order your run as a service.
The Biomedicum flow cytometry unit is located at the Meilahti campus and hosts 3 sorters (FACSAria IIu, Sony SH800z and Influx), two analyzers (BD Accuri, Gallios (from Dec. 2017)) and a tissue homogenizator (gentleMACS Dissociator).
At the Viikki campus, 2 analyzers (LSR and LSRFortessa) are available in the Biocenter flow cytometry unit and one cell sorter (FACSAria II) in the Flow cytometry Viikki sort unit.
GoEditStem platform integrates five functional genomics life science research infrastructures at University of Helsinki. GoEditStem provides state-of-art services and products aiming to facilitate researchers to capture latest advances in the field of functional genomics and stem cell biology.
The current GoEditStem services and products include:
- virus transduceable genome-scale reagents, including human and mouse shRNA, cDNA/ORF and CRISPR libraries
- ORF cloning services from genome-scale ORF library
- recombinant adeno-associated, retro- and lentiviral particles for gene transfer
- managed BSL2 facility and biosafety training for viral work
- locally derived human embryonic and pluripotent stem cell lines and induced pluripotent stem cell (iPSC) lines from cells provided by the client
- IHC slide scanning and high-content screening service
For shRNA and CRISPR library products, retro- and lentiviral particles and BSL2 training and use, visit FuGU and BVC. For AAV particles visit AAV Gene Transfer and Cell Therapy Core Facility. For ESC and iPSC lines visit BSCC. For ORF cloning services, ORF library constructs, IHC slide scanning, and high-content screening services visit GBU.
CoBra consists of a methodological palette with complementary and interlinked components, being an ideal center for non-invasively investigating a wide range of in vivo human cognitive brain function and its deficits. CoBra is hosted by experts of the human mind, brain diseases, learning, communication, development, and engineering, promoting its professional implementation and use as well as providing a platform for its continuous interdisciplinary development. Due to its cutting-edge brain research instruments, the personnel with a multidisciplinary expertise, its location in the hospital environment, and its world-wide unique know-how in, e.g., infant and brain disease studies, it can serve a wide range of users. The LSRIs belonging to CoBra are Cognitive Brain Research Unit (CBRU), BioMag Laboratory, and BAby Brain Activity Center (BABA).
HiLAPS platform consists of four core-facility units with histotechnology, digital slide scanning, laboratory animal pathology and tissue analysis expertise. We provide joint services for tissue processing, digitization and analysis.
FCLAP offers veterinary pathology expertise for laboratory animals, histotechnological services and immunohistochemistry; in conjunction, the division of veterinary anatomy operates the laser microdissection instrument.
TPHU specializes in routine paraffin sectioning and staining services in Meilahti, as well as immunohistochemistry and in situ hybridization for slides, wholemount samples and free-floating sections.
FIMM provides fluorescence and high-resolution slide scanning and solutions for digitized slide management, focusing on translational research based on computerized analysis of digitized tissue samples, multiplexed immunohistochemistry and crosslinked patient data.
BI supplies bright field whole slide digital scanning services, manages histology lab facilities and services in Viikki, and specializes in CNS image investigation, neuronal stereology consulting and neuronal morphology analysis (contact: mikko.airavaara(at)helsinki.fi; nicolas.di-poi(at)helsinki.fi).
Single-Cell omics platform aims at bringing the latest single cell omics tools available for the research community. Services based on novel instruments are now available for single cell genomics and single cell proteomics to enable cutting-edge research in many areas of molecular biology and molecular medicine.
For single cell genomics InDrop™ and DropSeq™ systems enable tens of thousands of individual cells to be transcriptionally profiled in straightforward, inexpensive experiments. For high throughput single cell RNAseq experiments we provide robust services on Chromium™ instrument by 10X Genomics with the possibility of 8 parallel samples per run. The Fluidigm Polaris™ system enables to select targeted single cells from cell samples and hold them in environmentally controlled reaction chambers enabling perturbations with RNAseq readout. In addition to above mentioned services we are continuously developing new customized assays for single cell genomics.
For single cell proteomics we will provide services on Fluidigm Helios™, a system based on mass cytometry, which has catalyzed the revolution of single cell proteomics enabling the comprehensive understanding of cell phenotypes and function.
