Search Results - Jokinen, Emmi

1

Academic Journal

Single-cell characterization of anti-LAG-3 and anti-PD-1 combination treatment in patients with melanoma

Superior Title: Huuhtanen , J , Kasanen , H , Peltola , K , Lönnberg , T , Glumoff , V , Brück , O , Dufva , O , Peltonen , K , Vikkula , J , Jokinen , E , Ilander , M , Lee , M H , Mäkelä , S , Nyakas , M , Li , B , Hernberg , M , Bono , P , Lähdesmäki , H , Kreutzman , A & Mustjoki , S 2023 , ' Single-cell characterization of anti-LAG-3 and anti-PD-1 combination treatment in patients with melanoma ' , Journal of ....

Subject Terms: Humans, Programmed Cell Death 1 Receptor, Melanoma/drug therapy, Nivolumab/therapeutic use, Antineoplastic Agents/pharmacology, CD8-Positive T-Lymphocytes, Receptors, Antigen, T-Cell/metabolism, Melanoma, Cutaneous Malignant, Immunology, T cells, Skin cancer, Oncology, NK cells

File Description: application/pdf

Relation: https://research.abo.fi/en/publications/cbe0a727-dbaf-4cb9-9f24-f12d60abb311

Availability: https://doi.org/10.1172/JCI164809
https://research.abo.fi/en/publications/cbe0a727-dbaf-4cb9-9f24-f12d60abb311
https://research.abo.fi/ws/files/59055899/164809.3-20230329141614-covered-e0fd13ba177f913fd3156f593ead4cfd.pdf
https://urn.fi/URN:NBN:fi-fe202402278881

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2

Academic Journal

S176: FUNCTIONAL AND ANTIGEN-SPECIFIC CHARACTERIZATION OF IMMUNE CELLS AT THE SINGLE-CELL LEVEL REVEALS CONVERGENCE OF ADAPTIVE AND INNATE IMMUNITY IN IMMUNE APLASTIC ANEMIA

Superior Title: HemaSphere ; volume 7, issue S3, page e2285644 ; ISSN 2572-9241

Subject Terms: Hematology

Availability: https://doi.org/10.1097/01.hs9.0000967616.22856.44

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3

Academic Journal

EPIC-TRACE: predicting TCR binding to unseen epitopes using attention and contextualized embeddings

Authors: Korpela, Dani, Jokinen, Emmi, Dumitrescu, Alexandru, Huuhtanen, Jani, Mustjoki, Satu, Lähdesmäki, Harri

Contributors: Cowen, Lenore, Academy of Finland, Sigrid Juselius Foundation, Cancer Foundation Finland

Superior Title: Bioinformatics ; volume 39, issue 12 ; ISSN 1367-4811

Subject Terms: Computational Mathematics, Computational Theory and Mathematics, Computer Science Applications, Molecular Biology, Biochemistry, Statistics and Probability

Availability: https://doi.org/10.1093/bioinformatics/btad743
https://academic.oup.com/bioinformatics/article-pdf/39/12/btad743/54680253/btad743.pdf

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4

Academic Journal

TCRconv : predicting recognition between T cell receptors and epitopes using contextualized motifs

Authors: Jokinen, Emmi, Dumitrescu, Alexandru, Huuhtanen, Jani, Gligorijevic, Vladimir, Mustjoki, Satu, Bonneau, Richard, Heinonen, Markus, Lähdesmäki, Harri

Contributors: Biotekniikan instituutti, Tietojenkäsittelytieteen osasto, Helsingin yliopisto, Helsinki Institute of Life Science HiLIFE, TRIMM - Translational Immunology Research Program, HUS Syöpäkeskus, Hematologian yksikkö, Kliinisen kemian ja hematologian osasto, Clinicum, Digital Precision Cancer Medicine (iCAN)

Subject Terms: 1182 Biokemia, solu- ja molekyylibiologia, 11832 Mikrobiologia ja virologia

