Evidence map›Paper›PMID 37440307›Full record

ArticleJMIR research protocols2023

Creating an Innovative Artificial Intelligence-Based Technology (TCRact) for Designing and Optimizing T Cell Receptors for Use in Cancer Immunotherapies: Protocol for an Observational Trial.

Joanna Bujak, Stanisław Kłęk, Martyna Balawejder, Aleksandra Kociniak, Kinga Wilkus, Rafał Szatanek, Zofia Orzeszko, Joanna Welanyk, Grzegorz Torbicz, Mateusz Jęckowski and 17 more

Registry-linked trialOpen access · goldAbstract read
In one paragraph

Article in JMIR research protocols, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT04994093 (Creating an Innovative AI-based), which is not on this map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
3.0field-weighted citation impact, top 8% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

NCT04994093 completednot on this map

Creating an Innovative AI-based (Artificial Intelligence) IN SILICO TECHNOLOGY TCRact to Launch a NEW SERVICE for Designing and Optimizing T-cell Receptors (TCR) for Use in Cancer Immunotherapies

TypeobservationalSponsorArdigenRan2021 to 2023Enrolled118ConditionsColon Cancer, CancerArmsCollection of blood (PBMC), biopsy (FFPE) and stool samples.
3 · Its place in the literature

Who cites it

13 citing papers in PubMed, 13 citations in OpenAlex.

  1. Review
  2. Technical review of artificial intelligence in TCR-T therapy.Journal of the National Cancer Center · 2026
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

27 authors at 7 institutions in 1 country.

Joanna Bujak *Ardigen SA, Cracow, Poland.ORCID https://orcid.org/0000-0001-9096-568X
Stanisław Kłęk *Surgical Oncology Clinic, Maria Sklodowska-Curie National Research Institute of Oncology, Cracow, Poland.ORCID https://orcid.org/0000-0002-7887-3464
Martyna BalawejderArdigen SA, Cracow, Poland.ORCID https://orcid.org/0009-0003-9299-1584
Aleksandra KociniakArdigen SA, Cracow, Poland.ORCID https://orcid.org/0009-0005-1268-9663
Kinga WilkusArdigen SA, Cracow, Poland.ORCID https://orcid.org/0000-0001-9854-1160
Rafał SzatanekArdigen SA, Cracow, Poland.ORCID https://orcid.org/0000-0003-1327-6092
Zofia OrzeszkoDepartment of General and Oncological Surgery, Brothers Hospitallers Hospital, Cracow, Poland.ORCID https://orcid.org/0000-0001-6805-1996
Joanna WelanykSurgical Oncology Clinic, Maria Sklodowska-Curie National Research Institute of Oncology, Cracow, Poland.ORCID https://orcid.org/0009-0004-5137-0068
Grzegorz TorbiczDepartment of General Surgery and Surgical Oncology, Ludwik Rydygier Memorial Hospital, Cracow, Poland.ORCID https://orcid.org/0000-0002-4670-8798
Mateusz JęckowskiColon Cancer Unit, Department of Oncological Surgery, Voivodeship Multi-Specialist Center for Oncology and Traumatology, Lodz, Poland.ORCID https://orcid.org/0000-0001-8409-4099
Tomasz KucharczykHoly Cross Cancer Center Clinic of Clinical Oncology, Cracow, Poland.ORCID https://orcid.org/0009-0005-0953-4265
Łukasz WohadloDepartment of General Surgery, Andrzej Frycz Modrzewski Krakow University, Cracow, Poland.ORCID https://orcid.org/0009-0003-7198-4465
Maciej BorysDepartment of General Surgery and Surgical Oncology, Ludwik Rydygier Memorial Hospital, Cracow, Poland.ORCID https://orcid.org/0000-0003-4605-113X
Honorata StadnikDepartment of General and Transplant Surgery, Poznan University of Medical Sciences, University Hospital, Poznan, Poland.ORCID https://orcid.org/0000-0001-7910-2998
Michał WysockiDepartment of General Surgery and Surgical Oncology, Ludwik Rydygier Memorial Hospital, Cracow, Poland.ORCID https://orcid.org/0000-0002-2468-1117
Magdalena KayserGeneral and Colorectal Surgery Department, J Struś Multispecialist Municipal Hospital, Poznan, Poland.ORCID https://orcid.org/0000-0001-6387-4889
Marta Ewa SłomkaColon Cancer Unit, Department of Oncological Surgery, Voivodeship Multi-Specialist Center for Oncology and Traumatology, Lodz, Poland.ORCID https://orcid.org/0009-0006-1914-1681
Anna KosmowskaGeneral and Colorectal Surgery Department, J Struś Multispecialist Municipal Hospital, Poznan, Poland.ORCID https://orcid.org/0000-0002-5695-8408
Karolina HorbackaGeneral and Colorectal Surgery Department, J Struś Multispecialist Municipal Hospital, Poznan, Poland.ORCID https://orcid.org/0000-0001-5805-2207
Tomasz GachSurgical Clinic Institute of Physiotherapy, Faculty of Health Sciences, Jagiellonian University Medical College, Cracow, Poland.ORCID https://orcid.org/0000-0002-8460-4658
Beata MarkowskaSurgical Clinic Institute of Physiotherapy, Faculty of Health Sciences, Jagiellonian University Medical College, Cracow, Poland.ORCID https://orcid.org/0000-0002-0380-6777
Tomasz KowalczykDepartment of General Surgery, Andrzej Frycz Modrzewski Krakow University, Cracow, Poland.ORCID https://orcid.org/0009-0007-5088-7120
Jacek KarońGeneral and Colorectal Surgery Department, J Struś Multispecialist Municipal Hospital, Poznan, Poland.ORCID https://orcid.org/0000-0003-4330-7224
Marek KarczewskiDepartment of General and Transplant Surgery, Poznan University of Medical Sciences, University Hospital, Poznan, Poland.ORCID https://orcid.org/0000-0002-9642-0709
Mirosław SzuraSurgical Clinic Institute of Physiotherapy, Faculty of Health Sciences, Jagiellonian University Medical College, Cracow, Poland.ORCID https://orcid.org/0000-0002-9993-7471
Anna Sanecka-Duin *Ardigen SA, Cracow, Poland.ORCID https://orcid.org/0000-0001-7684-2149
Agnieszka Blum *Ardigen SA, Cracow, Poland.ORCID https://orcid.org/0009-0008-3096-5440
Jagiellonian University · PLAndrzej Frycz Modrzewski Krakow University · PLLublin Oncology Center · PLPoznan University of Medical Sciences · PLThe Maria Sklodowska-Curie National Research Institute of Oncology · PLHoly Cross University · PLWarsaw University of Life Sciences · PL

