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Employment (1)

Institute of Biochemistry and Biophysics, Polish Academy of Sciences: Warsaw, PL

2022-03-01 to present (Mass Spectrometry Laboratory)
Employment
Source: Self-asserted source
Jakub Karczmarski

Works (40)

Plasma Bacterial Metabolites in Crohn’s Disease Pathogenesis and Complications

Nutrients
2024-12-28 | Journal article
Contributors: Anna Deskur; Filip Ambrożkiewicz; Emilia Samborowska; Wojciech Błogowski; Tadeusz Sulikowski; Andrzej Białek; Iwona Zawada; Krzysztof Dąbkowski; Joanna Mitrus; Jakub Karczmarski et al.
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Crossref
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Preferred source (of 2)‎

Serum Metabolite Biomarkers for Pancreatic Tumors: Neuroendocrine and Pancreatic Ductal Adenocarcinomas—A Preliminary Study

Cancers
2023-06-19 | Journal article
Contributors: Karolina Skubisz; Krzysztof Dąbkowski; Emilia Samborowska; Teresa Starzyńska; Anna Deskur; Filip Ambrozkiewicz; Jakub Karczmarski; Mariusz Radkiewicz; Katarzyna Kusnierz; Beata Kos-Kudła et al.
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Crossref
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Preferred source (of 2)‎

Combination of HLA-DQ2/-DQ8 Haplotypes and a Single MSH5 Gene Variant in a Polish Population of Patients with Type 1 Diabetes as a First Line Screening for Celiac Disease?

Journal of Clinical Medicine
2022-04-15 | Journal article
Part of ISSN: 2077-0383
Contributors: Jakub Karczmarski
Source: Self-asserted source
Jakub Karczmarski

GWAS Links New Variant in Long Non-Coding RNA LINC02006 with Colorectal Cancer Susceptibility

Biology
2021-05-25 | Journal article
Part of ISSN: 2079-7737
Contributors: Jakub Karczmarski
Source: Self-asserted source
Jakub Karczmarski

Peripheral Blood Cells from Patients with Hodgkin’s and Diffuse Large B Cell Lymphomas May Be a Better Source of Candidate Diagnostic miRNAs Than Circulating miRNAs

BioMed Research International
2021-02-04 | Journal article
Part of ISSN: 2314-6141
Part of ISSN: 2314-6133
Contributors: Jakub Karczmarski
Source: Self-asserted source
Jakub Karczmarski

Mutational Mosaics of Cell-Free DNA from Pancreatic Cyst Fluids

Digestive Diseases and Sciences
2020 | Journal article
EID:

2-s2.0-85077713923

Contributors: Paziewska, A.; Polkowski, M.; Goryca, K.; Karczmarski, J.; Wiechowska-Kozlowska, A.; Dabrowska, M.; Mikula, M.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Signatures of circulating microRNA in four sarcoma subtypes

Journal of Cancer
2020 | Journal article
EID:

2-s2.0-85077706278

Contributors: Kosela-Paterczyk, H.; Paziewska, A.; Kulecka, M.; Balabas, A.; Kluska, A.; Dabrowska, M.; Piatkowska, M.; Zeber-Lubecka, N.; Ambrozkiewicz, F.; Karczmarski, J. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

In search for interplay between stool microRNAs, microbiota and short chain fatty acids in Crohn’s disease - a preliminary study

BMC Gastroenterology
2020-12 | Journal article
Part of ISSN: 1471-230X
Contributors: Jakub Karczmarski
Source: Self-asserted source
Jakub Karczmarski

The composition and richness of the gut microbiota differentiate the top Polish endurance athletes from sedentary controls

Gut Microbes
2020-09-02 | Journal article
Contributors: Maria Kulecka; Barbara Fraczek; Michal Mikula; Natalia Zeber-Lubecka; Jakub Karczmarski; Agnieszka Paziewska; Filip Ambrozkiewicz; Katarzyna Jagusztyn-Krynicka; Paweł Cieszczyk; Jerzy Ostrowski
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Crossref

Challenges in Cancer Biomarker Discovery Exemplified by the Identification of Diagnostic MicroRNAs in Prostate Tissues

