Reconstructing and counting genomic fragments through tagmentation-based haploid phasing

Single-cell sequencing provides a new level of granularity in studying the heterogeneous nature of cancer cells. For some cancers, this heterogeneity is the result of copy number changes of genes within the cellular genomes. The ability to accurately determine such copy number changes is critical in tracing and understanding tumorigenesis. Current single-cell genome sequencing methodologies infer copy numbers based on statistical approaches followed by rounding decimal numbers to integer values. Such methodologies are sample dependent, have varying calling sensitivities which heavily depend on the sample’s ploidy and are sensitive to noise in sequencing data. In this paper we have demonstrated the concept of integer-counting by using a novel bioinformatic algorithm built on our library construction chemistry in order to detect the discrete nature of the genome.Supplementary material: [https://cherry.chem.bg.ac.rs/handle/123456789/4686

Strain differences in the toxicity of the vitamin K antagonist warfarin in rats

Warfarin (3-(α-acetonylbenzyl)-4-hydroxy coumarin) is a vitamin K (VK) antagonist that inhibits vitamin K-dependent (VKD) processes, such as blood coagulation. It also exerts an influence on some non-VKD-related activities. In this study, the effect of sub-acute (30-day) oral warfarin (2 and 1 mg L-1) intake on hematological parameters was examined in two rat strains, Albino Oxford (AO) and Dark Agouti (DA), that differ in their sensitivity to certain chemicals. Greater susceptibility to the anticoagulant effect of 2 mg L-1 of warfarin was observed in AO rats and was associated with an increase in the relevant hematological parameters in this strain. Although both strains responded to 2 mg L-1 of warfarin with quantitative changes in the peripheral blood leukocytes, differential bone marrow and lung responses were observed. Strain-related differences in the pro-inflammatory activity of peripheral blood granulocytes and in mononuclear cell IFN-γ production were observed. Recognition of differences in quantitative and qualitative effects of oral warfarin on processes other than hemostasis might be of relevance for those humans who are on warfarin therapy.Varfarin (3-α-acetonilbenzil)-4–hidroksikumarin) je antagonist vitamina K (VK) koji inhibira procese zavisne od ovog vitamina, uključujući koagulaciju krvi. Osim toga, on ispoljava i aktivnosti koje ne zavise od vitamina K kao što su anti-tumorska i imunomodulatorna aktivnost. U ovom radu je ispitan efekat subakutnog (30 dana) oralnog unosa varfarina na hematološke parametre i aktivnost leukocita periferne krvi kod dva soja pacova Albino Oxford (AO) i Dark Agouti (DA) koji se raz- likuju u osetljivosti na iste hemijske agense. Kod jedinki AO soja zapažena je veća smrtnost nakon konzumiranja doze od 4 mg L–1 kao i veća osetljivost na antikoagulantno dejstvo varfarina pri nižim dozama (2 mg L–1) koje je praćeno povećanjem nekih hematoloških parametara. Iako kod jedinki oba soja dolazi do povećanja broja neutrofilnih leukocita periferne krvi pri dozi od 2 mg L–1, promene u osnovnim proinflamatornim aktivnostima ovih ćelija su zapažene samo kod jedinki DA soja. Promene u broju neutrofilnih leukocita u krvi DA jedinki su praćene povećanjem broja granulocitnih prekursora u koštanoj srži, dok prisustvo neutrofila u plućima AO jedinki ukazuje na razmenu ćelija između periferne krvi i plućnog intravaskularnog pula ćelija. Diferencijalne sojno–zavisne promene u aktivnosti mononuklearnih ćelija periferne krvi su takođe zapažene. Razlike u efektu oralno unetog varfarina mogu da imaju implikacije za osobe na oralnoj varfarinskoj terapiji.Projekat ministarstva br. 17303