File Description: application/pdf

Relation: https://doi.org/10.1093/bioinformatics/btac788; Bioinformatics; Jokinen , E , Dumitrescu , A , Huuhtanen , J , Gligorijevic , V , Mustjoki , S , Bonneau , R , Heinonen , M & Lähdesmäki , H 2023 , ' TCRconv : predicting recognition between T cell receptors and epitopes using contextualized motifs ' , Bioinformatics , Vuosikerta. 39 , Nro 1 , btac788 . https://doi.org/10.1093/bioinformatics/btac788; PURE: 258118961; PURE UUID: 120b86bd-4a1f-4dce-908c-4516f725e9cc; WOS: 000935218800001; PubMed: 36477794; ORCID: /0000-0002-0816-8241/work/130605559; http://hdl.handle.net/10138/356034

Availability: https://doi.org/10.1093/bioinformatics/btac788
http://hdl.handle.net/10138/356034

5

Academic Journal

TSignal : a transformer model for signal peptide prediction

Authors: Dumitrescu, Alexandru, Jokinen, Emmi, Paatero, Anja, Kellosalo, Juho, Paavilainen, Ville O., Lähdesmäki, Harri

Contributors: Department of Computer Science, Professorship Lähdesmäki Harri, University of Helsinki, Computer Science Professors, Aalto-yliopisto, Aalto University

File Description: application/pdf

Relation: Bioinformatics; Volume 39; Dumitrescu , A , Jokinen , E , Paatero , A , Kellosalo , J , Paavilainen , V O & Lähdesmäki , H 2023 , ' TSignal : a transformer model for signal peptide prediction ' , Bioinformatics , vol. 39 , pp. I347-I356 . https://doi.org/10.1093/bioinformatics/btad228; PURE UUID: d94277d9-e5bd-411b-903d-8e71234fb475; PURE ITEMURL: https://research.aalto.fi/en/publications/d94277d9-e5bd-411b-903d-8e71234fb475; PURE LINK: http://www.scopus.com/inward/record.url?scp=85163693976&partnerID=8YFLogxK; PURE FILEURL: https://research.aalto.fi/files/116879557/TSignal_a_transformer_model_for_signal_peptide_prediction.pdf; https://aaltodoc.aalto.fi/handle/123456789/122273; URN:NBN:fi:aalto-202308014634

Availability: https://doi.org/10.1093/bioinformatics/btad228
https://aaltodoc.aalto.fi/handle/123456789/122273

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6

Academic Journal

Evolution and modulation of antigen-specific T cell responses in melanoma patients

Authors: Huuhtanen, Jani^{Aff1, Aff2, Aff3, Aff4}, Chen, Liang^{Aff5, Aff6}, Jokinen, Emmi, Kasanen, Henna^{Aff1, Aff2, Aff3}, Lönnberg, Tapio^{Aff7, Aff8}, Kreutzman, Anna^{Aff1, Aff2, Aff3}, Peltola, Katriina^{Aff3, Aff9}, Hernberg, Micaela, Wang, Chunlin^{Aff5, Aff6}, Yee, Cassian^{Aff10, Aff11}, Lähdesmäki, Harri, Davis, Mark M.^{Aff5, Aff6, Aff12, IDs4146702233720z_cor12}, Mustjoki, Satu^{Aff1, Aff2, Aff3, Aff13, IDs4146702233720z_cor13}

Superior Title: Nature Communications. 13(1)

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7

Academic Journal

TCRconv: predicting recognition between T cell receptors and epitopes using contextualized motifs

Authors: Jokinen, Emmi, Dumitrescu, Alexandru, Huuhtanen, Jani, Gligorijević, Vladimir, Mustjoki, Satu, Bonneau, Richard, Heinonen, Markus, Lähdesmäki, Harri

Superior Title: Bioinformatics

Subject Terms: Original Paper

Relation: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9825763/; http://www.ncbi.nlm.nih.gov/pubmed/36477794; http://dx.doi.org/10.1093/bioinformatics/btac788