BioMed Research International
2020-01 | Journal article
Contributors: Filip Ambrozkiewicz; Jakub Karczmarski; Maria Kulecka; Agnieszka Paziewska; Magdalena Cybulska; Michal Szymanski; Jakub Dobruch; Artur Antoniewicz; Michal Mikula; Jerzy Ostrowski et al.
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Crossref

Common functional alterations identified in blood transcriptome of autoimmune cholestatic liver and inflammatory bowel diseases

Scientific Reports
2019 | Journal article
EID:

2-s2.0-85065661460

Contributors: Ostrowski, J.; Goryca, K.; Lazowska, I.; Rogowska, A.; Paziewska, A.; Dabrowska, M.; Ambrozkiewicz, F.; Karczmarski, J.; Balabas, A.; Kluska, A. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Mutation Profiling of Premalignant Colorectal Neoplasia

Gastroenterology Research and Practice
2019 | Journal article
EID:

2-s2.0-85075783818

Contributors: Karczmarski, J.; Goryca, K.; Pachlewski, J.; Dabrowska, M.; Pysniak, K.; Paziewska, A.; Kulecka, M.; Lenarcik, M.; Mroz, A.; Mikula, M. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Redefining the Practical Utility of Blood Transcriptome Biomarkers in Inflammatory Bowel Diseases

Journal of Crohn's and Colitis
2019 | Journal article
EID:

2-s2.0-85068538010

Contributors: Ostrowski, J.; Dabrowska, M.; Lazowska, I.; Paziewska, A.; Balabas, A.; Kluska, A.; Kulecka, M.; Karczmarski, J.; Ambrozkiewicz, F.; Piatkowska, M. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Challenges in Stratifying the Molecular Variability of Patient-Derived Colon Tumor Xenografts

BioMed Research International
2018 | Journal article
EID:

2-s2.0-85059478406

Contributors: Cybulska, M.; Olesinski, T.; Goryca, K.; Paczkowska, K.; Statkiewicz, M.; Kopczynski, M.; Grochowska, A.; Unrug-Bielawska, K.; Tyl-Bielicka, A.; Gajewska, M. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Mass Spectrometry-Based Comprehensive Analysis of Pancreatic Cyst Fluids

BioMed Research International
2018 | Journal article
EID:

2-s2.0-85058795411

Contributors: Paziewska, A.; Polkowski, M.; Rubel, T.; Karczmarski, J.; Wiechowska-Kozlowska, A.; Dabrowska, M.; Mikula, M.; Dadlez, M.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

A heterozygous mutation in GOT1 is associated with familial macro-aspartate aminotransferase

Journal of Hepatology
2017 | Journal article
EID:

2-s2.0-85028315374

Contributors: Kulecka, M.; Wierzbicka, A.; Paziewska, A.; Mikula, M.; Habior, A.; Janczyk, W.; Dabrowska, M.; Karczmarski, J.; Lazniewski, M.; Ginalski, K. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

A novel approach to genome-wide association analysis identifies genetic associations with primary biliary cholangitis and primary sclerosing cholangitis in Polish patients

BMC Medical Genomics
2017 | Journal article
EID:

2-s2.0-85009967863

Contributors: Paziewska, A.; Habior, A.; Rogowska, A.; Zych, W.; Goryca, K.; Karczmarski, J.; Dabrowska, M.; Ambrozkiewicz, F.; Walewska-Zielecka, B.; Krawczyk, M. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

A strong neutrophil elastase proteolytic fingerprint marks the carcinoma tumor proteome

Molecular and Cellular Proteomics
2017 | Journal article
EID:

2-s2.0-85013150686

Contributors: Kistowski, M.; Dêbski, J.; Karczmarski, J.; Paziewska, A.; Olêdzki, J.; Mikula, M.; Ostrowski, J.; Dadlez, M.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Genetic architecture differences between pediatric and adult-onset inflammatory bowel diseases in the Polish population

Scientific Reports
2016 | Journal article
EID:

