Course Information

C7940 Bioanalytics I - Biomacromolecules

Extent and Intensity

2/0/0. 2 credit(s) (plus extra credits for completion). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Department of Experimental Biology – Biology Section – Faculty of Science

Timetable

Mon 11:00–11:50 AK1

Prerequisites

basic knowledge of biochemistry is pre-requisited (C3181 biochemistry I, C4182 biochemistry II). C7895 mass spectrometry of biomolecules is a recommended lecture.

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 16 fields of study the course is directly associated with, display

Course objectives

main objectives of lecture: introduction into bioanalytics; understanding the approaches in analysis of biomacromolecules snd suprabiomolecular structures (nucleic acids, proteins and their complexes, lipidic structures), with special regard to utilisation of mass spectrometry as a versatile analytical tool; managing the important theoretical background for understanding of those approaches

Syllabus

• 1) analytical approaches in bioanalytics – demands; high throughput, shotgun analysis, standardization
• affinity methods – principles, carry-out and use (separation, interaction studies), IMAC, APAGE
• 2) immunoanalytic methods – principles; immunoanalysis – precipitation, agglutination, immunoassay, methods: FIA, LIA, RIA, EIA, ELISA, IAC, IACE, SELDI…
• 3) gel electrophoresis – principles, carry-out (1D, 2D); blotting
• 4) genomics (analysis of DNA) – fundamentals of genetics (structure, function of DNA), analytical approaches: PCR, restriction enzymes; direct and indirect sequencing; DNA methylation and its analysis
• 5) basics of mass spectrometry – principles; ionisation, mass analysis (tandem MS, vacuum technique), detection; mass spectrum
• proteomics (analysis of proteins and their complexes) – fundamentals (structure of proteins and protein complexes)
• expression proteomics – methodology, methods (2D HPLC, 2D PAGE, 2D imaging, MS: bottom-up, top-down)
• 6) functional proteomics - methodology, methods (TAP-tagging, Two-Hybrid, SEAM strategy, ion-mobility strategy)
• 7) bioinformatics in MS-assisted proteomics – identification of protein in organisms with and without sequenced genomes (MS BLAST, MultiTag)
• 8) quantitative analysis of protein complexes – internal standard method; mass tagging (ICAT, ICMT, TMT, MCAT, GIST, SILAC, SIL), absolute quantification of proteins and peptides by MS
• 9) structural proteomics – methodology (chemical cross-linking), methods (FTICR MS)
• 10) lipidomics (analysis of lipids and cellular membranes) – fundamentals (structure and function of cellular membranes and their components), analytical approaches: lipid extraction, TLC, GC, LC, SFC, GPC, MS analysis (PIS, HGS, FAS), shot-gun analysis

Literature

• MUSHEGIAN, Arcady R. Foundations of comparative genomics. 1st ed. Burlington: Elsevier Academic Press, 2007, 265 s. ISBN 9780120887941. info
• Quantitative proteomics by mass spectrometry. Edited by Salvatore Sechi. Totowa: Humana Press, 2007, x, 218. ISBN 9781588295712. info
• BENFEY, Philip N. and Alex D. PROTOPAPAS. Essentials of genomics. Upper Saddle River: Prentice-Hall, 2005, xiv, 346. ISBN 013047018X. info
• MIKKELSEN, Susan R. and Eduardo CORTÓN. Bioanalytical chemistry. Hoboken, N.J.: John Wiley & Sons, 2004, xvii, 361. ISBN 0471544477. info
• LIEBLER, Daniel C. Introduction to proteomics : tools for the new biology. Edited by John R. Yates. Totowa, NJ: Humana Press, 2002, ix, 198. ISBN 0896039927. info
• Posttranslational modifications of proteins : tools for functional proteomics. Edited by Christoph Kannicht. Totowa, N.J.: Humana Press, 2002, xi, 322. ISBN 0896036782. info

Assessment methods

the lecture is based on ppt presentation and its explication, presentation its-self will be available as a study material (black-and-white printable pdf with high resolution and restricted access rights). it is recommended to attend the lecture, because of the explication, which significantly extends the presentation and because there are no available textbooks covering the subject.
oral examination; students are required to understand and be familiar with the principles and its applications; enumerations, listing of facts and suchs would not be required.

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.

C7940 Bioanalytics I - Biomacromolecules

Extent and Intensity

2/0/0. 2 credit(s) (plus extra credits for completion). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Department of Experimental Biology – Biology Section – Faculty of Science

Timetable

Mon 12:00–13:50 AK1

Prerequisites

Basic knowledge of biochemistry is prerequisited (C3181 Biochemistry I, C4182 Biochemistry II). C7895 Mass Spectrometry of biomolecules is a recommended lecture

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 16 fields of study the course is directly associated with, display

Course objectives

Subject summarises the basic knowledge of the analytical approaches in analysis of biomacromolecules snd suprabiomolecular structures and also important theoretical background for their understanding.