RESTAT UHEL offer world class logistics and support for research and teaching year round. The stations provide long term environmental background data sets from the Baltic Sea to the north of Finland. The modern infrastructure supports a wide variety of research, from field studies to laboratory analyses including accommodation and catering services.
TZS is a marine station located at the entrance to the Gulf of Finland and offers an easy access to complex coastal habitats in the northern Baltic Sea. TZS serves as a centre for a large variety of high quality biological research and offers facilities for field courses and seminars. LBS facilitates university courses and research projects in the biological and environmental sciences and other disciplines. LBS has an especially strong history in aquatic research and research related to environmental change with a well-equipped aquatic laboratory and skilled personnel The KILPIS promotes biological and geographical research in the north, and provides students of biology and geography with information about natural phenomena. Easily, safely and inexpensively accessible mountain birch forest and alpine zones at 69°N. HFFS was originally established as a forestry station but nowadays encompasses a wide array of international interdisciplinary research at multiple scales of ecosystems and atmosphere. Continuous monitoring of forest, lake and peatland processes and atmospheric variables. MUDDUS operates with ca. 13 hectares of field, 700 ha of forest and a 1000 ha lake area. The usage of the station is project based and concentrates to the summer time.
The Protein and Proteome network Helsinki (PPN Helsinki) provides access to cutting-edge services and knowledge in proteomics and protein characterization. The PPN Helsinki services are accessible to all researchers in the Life Sciences locally, nationally and internationally. Our services include both basic and advanced proteomics analyses; peptide and protein top-down and bottom-up analyses, high-throughput quantitative proteomics, post-translational modification (PTM) analyses, glycoproteomics and glycan analyses, interactomics and x-linking structural proteomics, pathway analyses, MSe (DIA) with ion-mobility analyses, label-free and absolute quantitation, imaging mass spectrometry in 1- and 2-dimensions, nano-surface micro-chip based 2-dimensional MS proteomics, MALDI-MS, CE-MS, IEF, 1- and 2-D Gel based proteomics, 2-D-nano-UHPLC, UHPLC, regular HPLC protein and peptide purifications (micro- and large scale, preparative), GLP-validated industrial sample analysis with QC documentation (FIMEA/EMEA level).
The HiLIFE Metabolomics Platform (Metabo-HiLIFE) comprises of FIMM Meta, ViMU, and HiLIPID LSRIs, and offers complementary analytical services. FIMM Meta offers high-throughput global, targeted and quantitative metabolomics, lipidomics; and fluxomics services to basic, biomedical, and (pre)-clinical researchers. Hundreds of metabolites and 1000 lipids from many different biological classes can be analysed in various types of samples from human, animal models, C. elegans, drosophila, yeast etc. ViMU provides MS-based analytical services mainly for plant research community and pharmacy. Focus of the unit has been on both non-targeted metabolite profiling and targeted, quantitative analysis. One of the most important aspects is the discovery of novel secondary metabolites/signaling molecules from various plant species, microbes and fungi. HiLipid offers analytical services for lipids, fatty acids and their derivatives in animal and human tissues, cells and fluids for mechanistic biomedical and ecological research. HiLipid provides novel methodology to study lipid metabolism based on the use of labeled precursors, which brings an additional, highly informative dimension to lipidomics.
The Viikki Research Farm (VRF) is centrally located on the Viikki Campus providing core research farm services for research and educational needs of the university faculties. VRF is a part of the INAR RI networks and the ANAEE-Finland infrastructures. VRF includes 153 ha arable land with known background information, such as the soil type, nutrient status and cultivation history of the fields, and a research barn including 60 to 70 high-merit dairy cows with young stock. The farmland is cultivated under regulations of European Union environmental subsidies. Common cultivation methods by utilizing modern machinery and technology are used. Part of the farmland is used for a plant production field test area varying between 10-20 hectares per year. Rest of the farmland is used for feed production, of which half is on silage production and grassland for grazing. The research barn includes places for cows in free-stall barn equipped with robotic milking and automatic individual feed intake recording system, and individual places for cows with an up-to-date research facilities for physiological dairy cow studies.