2-s2.0-85007079708

Contributors: Ostrowski, J.; Paziewska, A.; Lazowska, I.; Ambrozkiewicz, F.; Goryca, K.; Kulecka, M.; Rawa, T.; Karczmarski, J.; Dabrowska, M.; Zeber-Lubecka, N. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Genome-wide co-localization of active EGFR and downstream ERK pathway kinases mirrors mitogen-inducible RNA polymerase 2 genomic occupancy

Nucleic Acids Research
2016 | Journal article
EID:

2-s2.0-85016142342

Contributors: Mikula, M.; Skrzypczak, M.; Goryca, K.; Paczkowska, K.; Ledwon, J.K.; Statkiewicz, M.; Kulecka, M.; Grzelak, M.; Dabrowska, M.; Kuklinska, U. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Limited prolonged effects of rifaximin treatment on irritable bowel syndrome-related differences in the fecal microbiome and metabolome

Gut Microbes
2016 | Journal article
EID:

2-s2.0-84981710144

Contributors: Zeber-Lubecka, N.; Kulecka, M.; Ambrozkiewicz, F.; Paziewska, A.; Goryca, K.; Karczmarski, J.; Rubel, T.; Wojtowicz, W.; Mlynarz, P.; Marczak, L. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Beads-free protein immunoprecipitation for a mass spectrometry-based interactome and posttranslational modifications analysis

Proteome Science
2015 | Journal article
EID:

2-s2.0-84940521688

Contributors: Mikula, M.; Rubel, T.; Karczmarski, J.; Statkiewicz, M.; Bomsztyk, K.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Combination testing using a single MSH5 variant alongside HLA haplotypes improves the sensitivity of predicting coeliac disease risk in the Polish population

PLoS ONE
2015 | Journal article
EID:

2-s2.0-84947244014

Contributors: Paziewska, A.; Cukrowska, B.; Dabrowska, M.; Goryca, K.; Piatkowska, M.; Kluska, A.; Mikula, M.; Karczmarski, J.; Oralewska, B.; Rybak, A. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Limited predictive value of achieving beneficial plasma (Z)-endoxifen threshold level by CYP2D6 genotyping in tamoxifen-treated Polish women with breast cancer

BMC Cancer
2015 | Journal article
EID:

2-s2.0-84938076448

Contributors: Hennig, E.E.; Piatkowska, M.; Karczmarski, J.; Goryca, K.; Brewczynska, E.; Jazwiec, R.; Kluska, A.; Omiotek, R.; Paziewska, A.; Dadlez, M. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Histone H3 lysine 27 acetylation is altered in colon cancer

Clinical Proteomics
2014 | Journal article
EID:

2-s2.0-84903777938

Contributors: Karczmarski, J.; Rubel, T.; Paziewska, A.; Mikula, M.; Bujko, M.; Kober, P.; Dadlez, M.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Mitochondrial-related proteomic changes during obesity and fasting in mice are greater in the liver than skeletal muscles

Functional and Integrative Genomics
2014 | Journal article
EID:

2-s2.0-84898059177

Contributors: Nesteruk, M.; Hennig, E.E.; Mikula, M.; Karczmarski, J.; Dzwonek, A.; Goryca, K.; Rubel, T.; Paziewska, A.; Woszczynski, M.; Ledwon, J. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Pre-analytical-related variability influencing serum peptide profiles demonstrated in a mass spectrometry-based search for colorectal and prostate cancer biomarkers

Acta Biochimica Polonica
2013 | Journal article
EID:

2-s2.0-84885911460

Contributors: Karczmarski, J.; Rubel, T.; Mikula, M.; Wolski, J.; Rutkowski, A.; Zagorowicz, E.; Dadlez, M.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Inferring serum proteolytic activity from LC-MS/MS data.