Strain differences in the toxicity of the vitamin K antagonist warfarin in rats

Warfarin (3-(α-acetonylbenzyl)-4-hydroxy coumarin) is a vitamin K (VK) antagonist that inhibits vitamin K-dependent (VKD) processes, such as blood coagulation. It also exerts an influence on some non-VKD-related activities. In this study, the effect of sub-acute (30-day) oral warfarin (2 and 1 mg L-1) intake on hematological parameters was examined in two rat strains, Albino Oxford (AO) and Dark Agouti (DA), that differ in their sensitivity to certain chemicals. Greater susceptibility to the anticoagulant effect of 2 mg L-1 of warfarin was observed in AO rats and was associated with an increase in the relevant hematological parameters in this strain. Although both strains responded to 2 mg L-1 of warfarin with quantitative changes in the peripheral blood leukocytes, differential bone marrow and lung responses were observed. Strain-related differences in the pro-inflammatory activity of peripheral blood granulocytes and in mononuclear cell IFN-γ production were observed. Recognition of differences in quantitative and qualitative effects of oral warfarin on processes other than hemostasis might be of relevance for those humans who are on warfarin therapy.Varfarin (3-α-acetonilbenzil)-4–hidroksikumarin) je antagonist vitamina K (VK) koji inhibira procese zavisne od ovog vitamina, uključujući koagulaciju krvi. Osim toga, on ispoljava i aktivnosti koje ne zavise od vitamina K kao što su anti-tumorska i imunomodulatorna aktivnost. U ovom radu je ispitan efekat subakutnog (30 dana) oralnog unosa varfarina na hematološke parametre i aktivnost leukocita periferne krvi kod dva soja pacova Albino Oxford (AO) i Dark Agouti (DA) koji se raz- likuju u osetljivosti na iste hemijske agense. Kod jedinki AO soja zapažena je veća smrtnost nakon konzumiranja doze od 4 mg L–1 kao i veća osetljivost na antikoagulantno dejstvo varfarina pri nižim dozama (2 mg L–1) koje je praćeno povećanjem nekih hematoloških parametara. Iako kod jedinki oba soja dolazi do povećanja broja neutrofilnih leukocita periferne krvi pri dozi od 2 mg L–1, promene u osnovnim proinflamatornim aktivnostima ovih ćelija su zapažene samo kod jedinki DA soja. Promene u broju neutrofilnih leukocita u krvi DA jedinki su praćene povećanjem broja granulocitnih prekursora u koštanoj srži, dok prisustvo neutrofila u plućima AO jedinki ukazuje na razmenu ćelija između periferne krvi i plućnog intravaskularnog pula ćelija. Diferencijalne sojno–zavisne promene u aktivnosti mononuklearnih ćelija periferne krvi su takođe zapažene. Razlike u efektu oralno unetog varfarina mogu da imaju implikacije za osobe na oralnoj varfarinskoj terapiji.Projekat ministarstva br. 17303

Advances in formal Slavic linguistics 2016

Advances in Formal Slavic Linguistics 2016 initiates a new series of collective volumes on formal Slavic linguistics. It presents a selection of high quality papers authored by young and senior linguists from around the world and contains both empirically oriented work, underpinned by up-to-date experimental methods, as well as more theoretically grounded contributions. The volume covers all major linguistic areas, including morphosyntax, semantics, pragmatics, phonology, and their mutual interfaces. The particular topics discussed include argument structure, word order, case, agreement, tense, aspect, clausal left periphery, or segmental phonology. The topical breadth and analytical depth of the contributions reflect the vitality of the field of formal Slavic linguistics and prove its relevance to the global linguistic endeavour. Early versions of the papers included in this volume were presented at the conference on Formal Description of Slavic Languages 12 or at the satellite Workshop on Formal and Experimental Semantics and Pragmatics, which were held on December 7-10, 2016 in Berlin

Advances in formal Slavic linguistics 2016

Advances in Formal Slavic Linguistics 2016 initiates a new series of collective volumes on formal Slavic linguistics. It presents a selection of high quality papers authored by young and senior linguists from around the world and contains both empirically oriented work, underpinned by up-to-date experimental methods, as well as more theoretically grounded contributions. The volume covers all major linguistic areas, including morphosyntax, semantics, pragmatics, phonology, and their mutual interfaces. The particular topics discussed include argument structure, word order, case, agreement, tense, aspect, clausal left periphery, or segmental phonology. The topical breadth and analytical depth of the contributions reflect the vitality of the field of formal Slavic linguistics and prove its relevance to the global linguistic endeavour. Early versions of the papers included in this volume were presented at the conference on Formal Description of Slavic Languages 12 or at the satellite Workshop on Formal and Experimental Semantics and Pragmatics, which were held on December 7-10, 2016 in Berlin

