Software for Digital microscopy

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For pre- and clinical research and diagnostic purposes, it’s important that medical images are not just images, diagnosis reports are not just unstructured information, molecular data are not just separated from results of image analysis. Researchers would be supported best, if suspicious or malicious structures of tissue samples are identified at the early stages. In that case the researchers and doctors be able to apply their expert knowledge more efficiently and to focus on the illness itself.
This is exactly, what the HS Analysis GmbH from Karlsruhe (GER) does science 2015, when it comes to automated image analysis, structure reports and bring them with knowledge from molecular data. The integration of these approaches in the hardware and its infrastructure is one of the main skills of HS Analysis.
The company is working worldwide closely with different partners together, when digitization, digitalization and automation of medical data is going to be a part of daily routine in diagnosis and research with AI techniques.
With the help of modern AI, Deep Learning and Active Learning supported methods HS Analysis, believes to seriously inspire quantification and prediction in diagnosis, CDx and research areas such as the evaluation or early detection of e.g. cancer.

technology

Technology

The most up-to-date artificial intelligence is one key technology of automatic interpretation of tissue samples in the software of HS Analysis. Technically speaking, virtual slides are analyzed with deep learning. Virtual slides are digital images, that are produced by microscope roboters called slide scanner. In this way you quickly get quantitative results about effects of drug candidates on tissue.

Specialists of HS Analysis use the appropriate technology depending on requirements of customers.
Two examples of most used technologies are listed below.


Digital microscopy is a promising method for quantitative automatization in pharmaceutical research. The key technology was the introduction of Whole-Slide Imaging (WSI) or well plates with digital slide Scanners or HCS. They allow virtualization of the whole slide or well plate with large tissue sections or cell cultures in high microscopic resolution. Combination of WSI or well plates with automatic detection and quantification software enables numerous new possibilities and methods to search for drugs against diseases. HS Analysis develops automatic WSI and well plates quantification solutions for efficient workflows in pharmaceutical research. Our solutions are compatible with all slide scanner or HCS file formats.
Recent evolution in artificial neural networks allows reliable recognition of structures with complex morphology traits, similar like the human brain does. HS Analysis specialized in neural network applications and Deep Learning to detect your Region of Interest in automatic manner. Avoid manual annotations for ROI definition to achieve high throughput with short analysis times.

scope

Scope

Our quality standards apply also in terms of service, technical expertise and advice.
Our dedicated employees are happy to assist you with know-how and experience in your daily business.

  • 3D reconstruction & analysis of serial slides.

    Anatomy

    3D reconstruction & analysis of serial slides.
  • Detection of frequency and distribution of IHC labeled blood vessels (e.g. as indicator of tumor malignancy).

    Angiology

    Detection of frequency and distribution of IHC labeled blood vessels (e.g. as indicator of tumor malignancy).
  • Analysis of gut wall and gut villi & crypt.

    Gastroenterology

    Analysis of gut wall and gut villi & crypt.
  • Glomeruli detection & analysis of interstitial fibrosis in Kidney.

    Nephrology

    Glomeruli detection & analysis of interstitial fibrosis in Kidney.
  • Quantification of labeled parameters in skin.

    Dermatology

    Quantification of labeled parameters in skin.
  • 3D Analysis of Brain structures and Plaque Analysis in Alzheimer´s disease.

    Neuroscience

    3D Analysis of Brain structures and Plaque Analysis in Alzheimer´s disease.
  • Quantification of proliferation markers like Ki-67, p53, p21, Stathmin, H-Scoring etc.

    Oncology

    Quantification of proliferation markers like Ki-67, p53, p21, Stathmin, H-Scoring etc.
  • Alveoli analysis in lung tissue.

    Pneumology

    Alveoli analysis in lung tissue.
  • Osteon quantification, Osteocytes, Volkman’s Canal, Haversian Canal

    Osteology

    Osteon quantification, Osteocytes, Volkman’s Canal, Haversian Canal

  • 3D reconstruction & analysis of serial slides.

    Anatomy

    3D reconstruction & analysis of serial slides.
  • Detection of frequency and distribution of IHC labeled blood vessels (e.g. as indicator of tumor malignancy).

    Angiology

    Detection of frequency and distribution of IHC labeled blood vessels (e.g. as indicator of tumor malignancy).
  • Analysis of gut wall and gut villi & crypt.

    Gastroenterology

    Analysis of gut wall and gut villi & crypt.
  • Glomeruli detection & analysis of interstitial fibrosis in Kidney.

    Nephrology

    Glomeruli detection & analysis of interstitial fibrosis in Kidney.
  • Quantification of labeled parameters in skin.

    Dermatology

    Quantification of labeled parameters in skin.
  • 3D Analysis of Brain structures and Plaque Analysis in Alzheimer´s disease.

