scioCD - Cell Surface Marker and Cytokine Profiling

Characterize Your Cell Type!

Cell Composition Analysis in Tissue Samples

CD-Marker Expression Profiles

Increased Throughput at High Sensitivity Levels

High Reproducibility

 

 

 

Our scioCD profiling service covers 260 different proteins :


All these proteins can be analysed in parallel within a single experiment from minute sample amounts. Thereby, scioCD antibody array analysis service is ideally suited to investigate cell composition of tissues or the differentiation status of cultured cells in a highly parallel, fast and robust fashion. In addition, protein distribution in blood samples (plasma / serum) can be analysed efficiently, providing insights in the blood cell composition.

scioCD is a complete sample-to-result service for a variety of different sample types. The respective protocols were developed over a period of 15 years and are optimised towards highest possible sensitivity combined with high reproducibility (coefficients of variation below 10%).

 

 

Target
proteins       Analysis
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Applications

  • profiling of cell differentiation status
  • stem cell differentiation 
  • investigate soluble CD-molecules for e.g. allograft rejection
  • inflammatory response profiling
  • immuno-oncology profiling of check-point inhibitor targets
  • characterisation of tissue-isolated primary cells
  • immune-cell surface marker profiling on
    • various B-cells 
    • stimulated T-cells
    • patient derived T-cells
    • patient derived dendritic cells
  • oncology profiling for new biomarkers e.g. Leukemia
  • tumor micro-environment profiling
  • profile response to stimuli of cell lines
  • evaluate protein expression changes in silencing/overexpression  experiments
  

Advantages

  • high content - > up to 260 proteins are analysed
  • broad coverage and parallel analysis of
    • CD molecules 
    • cytokines and chemokines
    • other relevant molecules (HLAs, p53)
  • minimal sample requirements
  • native matrixes ( non-fractionated / non-depleted )
  • sensitivity as ELISA or better
  • fully immuno-based assay
  • reliable dual-colour study design
  • high reproducibility, CV < 10%
  • most proteins are covered redundantly by two or more antibodies
  • each antibody is presented in four replicates

 

 

Target list (version 1) for the scioCD protein profiling service

Extended version 2 to follow soon! Contact us for the updated target overview via e-mail at This email address is being protected from spambots. You need JavaScript enabled to view it.

 

CD Marker Gene name   CD Marker Gene name     Chemokine / Cytokine Gene name     Additional proteins Gene name
CD1a LEU6   CD50 ICAM3     GM-CSF CSF2     ANCA PRTN3
CD2 SRBC   CD52 HE5     IFN alpha IFNA1     BDNF BDNF
CD3 T3G   CD53 TSPAN25     IFN gamma IFNG     Cox1 PTGS1
CD4 LEU3   CD54 ICAM1     IL-1alpha IL1A     CYTL CYTL1
CD5 LEU1   CD55 DAF     IL-1beta IL1B     IgE FCER1A
CD6 TP120   CD56 NCAM1     IL-2 IL2     HLA I  
CD7 LEU9   CD57 B3GAT1     IL-4 IL4     HLA-ABC  
CD8 MAL   CD58 LFA3     IL-6 IL6     HLA-DP HLA-DPB1
CD9 MIC3   CD59 MIC11     IL-7 IL7     HLA-DQ  
CD10 MME   CD61 ITGB3     IL-8 CXCL8     HLA-DR  
CD11a ITGAL   CD62L SELL     IL-10 IL10     MPO MPO
CD11b ITGAM   CD62p SELP     IL-12B IL12B     NT-4 NTF4
CD11c ITGAX   CD63 TSPAN30     IL-13 IL13     NTAL LAT2
CD13 ANPEP   CD66a CEACAM1     IL-15 IL15     pan HLA-class II  
CD14     CD66b CEACAM8     IL-16 IL16     p53 TP53
CD15 FUT4   CD66c CEACAM6     IL-18 IL18     p72Syk SYK
CD16 FCGR3A   CD66d CEACAM3     IL-37 IL37     TRYG1 TPSG1
CD17     CD66e CEACAM5     LIF LIF     TSLPR CRLF2
CD18 ITGB2   CD69 CLEC2C     TNF alpha TNF     tTG TGM2
CD19 LEU12   CD70 TNFSF7     TSLP TSLP     VEGF VEGFA
CD20 MS4A1   CD71 TFRC                
CD21 CR2   CD72 Lyb-2     Eotaxin-1 CCL11        
CD22 SIGLEC2   CD79a MB1     MIP-1 alpha CCL3        
CD23 FCER2   CD80 LAB7     RANTES CCL5        
CD24     CD86 LAB72     MCP-2 CCL8        
CD25 IL2RA   CD95 FAS     MCP-3 CCL7        
CD27 TNFRSF7   CD97       MIP-4 CCL18        
CD28 TP44   CD98 SLC3A2                
CD29 ITGB1   CD99 MIC2                
CD30 TNFRSF8   CD105 ENG                
CD31 PECAM1   CD106 VCAM1                
CD33 SIGLEC3   CD116 CSF2RA                
CD34     CD117 KIT                
CD35 CR1   CD123 IL3RA                
CD36 GP3B   CD131 CSF2RB                
CD37 TSPAN26   CD137 TNFRSF9                
CD38 ADPRC 1   CD139                  
CD40 TNFRSF5   CD147 BSG                
CD41 ITGA2B   CD162 SELPLG                
CD42b GP1BA   CD177 NB1                
CD43 SPN   CD222 IGF2R                
CD44 MDU2   CD223 LAG3                
CD45 PTPRC   CD230 PRNP                
CD46 MCP   CD235a GYPA                
CD47 MER6   CD235b GYPB                
CD48 BCM1   CD253 TNFSF10                
CD49d ITGA4   CD274 PDL1                
      CD279 PD1                