Advances in formal Slavic linguistics 2016

Advances in Formal Slavic Linguistics 2016 initiates a new series of collective volumes on formal Slavic linguistics. It presents a selection of high quality papers authored by young and senior linguists from around the world and contains both empirically oriented work, underpinned by up-to-date experimental methods, as well as more theoretically grounded contributions. The volume covers all major linguistic areas, including morphosyntax, semantics, pragmatics, phonology, and their mutual interfaces. The particular topics discussed include argument structure, word order, case, agreement, tense, aspect, clausal left periphery, or segmental phonology. The topical breadth and analytical depth of the contributions reflect the vitality of the field of formal Slavic linguistics and prove its relevance to the global linguistic endeavour. Early versions of the papers included in this volume were presented at the conference on Formal Description of Slavic Languages 12 or at the satellite Workshop on Formal and Experimental Semantics and Pragmatics, which were held on December 7-10, 2016 in Berlin

Advances in formal Slavic linguistics 2016

Advances in Formal Slavic Linguistics 2016 initiates a new series of collective volumes on formal Slavic linguistics. It presents a selection of high quality papers authored by young and senior linguists from around the world and contains both empirically oriented work, underpinned by up-to-date experimental methods, as well as more theoretically grounded contributions. The volume covers all major linguistic areas, including morphosyntax, semantics, pragmatics, phonology, and their mutual interfaces. The particular topics discussed include argument structure, word order, case, agreement, tense, aspect, clausal left periphery, or segmental phonology. The topical breadth and analytical depth of the contributions reflect the vitality of the field of formal Slavic linguistics and prove its relevance to the global linguistic endeavour. Early versions of the papers included in this volume were presented at the conference on Formal Description of Slavic Languages 12 or at the satellite Workshop on Formal and Experimental Semantics and Pragmatics, which were held on December 7-10, 2016 in Berlin

Advances in formal Slavic linguistics 2016

Advances in Formal Slavic Linguistics 2016 initiates a new series of collective volumes on formal Slavic linguistics. It presents a selection of high quality papers authored by young and senior linguists from around the world and contains both empirically oriented work, underpinned by up-to-date experimental methods, as well as more theoretically grounded contributions. The volume covers all major linguistic areas, including morphosyntax, semantics, pragmatics, phonology, and their mutual interfaces. The particular topics discussed include argument structure, word order, case, agreement, tense, aspect, clausal left periphery, or segmental phonology. The topical breadth and analytical depth of the contributions reflect the vitality of the field of formal Slavic linguistics and prove its relevance to the global linguistic endeavour. Early versions of the papers included in this volume were presented at the conference on Formal Description of Slavic Languages 12 or at the satellite Workshop on Formal and Experimental Semantics and Pragmatics, which were held on December 7-10, 2016 in Berlin

Advances in formal Slavic linguistics 2016

Advances in Formal Slavic Linguistics 2016 initiates a new series of collective volumes on formal Slavic linguistics. It presents a selection of high quality papers authored by young and senior linguists from around the world and contains both empirically oriented work, underpinned by up-to-date experimental methods, as well as more theoretically grounded contributions. The volume covers all major linguistic areas, including morphosyntax, semantics, pragmatics, phonology, and their mutual interfaces. The particular topics discussed include argument structure, word order, case, agreement, tense, aspect, clausal left periphery, or segmental phonology. The topical breadth and analytical depth of the contributions reflect the vitality of the field of formal Slavic linguistics and prove its relevance to the global linguistic endeavour. Early versions of the papers included in this volume were presented at the conference on Formal Description of Slavic Languages 12 or at the satellite Workshop on Formal and Experimental Semantics and Pragmatics, which were held on December 7-10, 2016 in Berlin

Advances in formal Slavic linguistics 2016

Advances in Formal Slavic Linguistics 2016 initiates a new series of collective volumes on formal Slavic linguistics. It presents a selection of high quality papers authored by young and senior linguists from around the world and contains both empirically oriented work, underpinned by up-to-date experimental methods, as well as more theoretically grounded contributions. The volume covers all major linguistic areas, including morphosyntax, semantics, pragmatics, phonology, and their mutual interfaces. The particular topics discussed include argument structure, word order, case, agreement, tense, aspect, clausal left periphery, or segmental phonology. The topical breadth and analytical depth of the contributions reflect the vitality of the field of formal Slavic linguistics and prove its relevance to the global linguistic endeavour. Early versions of the papers included in this volume were presented at the conference on Formal Description of Slavic Languages 12 or at the satellite Workshop on Formal and Experimental Semantics and Pragmatics, which were held on December 7-10, 2016 in Berlin