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundCancer continues to be the leading cause of mortality in high-income countries, necessitating the development of more precise and effective treatment modalities. Immunotherapy, specifically adoptive cell transfer of T cell receptor (TCR)-engineered T cells (TCR-T therapy), has shown promise in engaging the immune system for cancer treatment. One of the biggest challenges in the development of TCR-T therapies is the proper prediction of the pairing between TCRs and peptide-human leukocyte antigen (pHLAs). Modern computational immunology, using artificial intelligence (AI)-based platforms, provides the means to optimize the speed and accuracy of TCR screening and discovery.

objectiveThis study proposes an observational clinical trial protocol to collect patient samples and generate a database of pHLA:TCR sequences to aid the development of an AI-based platform for efficient selection of specific TCRs.

methodsThe multicenter observational study, involving 8 participating hospitals, aims to enroll patients diagnosed with stage II, III, or IV colorectal cancer adenocarcinoma.

resultsPatient recruitment has recently been completed, with 100 participants enrolled. Primary tumor tissue and peripheral blood samples have been obtained, and peripheral blood mononuclear cells have been isolated and cryopreserved. Nucleic acid extraction (DNA and RNA) has been performed in 86 cases. Additionally, 57 samples underwent whole exome sequencing to determine the presence of somatic mutations and RNA sequencing for gene expression profiling.

conclusionsThe results of this study may have a significant impact on the treatment of patients with colorectal cancer. The comprehensive database of pHLA:TCR sequences generated through this observational clinical trial will facilitate the development of the AI-based platform for TCR selection. The results obtained thus far demonstrate successful patient recruitment and sample collection, laying the foundation for further analysis and the development of an innovative tool to expedite and enhance TCR selection for precision cancer treatments.

trial registrationClinicalTrials.gov NCT04994093; https://clinicaltrials.gov/ct2/show/NCT04994093. INTERNATIONAL REGISTERED REPORT IDENTIFIER (IRRID): DERR1-10.2196/45872.

Indexed as

AIartificial intelligencecolorectal cancerHLAhuman leukocyte antigenimmunotherapyneoantigenT cell receptorsTCR

Identifiers

PMID37440307
PMCPMC10375398
OpenAlexW4379185221

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Registered trials

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.