 

Which sample types can be analysed ?

Within our scioCD analysis service the following samples can be analysed:

  • plasma / serum
  • fresh frozen tissue samples
  • cellular content
  • cell culture supernatant
  • cerebrospinal fluid (CSF)
  • additional sample types on request

  

Sample-to-result service

Within the analysis service, we will not only carry out the microarray experiments but also support you with a suggestion for an appropriate microarray study design as well as with the sample selection process in order to address your scientific question in the optimal way. Within 3-4 weeks after receipt of your samples you will receive a customised study report including a statistical analysis.

Our analysis service includes:

  • definition of an appropriate study design
  • sample preparation
  • protein extraction
  • protein concentration measurements
  • protein quality control
  • sample labelling
  • sample purification
  • incubation of the samples on antibody microarrays
  • microarray scanning
  • raw data acquisition
  • data normalisation
  • data analysis including cluster analysis
  • statistical testing for differentially abundant proteins
  • comprehensive study report

 

scioUbi Case Study

DUB knockout cell line versus wild type

  • Direct comparison of protein level changes to ubiquitination changes
  • Easy identification of statistically significant changes
  • Immediate overview of molecular changes

sciomics scioUbi Ubiquitination And Protein Profiling case study
Overview of differentially abundant (x-axis) and ubiquitinated (y-axis) proteins from a cell culture study comparing a DUB knockout group with a wild type sample group.

 

Contact us   Overview scio-Ubi

 

Target Proteins

Our scioDiscover and scioPhospho services are based on complex Antibody Microarrays, also called analytical Protein Arrays or Protein Capture Arrays. Within a single experiment 1030 proteins can be profiled in parallel requiring only minimal amounts of sample. The targets proteins were carefully selected over a period of more than 15 years to cover a broad set of different protein classes as well as pathways important in biomedical studies.

Thereby, the protein profiling covers key pathways in various diseases such as cancer, neurological disorders as well as organ failure. Given the wide spectrum of applications and indications the service is ideal for high-content protein expression level analysis from various biological samples. The broad coverage of many important pathways, extracellular and membrane proteins as well as transcription factors, renders scioDiscover a versatile and efficient tool for discovery projects.

Please find below the distribution of the proteins targeted by scioDiscover according their biological processes (Fig.1), their protein classes (Fig.2), their molecular function (Fig.3) as well as their cellular compartment (Fig.4). In addition, pathways covered by scioDiscover are listed in Table 1.

For the pathways TNF signaling, Cell cycle regulation and pathways important in Cancer, Tuberculosis and Huntington's Disease covered targets are depicted in green.

Please contact us for more information regarding targets and pathways covered or to discuss how we can support your study with a highly-parallel protein analysis.

 

Case study - Bladder Cancer

Case study - Acute Kidney Injury

 

Overview
Scio-Discover     Biomarker
Discovery     Target
Discovery     Contact
us

 

 

Classification of target proteins

Biological processes

Protein classes

biological processes covered by protein array analysis

protein classes covered by protein array analysis
Fig. 1: Distribution of target proteins within different biological processes. The majority of the antibodies on the microarray detect proteins involved in cellular or metabolic processes or are involved biological regulation, in a developmental or immune system process or as a response to a stimulus.

Fig. 2: Distribution of target proteins within different protein classes. With scioDiscover 122 signaling molecules, 113 receptors, 109 nucleic acid binding proteins and 71 transcription factors can be analysed in parallel.

Molecular functions

Cellular compartmenrt

molecular functions covered by protein array analysis

 

cellular compartments covered by protein array analysis

 

Fig. 3: Distribution of target proteins within different molecular functions. The majority of proteins on the protein microarrays measures proteins involved in binding or with a catalytic or receptor activity.