BMC bioinformatics
2012 | Journal article
EID:

2-s2.0-84867006277

Contributors: Dittwald, P.; Ostrowski, J.; Karczmarski, J.; Gambin, A.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Pooled sample-based gwas: A cost-effective alternative for identifying colorectal and prostate cancer risk variants in the polish population

PLoS ONE
2012 | Journal article
EID:

2-s2.0-84859841512

Contributors: Gaj, P.; Maryan, N.; Hennig, E.E.; Ledwon, J.K.; Paziewska, A.; Majewska, A.; Karczmarski, J.; Nesteruk, M.; Wolski, J.; Antoniewicz, A.A. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Inferring serum proteolytic activity from LC-MS/MS data

2011 IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2011
2011 | Conference paper
EID:

2-s2.0-79953828259

Contributors: Dittwald, P.; Ostrowski, J.; Karczmarski, J.; Gambin, A.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Integrating proteomic and transcriptomic high-throughput surveys for search of new biomarkers of colon tumors

Functional and Integrative Genomics
2011 | Journal article
EID:

2-s2.0-79958116710

Contributors: Mikula, M.; Rubel, T.; Karczmarski, J.; Goryca, K.; Dadlez, M.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Comprehensive analysis of the palindromic motif TCTCGCGAGA: A regulatory element of the HNRNPK promoter

DNA Research
2010 | Journal article
EID:

2-s2.0-77955873057

Contributors: Mikula, M.; Gaj, P.; Dzwonek, K.; Rubel, T.; Karczmarski, J.; Paziewska, A.; Dzwonek, A.; Bragoszewski, P.; Dadlez, M.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

An integrated LC-ESI-MS platform for quantitation of serum peptide ladders. Application for colon carcinoma study

Proteomics - Clinical Applications
2009 | Journal article
EID:

2-s2.0-70350579264

Contributors: Bakun, M.; Karczmarski, J.; Poznanski, J.; Rubel, T.; Rozga, M.; Malinowska, A.; Sands, D.; Hennig, E.; Oledzki, J.; Ostrowski, J. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Two-stage model-based clustering for liquid chromatography mass spectrometry data analysis

Statistical Applications in Genetics and Molecular Biology
2009 | Journal article
EID:

2-s2.0-62449120590

Contributors: Łuksza, M.; Kluge, B.; Ostrowski, J.; Karczmarski, J.; Gambin, A.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Automated reduction and interpretation of multidimensional mass spectra for analysis of complex peptide mixtures

International Journal of Mass Spectrometry
2007 | Journal article
EID:

2-s2.0-33845584344

Contributors: Gambin, A.; Dutkowski, J.; Karczmarski, J.; Kluge, B.; Kowalczyk, K.; Ostrowski, J.; Poznański, J.; Tiuryn, J.; Bakun, M.; Dadlez, M.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Molecular defense mechanisms of Barrett's metaplasia estimated by an integrative genomics

Journal of Molecular Medicine
2007 | Journal article
EID:

2-s2.0-34447328450

Contributors: Ostrowski, J.; Mikula, M.; Karczmarski, J.; Rubel, T.; Wyrwicz, L.S.; Bragoszewski, P.; Gaj, P.; Dadlez, M.; Butruk, E.; Regula, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Casein kinases phosphorylate multiple residues spanning the entire hnRNP K length

Biochimica et Biophysica Acta - Proteins and Proteomics
2006 | Journal article
EID:

2-s2.0-33644524052

Contributors: Mikula, M.; Karczmarski, J.; Dzwonek, A.; Rubel, T.; Hennig, E.; Dadlez, M.; Bujnicki, J.M.; Bomsztyk, K.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Editing of hnRNP K protein mRNA in colorectal adenocarcinoma and surrounding mucosa

British Journal of Cancer
2006 | Journal article
EID:

2-s2.0-33344474543

Contributors: Klimek-Tomczak, K.; Mikula, M.; Dzwonek, A.; Paziewska, A.; Karczmarski, J.; Hennig, E.; Bujnicki, J.M.; Bra̧goszewski, P.; Denisenko, O.; Bomsztyk, K. et al.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Efficient model-based clustering for LC-MS data

Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
2006 | Book
EID:

2-s2.0-33750230354

Contributors: Łuksza, M.; Kluge, B.; Ostrowski, J.; Karczmarski, J.; Gambin, A.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier

Landscape of the hnRNP K protein-protein interactome

Proteomics
2006 | Journal article
EID:

2-s2.0-33646265020

Contributors: Mikula, M.; Dzwonek, A.; Karczmarski, J.; Rubel, T.; Dadlez, M.; Wyrwicz, L.S.; Bomsztyk, K.; Ostrowski, J.
Source: Self-asserted source
Jakub Karczmarski via Scopus - Elsevier