Availability: https://doi.org/10.1093/bioinformatics/btac788
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9825763/
http://www.ncbi.nlm.nih.gov/pubmed/36477794

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8

Academic Journal

Substrate specificity of 2-deoxy-D-ribose 5-phosphate aldolase (DERA) assessed by different protein engineering and machine learning methods

Authors: Voutilainen, Sanni^Aff1, Heinonen, Markus^{Aff2, Aff3}, Andberg, Martina, Jokinen, Emmi, Maaheimo, Hannu, Pääkkönen, Johan, Hakulinen, Nina, Rouvinen, Juha, Lähdesmäki, Harri, Kaski, Samuel^{Aff2, Aff3}, Rousu, Juho^{Aff2, Aff3}, Penttilä, Merja, Koivula, Anu

Superior Title: Applied Microbiology and Biotechnology. 104(24):10515-10529

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9

Academic Journal

Predicting recognition between T cell receptors and epitopes with TCRGP

Authors: Jokinen, Emmi, Huuhtanen, Jani, Mustjoki, Satu, Heinonen, Markus, Lähdesmäki, Harri

Contributors: TRIMM - Translational Immunology Research Program, Department of Clinical Chemistry and Hematology, University of Helsinki, HUS Comprehensive Cancer Center, Department of Oncology, Research Programs Unit, Hematologian yksikkö, Digital Precision Cancer Medicine (iCAN)

Subject Terms: 3111 Biomedicine, 1182 Biochemistry, cell and molecular biology

File Description: application/pdf

Relation: https://doi.org/10.1371/journal.pcbi.1008814; PLoS Computational Biology; Jokinen , E , Huuhtanen , J , Mustjoki , S , Heinonen , M & Lähdesmäki , H 2021 , ' Predicting recognition between T cell receptors and epitopes with TCRGP ' , PLoS Computational Biology , vol. 17 , no. 3 , 1008814 . https://doi.org/10.1371/journal.pcbi.1008814; PURE: 164865169; PURE UUID: bf9bcf9f-569f-4812-acaf-8197d27759aa; WOS: 000634792900003; ORCID: /0000-0002-0816-8241/work/95320695; http://hdl.handle.net/10138/330821

Availability: https://doi.org/10.1371/journal.pcbi.1008814
http://hdl.handle.net/10138/330821

10

Academic Journal

mGPfusion: predicting protein stability changes with Gaussian process kernel learning and data fusion

Authors: Jokinen, Emmi, Heinonen, Markus, Lähdesmäki, Harri

Subject Terms: Ismb 2018–Intelligent Systems for Molecular Biology Proceedings

Relation: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6022679/; http://www.ncbi.nlm.nih.gov/pubmed/29949987; http://dx.doi.org/10.1093/bioinformatics/bty238

Availability: https://doi.org/10.1093/bioinformatics/bty238
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6022679/
http://www.ncbi.nlm.nih.gov/pubmed/29949987

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11

Äidit liikkeelle raskauden aikana - Äitien kokemuksia äitiysneuvolassa saadusta liikuntaneuvonnasta

Authors: Jokinen, Emmi

Subject Terms: fi=Hoitotyö|sv=Vård|en=Nursing, liikunta, raskaus, äitiysneuvolat, liikuntaneuvonta, Terveyspalvelujen johtaminen ja kehittäminen

Relation: http://www.theseus.fi/handle/10024/783854; URN:NBN:fi:amk-2022112924877

Availability: http://www.theseus.fi/handle/10024/783854

12

Evolution and modulation of antigen-specific T cell responses in melanoma patients

Authors: Jokinen Emmi, Hernberg Micaela, Huuhtanen Jani, Lähdesmäki Harri, Chen Liang, Wang Chunlin, Lönnberg Tapio, Kreutzman Anna, Peltola Katriina, Mustjoki Satu, Davis Mark M, Yee Cassian, Kasanen Henna