Fig. 4: Target proteins classified according their Cellular Compartment.
 
 

Coverage of pathways

Selected Pathwaysno. targets
Inflammation mediated by chemokine and cytokine signaling (P00031) 40
Apoptosis signaling (P00006) 38
Gonadotropin releasing hormone receptor (P06664) 35
CCKR signaling map (P06959) 35
Integrin signalling (P00034) 29
Angiogenesis (P00005) 28
Interleukin signaling (P00036) 27
Huntington disease (P00029) 26
p53 pathway (P00059) 22
T cell activation (P00053) 22
B cell activation (P00010) 21
Ras Pathway (P04393) 18
Wnt signaling (P00057) 17
TGF-beta signaling (P00052) 17
EGF receptor signaling (P00018) 17
Alzheimer disease-presenilin (P00004) 15
FAS signaling (P00020) 15
FGF signaling (P00021) 14
VEGF signaling (P00056) 13
Toll receptor signaling (P00054) 13
Parkinson disease (P00049) 12
PDGF signaling (P00047) 12
Insulin / IGF pathway-mitogen activated protein kinase kinase / MAP kinase cascade (P00032) 12
Alzheimer disease - amyloid secretase  (P00003) 11
p53 pathway feedback loops 2 (P04398) 10
Endothelin signaling (P00019) 10
Blood coagulation (P00011) 10
Plasminogen activating cascade (P00050) 9
Cytoskeletal regulation by Rho GTPase (P00016) 9
Interferon-gamma signaling (P00035) 8
Insulin/IGF pathway-protein kinase B signaling cascade (P00033) 8
Ubiquitin proteasome (P00060) 7
Transcription regulation by bZIP transcription factor (P00055) 7
PI3 kinase (P00048) 7
Oxidative stress response (P00046) 7
Cadherin signaling (P00012) 7
 

 

Highly parallel protein analysis of TNF Signaling

Fig. 5: Proteins in the TNF signalling pathway covered by our protein array are shown in green.

 

 Parallel Analysis of Cell Cycle Proteins by complex antibody arrays

Fig. 6: Cell Cycle Proteins covered by antibody array are depicted in green.

 

 Cancer protein profiling

Fig 7: scioDiscover has a broad coverage of diverse pathways involved in cancer. Proteins in green can be profiled with scioDiscover antibody arrays.

 

 Protein analysis in Huntington's disease

Fig. 8: scioDiscover has a good coverage of proteins involved in various diseases such as Huntington's disease. Proteins analysed in parallel by scioDiscover protein arrays are shown in green

 

Proteins involved in Tuberculosis

Fig. 9: Pathways involved in Tuberculosis are shown. Proteins covered by the scioDiscover service are shown in green.

 

Protein Profiling Platform - Quality Assurance

High quality standards are essential for robust and reliable Biomarker Discovery and Verification as well as for the discovery of new Drug Targets. During the last 10 years a stringent quality assurance workflow has been established for our Antibody Array Platform in order to conduct immuno-based biomedical discovery studies with excellent standards in terms of reproducibility and platform stability. The automated assay workflow further improves the performance of our service. 

 

Biomarker Discovery Phase - scioDiscover Platform

  • Stringent antigen design for maximised specificity of the resulting antibodies
  • Antibodies are antigen affinity-purified
  • Targets identified through transcriptional studies and expert input
  • Stringent QC management
  • Features:  
    • cross-species activity (human and mouse for high versatility)
    • detection of several protein isoforms
    • cost-efficiency through high content

  

Verification Phase - Custom Array Platform

  • Stringent antigen design for maximised specificity of the resulting antibodies
  • Antibodies are antigen affinity-purified
  • In-house QC on Western Blot (different cell lines or tissues) and optional ELISA-based tests
  • In-house QC on large-scale protein arrays (> 9.000 human proteins)
  • In-depth validation of array performance
  • Definition of biomarker signature with highest accuracy
  • Selection of appropriate binders / sandwich pairs
  • Features:  
    • specifically designed antibodies for further use in diagnostic assays
    • fully renewable antibody formats
    • in-depth quality controlled (WB, ELISA)
    • comprehensive cross-reactivity profile (large-scale protein arrays)

 

Orthogonal Biomarker Validation

Verified Candidates can be further validated by orthogonal methods according to customer’s requirements

  • Western Blotting ( WB )
  • ELISA
  • Immuno-Precipitation ( IP )
  • Mass spectrometry ( MS )
  • Biacore

 

Overview
Scio-Discover     Biomarker
Discovery     Custom Microarrays
for Biomarker Verification     Contact
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scioCyto : Cytokine profiling

scioCyto is a high-content analysis service for multiplex cytokine and chemokine profiling on protein level. A great variety of samples such as plasma, tissue, cells or cell cultur supernatants can be used in this robust assay. The complete analysis service comprises all steps from protein extraction from your samples to a comprehensive study report for interpretation of the data.