    Neuroscience

    3D Analysis of Brain structures and Plaque Analysis in Alzheimer´s disease.
  • Quantification of proliferation markers like Ki-67, p53, p21, Stathmin, H-Scoring etc.

    Oncology

    Quantification of proliferation markers like Ki-67, p53, p21, Stathmin, H-Scoring etc.
  • Alveoli analysis in lung tissue.

    Pneumology

    Alveoli analysis in lung tissue.
  • Osteon quantification, Osteocytes, Volkman’s Canal, Haversian Canal

    Osteology

    Osteon quantification, Osteocytes, Volkman’s Canal, Haversian Canal

details


Cell tracking and analysis in real time

HSA in-house developed deep learning

Tracking of cellular morphology changes and behavior in concert with surrounding cells. Cells with increasing area are marked blue, decreasing area red. Length of individual cell borders, circumference, area and percentile change, compared to previous frame (Δ area, Δ circum.), are tracked in real time.

Self developed AI networks:
  • + Cell border gaps in the original image are closed intelligently
  • + Automatic tracking of length of individual cell borders, cellular morphology changes and behavior in concert with surrounding cells
  • + Visual representation of selected morphology changes (Area, circularity, neighbor cell behavior etc.)
  • + Simple export of all statistical data into an Exel file


 

Standard Deep Learning U-Net

Simple intensity dependent annotation of cell borders vs original image




Old U-Net based AI network:
  • - Gaps in the original image are not closed, therefore subsequent statistical analysis is impaired
  • - Tracking of cellular parameters difficult or only possible by additional programs
  • - No visual representation of selected changes in cellular morphology


Counting and segmentation of
cells in chamber slides

Detection and segmentation of nuclei and cytoplasm in cultured cells in chamber slides.



Segmentation of Tumour
and Stroma cells

Segmentation of nuclei and cytoplasm in tumour cells and cytoplasmic regions in stroma cells. If nuclear staining is not present or unspecific, nuclei can be detected by nuclear “holes” in cytoplasmic staining.


Kidney Tool

Segmentation of glomeruli and tubuli by using a Deep Learning model for brightfield data.


Kidney Tool

Segmentation of glomeruli and their compartments by using a tensorflow model for brightfield data.


Intracellular Compartments in EM

Ultra-structural analysis of intracellular compartments using electron microscopy provides new insights into cellular fine structures and sub-cellular organelle interactions.



Endoplasmic Reticulum

The endoplasmic reticulum (ER) is a dynamic structure consisting of branched domains and tubular sections. Automatic segmentation opens up new possibilities for quantitative analysis and efficient representation of this membrane structure at the ultra-structural level.


Cell Counting

Segmentation and counting of cells.  



Internalization

Analysis of insulin receptors inside and outside of cytoplasm and the change over time.


Scratch Assay

Analysis of samples with scratches and the change of cell area over time.

 


Real time detection on microscopy devices

You look through the microscope and see in real time markings of the objects relevant to you. Subsequently, an automatic quantification of the detected objects takes place.


Blood vessel analysis

Blood vessels can be marked with immunohistochemistry. This allows blood vessel counting and analysis of blood vessel distribution.  



Proliferation

Segmentation of cells over time to measure proliferation. The analysis is done on Label Free Data.


 

Annotation Software to set region of interests (ROI)

Manual drawing of regions of interest (ROI) as well as automatic ROI detection. Image analysis can be restricted to ROIs or different analysis methods can be allocated to different ROI types within one image.

Screening with oncology markers

Tissue evaluation with cancer specific markers, for example PD-L1, Ki67, p21, p53, Stathmin, bTubulin, etc.


TMA Screening & Analysis

Analysis Software for Tissue MicroArrays (TMA) with variable number of cores. Semi automatic naming of TMA cores. Export of TMA core results together with cores names into excel files.




image-analysis-online-service

Image Analysis Online Service

Solutions for your assay:
Repetitive tasks in your workflow can take precious time necessary for breakthrough ideas to happen. HS Analysis offers online services for image analysis services designed to improve the results of your most time-consuming and challenging manual assay analyses.

Image analysis made easy:
Your images will be analyzed manually by our high professional image analysis experts in Germany. Simplify your quantitative image analysis process by short description of your task, uploading your data to our server and receive your results each day per email. Reproducible, robust quantification at your hand without the need of buying new hardware or software.

Results that make a difference:
Extracting objective, reliable data to push your research forward is our commitment. No matter how complex your system or the problem you want to tackle is, we develop a solution to enhance your work. You take the images, we do the rest.

Analyse your images anywhere, anytime:
Follow these simple steps to start enjoying it. It’s as easy as it sounds:

  1. Fill in the Form.
  2. Describe the task
  3. Select the images you want to upload for analysis.
  4. After processing your images, an email will notify you with the results and with invoice.