Contributors: Turun biotiedekeskus, Turku Bioscience Centre, InFLAMES lippulaiva, tutkimus, InFLAMES Flagship, research, 2609201, 2607051

Relation: 13; 5988; Nature Communications; https://www.utupub.fi/handle/10024/173272; https://www.nature.com/articles/s41467-022-33720-z; URN:NBN:fi-fe2022112967815

Availability: https://www.utupub.fi/handle/10024/173272
https://www.nature.com/articles/s41467-022-33720-z

13

Periodical

High-Throughput Screens Identify NEDD8 Inhibition As a Strategy to Augment Natural Killer Cell Cytotoxicity Against Blood Cancers

Authors: Bouhlal, Jonas, Nygren, Petra, Jokinen, Emmi, Laajala, Essi, Ianevski, Aleksandr, Dias, Diogo, Klievink, Jay, Lähteenmäki, Hanna, Duàn, Hanna, Saeed, Khalid, Lee, Dean Anthony, Aittokallio, Tero, Dufva, Olli, Mustjoki, Satu

Superior Title: Blood; November 2023, Vol. 142 Issue: 1, Number 1 Supplement 1 p3634-3634, 1p

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14

Periodical

Primary Acute Myeloid Leukemia Cells Trigger Distinct Activation Patterns in Expanded NK Cells

Authors: Duàn, Hanna, Dufva, Olli, Jokinen, Emmi, Lähteenmäki, Hanna, Klievink, Jay, Bouhlal, Jonas, Theodoropoulos, Jason, Kuusanmäki, Heikki, Ruokoranta, Tanja, Rumm, Pauliina, Lee, Dean Anthony, Pitkänen, Esa, Mäkelä, Tomi P, Porkka, Kimmo, Brück, Oscar, Mustjoki, Satu

Superior Title: Blood; November 2023, Vol. 142 Issue: 1, Number 1 Supplement 1 p66-66, 1p

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15

Dissertation/ Thesis

Tarve laihduttaa : kyse ei ollutkaan pelkistä kiloista

Authors: Jokinen, Emmi

Subject Terms: Herbalife, painonnousu, ylipaino, lihavuus, laihdutus, ryhmät, painonhallinta

File Description: 1 verkkoaineisto (62 sivua); application/pdf; fulltext

Relation: oai:jykdok.linneanet.fi:1529546; URN:NBN:fi:jyu-201604302372; http://urn.fi/URN:NBN:fi:jyu-201604302372

Availability: http://urn.fi/URN:NBN:fi:jyu-201604302372

16

Dissertation/ Thesis

Modeling protein stability with Gaussian processes ; Proteiinien stabiilisuuden mallintaminen Gaussin prosesseilla

Authors: Jokinen, Emmi

Contributors: Heinonen, Markus, Sähkötekniikan korkeakoulu, Lähdesmäki, Harri, Aalto-yliopisto, Aalto University

Subject Terms: protein stability, Gaussian processes, graph kernels, MKL

File Description: application/pdf

Relation: https://aaltodoc.aalto.fi/handle/123456789/21609; URN:NBN:fi:aalto-201608263065

Availability: https://aaltodoc.aalto.fi/handle/123456789/21609

17

Dissertation/ Thesis

Kauran tärkkelyksen liisteröitymis- ja vanhenemisominaisuudet

Authors: Jokinen, Emmi

Contributors: Helsingin yliopisto, Maatalous-metsätieteellinen tiedekunta, University of Helsinki, Faculty of Agriculture and Forestry, Helsingfors universitet, Agrikultur- och forstvetenskapliga fakulteten

Subject Terms: Kaura, tärkkelys, liisteröityminen, uuskiteytyminen, vanheneminen, Elintarviketieteiden maisteriohjelma, Master's Programme in Food Sciences, Magisterprogrammet i livsmedelsvetenskaper, ei opintosuuntaa, no specialization, ingen studieinriktning