Features

  • up to 119 cytokines and chemokines analysed in a single assay
  • robust assay with 8 technical replicates
  • most antibodies available for follow-up studies
  • phosphorylation & ubiquitination status on request
 		  

Benefits for your research

  • comprehensive cytokine and chemokine signalling information
  • low sample volumes (10 μL plasma/serum)
  • sensitivity as ELISAs
  • analysis possible from plasma/serum, tissue, cells, supernatants, CSF
  • complete analysis service
    protein extraction > bioinformatic data interpretation

scioCyto analysis process

test

Applications

    

Plasma samples 

  • Immune system activity
  • Immune response profile
  • Biomarkers

Tissue samples

  • Microenvironment analysis
  • 3D cell culture models
  • Immune signalling
  • Inflammation status

Cell samples

  • Cellular signalling
  • Immune cell activation
  • Growth/stimuli profiling
  • Supernatant analysis

 

 Need more coverage? Have a look at our scioCD or scioDiscover service!

Contact us

 

scioCyto target proteins

 

scioCyto enables a robust profiling of up to 119 cytokines and chemokines in one single assay from minute sample amounts.
scioCyto target cytokines for profiling

 

Chemokines
C-C-Motive


 CCL1 ,   CCL2 ,   CCL3 ,   CCL4 ,   CCL5 ,   CCL7 ,   CCL8 ,   CCL11 ,   CCL13 ,   CCL14 ,   CCL15 ,   CCL16 ,   CCL17 ,   CCL18 ,   CCL19 ,   CCL20 ,   CCL21 ,   CCL22 ,   CCL23 ,   CCL24 ,   CCL25 ,   CCL26 ,   CCL27 ,   CCL28
C-X-C motif 

 CXCL1 ,   CXCL5 ,   CXCL6 ,   CXCL7 (PPBP) ,   CXCL8 (IL-8) ,   CXCL9 ,
CXCL10 ,   CXCL11 ,   CXCL12 (SDF-1) ,   CXCL13 ,   CXCL14 ,   CXCL16 
C motif XCL1
C-X3-C motif CX3CL1
   

Cytokines
Interferons IFNA1 ,   IFNG ,   IFNL1 ,   IFNL2 ,   IFNL3

Interleukins



 IL-1A ,   IL-1B ,   IL-2 ,   IL-3 ,   IL-4 ,   IL-5 ,   IL-6 ,   IL-7 ,   IL-8 (CXCL8) ,   IL-9 ,
IL-10 ,   IL-12p70 ,   IL-12B ,   IL-13 ,   IL-15 ,   IL-16 ,   IL-17 ,   IL-17B ,   IL-17C ,   IL-17F ,   IL-18 ,   IL-19 ,
IL-20 ,   IL-22 ,   IL-23A ,   IL-25 ,   IL-27A ,   IL-28A (IFNL2) ,   IL-28B (IFNL3) ,   IL-29 (IFN-L1) ,
IL-31 ,   IL-32 ,   IL-33 ,   IL-34 ,   IL-36G ,   IL-37
TNF-Family





 TNFA (TNF) ,   TNFB (LTA) ,
TNFSF4 (CD252) ,   TNFSF5 (CD154, CD40L) ,  
TNFSF6 (FASLG, CD95-L) ,   TNFSF7 (CD70, CD27-L) ,   TNFSF8 (CD153, CD30-L) ,
TNFSF10 (TRAIL, CD253) ,   TNFSF11 (CD254, OPG-L) ,   TNFSF12 (APO3-L) ,
TNFSF13 (APRIL, CD256) ,   TNFSF13B (BAFF, CD257) ,
TNFSF14 (CD258, HVEM-L) ,   TNFSF18 (AITRL) 
   

Cytokine / growth factor activity
Colony-stimulating factors (CSF) M-CSF ,   GM-CSF ,   G-CSF
TGF-Family TGFB1 ,   TGFB2 ,   TGFB3
VEGF-Family VEGF165/VEGF121 ,   VEGFA ,   VEGFC
Others










 CNTF ,   CRLF2 ,   CYTL1,
FGF2 ,   FLT3L ,
GDF2 ,   GDF15 ,   GRN,
HGF ,   HMGB1 ,
IGF1 ,   INHBA ,
LIF ,
MIF ,
NGF-beta ,
ONCM ,   OSTP ,
PLF4 ,
TSLP

 

Contact us   Overview scio-Cyto

 

Need more coverage? Have a look at our scioCD or scioDiscover service!

More Articles ...

  1. scioDiscover - Protein Biomarker Discovery
  2. scioDiscover - Protein Expression Analysis Platform
  3. scioPhospho: Sample-to-Result Service

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