20 images - 250€50 images - 350€100 images - 400€250 images - 450€500 images - 500€1000 images - 550€5000 images - 750€10000 images - 1000€


projects-two

Projects

Research experts in pharmacology, bioscience and in university medical centers are permanently expected to increase efficiency and reduce timeinvest and cost.

HS Analysis delivers software solutions for precise image analysis. In that way the researcher is going to be supported to get qualitative and reproducible data.

The system reduces human errors, which are possible in manual evaluation. It finally allows to get Big Data results in a short time and at the end to analyse, manage and present them. That allows researchers to fulfill continuously increasing expectations concerning efficiency and output of results.

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Events

You will find us here:

Netzwerk Deutschlandstipendium Karlsruhe Logo
27th January 2020
3 founders talk about their experience of starting a business and report from different phases of the foundation
Great Hall, Gastdozentenhaus,
Engesserstraße 3, 76131 Karlsruhe

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Industrie & Innovationstag Logo
28th February 2020 from 4:00 pm to 6:00 pm
3rd Industry & Innovation Day.
Internationales Wissenschaftsforum Heidelberg (IWH),
Hauptstraße 242, Heidelberg

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Scion Logo
23-25th October 2020
Scion : Vertrauen in KI
Technologiefabrik – Haid-und-Neu-Straße 7, Karlsruhe

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past events

Scion Logo
30th November 2019
Scion: Vertrauen in KI
Technologiefabrik – Haid-und-Neu-Straße 7, Karlsruhe

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HS Pforzheim Logo
November 14, 2019
You are the future of tomorrow!
On the way to practical experience with Deep Learning in Life Science.
University of Applied Sciences Pforzheim,
Medical Imaging

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BioRN Logo
November 11, 2019
The BioRN Annual Conference "Artificial Intelligence meets Health" will take place on 11.11.2019 in the DKFZ.

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Nachfolgeforum Logo
October 15, 2019
At the Successor Forum 2019 we talk about Artificial Intelligence and implications for successor design.
Europa Park, Rust

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AHK
October 11, 2019 at 11:00
Lecture: How autonomous are the autonomous AI systems?
Delegation Deutsch-Baltische Handelskammer (AHK)
Technologiefabrik Karlsruhe

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Rotary Club Pforzheim
26th of September 2019
Lecture: Trust in AI - myth or reality?
Business Forum at the Rotary Club in Pforzheim

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September 26, 2019
Creating confidence in the AI and securing profitability for SMEs.
Business Forum Ettlingen

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Zukunftstüftler Logo
September 18, 2019
127/5000 Future inventors - the conference for the minds of digital transformation
in the Technikfabrik Karlsruhe

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W3 Fair
19th of September 2019
Lecture: Trust in AI - myth or reality?
Dornbirn (Vorarlberg)

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BioLAGO Logo
July 7, 2019
Seven creative designers from Karlsruhe have seven minutes to present themselves and their company.

Event on Facebook
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BioLAGO Logo
June 27, 2019
BioLAGO „Drugs, Diagnostics, Devices & Data – Matchmaking with Ireland”
Vortragsthema: „Künstliche Intelligenz: Deep Learning in der Medizin, Mythos oder Realität?“

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20 May 2019
2nd European Pathology Congress in Berlin
Vortrag zum Thema Opportunities and risks of AI integration in daily routine in pathology today

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Etengo-Symposium
16 May 2020
Etengo-Symposium 2019
Workshop zur Anwendung von Deep Learning in Bildanalyse
WIRSOL Rhein-Neckar-Arena in Hoffenheim

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DBT
April 9, 2019, 10-17 clock
Deutschen Biotechnologietage (DBT) Symposium
Vortrag zum Thema Bio-Daten und Deep Learning
In Würzburg

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Scion
October 26-28, 2018
2: Scion : Vertrauen in KI
Technologiefabrik – Haid-und-Neu-Straße 7, Karlsruhe

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House of Pharma
September 11, 2018
Auf der Spitze des Hype Cycles: Wie Deep Learning die Entwicklung neuer Wirkstoffe und Therapien mit signifikanter Zeit- und Kostenersparnis ermöglichen wird.
Frankfurt am Main

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IHK
5 July 2018, 2-6 pm
Erster Tag der Künstlichen Intelligenz
IHK Karlsruhe

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Scion
23 + 24 June 2018
1: Scion : Vertrauen in KI
Technologiefabrik – Haid-und-Neu-Straße 7, Karlsruhe

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Steinbeis
Friday, June 15, 2018
Maschinelles Lernen: Produktionsanwendungen in der Robotik
ZKM – Zentrum für Kunst und Medien, Karlsruhe

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CEBIT
June 14, 2018
CEBIT
Hannover

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Michelin
June 12, 2018 16:00 - 20:00
Qualitätssicherung mit VR und KI
Michelin Reifenwerke Karlsruhe

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