Syllabus

• 1) analytical approaches in v bioanalytics – demands; high throuput, shotgun analysis, standardization
• afinity methods – principles, carry-out and use (separation, interaction studies), IMAC, APAGE
• 2) immunoanalytic methods – principles; immunoanalysis – precipitation, agglutination, immunoessay, methods: FIA, LIA, RIA, EIA, ELISA, IAC, IACE, SELDI…
• 3) gel electrophoresis – principles, carry-out (1D, 2D); blotting
• 4) genomics (analysis of DNA) – fundaments of genetics (structure, function of DNA), analytical approaches: PCR, restriction enzymes; direct and indirect sequencing; DNA methylation and its analysis
• 5) basics of mass spectrometry – principles; ionisation, mass analysis (tandem MS, vacuum technique), detection; mass spectrum
• proteomics (analysis of proteins and their complexes) – fundamentals (structure of proteins and protein complexes)
• expression proteomics – methodology, methods (2D HPLC, 2D PAGE, 2D imaging, MS: bottom-up, top-down)
• 6) functional proteomics - methodology, methods (TAP-tagging, Two-Hybrid, SEAM strategy, ion-mobility strategy)
• 7) bioinformatics in MS-assisted proteomics – identification of protein in organisms with and without sequenced genoms (MS BLAST, MultiTag)
• 8) quantitative analysis of protein complexes – internal standard method; mass tagging (ICAT, ICMT, TMT, MCAT, GIST, SILAC, SIL), absolute quantification of proteins and peptides by MS
• 9) structural proteomics – methodology (chemical cross-linking), methods (FTICR MS)
• 10) lipidomics (analysis of lipids and cellular membranes) – fundamentals (structure and function of cellular membranes and their components), analytical approaches: lipid extraction, TLC, GC, LC, SFC, GPC, MS analysis (PIS, HGS, FAS), shot-gun analysis

Assessment methods (in Czech)

Přednáška je založena na prezentaci, která bude k dispozici ve formátu PDF. Předmět je ukončen ústní zkouškou.

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.

C7940 Bioanalytics I - Biomacromolecules

Extent and Intensity

2/0/0. 2 credit(s) (fasci plus compl plus > 4). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Department of Chemistry – Chemistry Section – Faculty of Science

Timetable

Tue 12:00–13:50 Kontaktujte učitele

Prerequisites

Basic knowledge of biochemistry is prerequisited (C3181 Biochemistry I, C4182 Biochemistry II). C7895 Mass Spectrometry of biomolecules is a recommended lecture

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 16 fields of study the course is directly associated with, display

Course objectives

Subject summarises the basic knowledge of the analytical approaches in analysis of biomacromolecules snd suprabiomolecular structures and also important theoretical background for their understanding.

Syllabus

• 1) analytical approaches in v bioanalytics – demands; high throuput, shotgun analysis, standardization
• afinity methods – principles, carry-out and use (separation, interaction studies), IMAC, APAGE
• 2) immunoanalytic methods – principles; immunoanalysis – precipitation, agglutination, immunoessay, methods: FIA, LIA, RIA, EIA, ELISA, IAC, IACE, SELDI…
• 3) gel electrophoresis – principles, carry-out (1D, 2D); blotting
• 4) genomics (analysis of DNA) – fundaments of genetics (structure, function of DNA), analytical approaches: PCR, restriction enzymes; direct and indirect sequencing; DNA methylation and its analysis
• 5) basics of mass spectrometry – principles; ionisation, mass analysis (tandem MS, vacuum technique), detection; mass spectrum
• proteomics (analysis of proteins and their complexes) – fundamentals (structure of proteins and protein complexes)
• expression proteomics – methodology, methods (2D HPLC, 2D PAGE, 2D imaging, MS: bottom-up, top-down)
• 6) functional proteomics - methodology, methods (TAP-tagging, Two-Hybrid, SEAM strategy, ion-mobility strategy)
• 7) bioinformatics in MS-assisted proteomics – identification of protein in organisms with and without sequenced genoms (MS BLAST, MultiTag)
• 8) quantitative analysis of protein complexes – internal standard method; mass tagging (ICAT, ICMT, TMT, MCAT, GIST, SILAC, SIL), absolute quantification of proteins and peptides by MS
• 9) structural proteomics – methodology (chemical cross-linking), methods (FTICR MS)
• 10) lipidomics (analysis of lipids and cellular membranes) – fundamentals (structure and function of cellular membranes and their components), analytical approaches: lipid extraction, TLC, GC, LC, SFC, GPC, MS analysis (PIS, HGS, FAS), shot-gun analysis

Assessment methods (in Czech)

Přednáška je založena na prezentaci, která bude k dispozici ve formátu PDF. Předmět je ukončen ústní zkouškou.

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.

C7940 Bioanalytics I - Biomacromolecules

Extent and Intensity

2/0/0. 2 credit(s). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Chemistry Section – Faculty of Science

Timetable

Fri 8:00–9:50 Kontaktujte učitele

Prerequisites

Basic knowledge of biochemistry is prerequisited (C3181 Biochemistry I, C4182 Biochemistry II). C7895 Mass Spectrometry of biomolecules is a recommended lecture

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 14 fields of study the course is directly associated with, display

Course objectives

Subject summarises the basic knowledge of the analytical approaches in analysis of biomacromolecules snd suprabiomolecular structures and also important theoretical background for their understanding.

Syllabus

• - analytical approaches in v bioanalytics demands; high throuput, shotgun analysis, standardisation; affinity methods principles, conduct and use (separation, interaction studies), IMAC, APAGE
• - immunoanalytic methods principles; immunoanalysis precipitation, agglutination, immunoessay, methods: FIA, LIA, RIA, EIA, ELISA, IAC, IACE, SELDI
• - gel electrophoresis principles, conduct (1D, 2D); blotting
• - genomics (analysis of DNA) fundaments of genetics (structura, function of DNA), analytical approaches: PCR, restriction enzymes; sequencing; DNA methylation and its analysis
• - proteomics (analysis of proteins and their complexes) fundamentals of proteomics (structure of proteins and protein complexes); expression proteomics methodology, methods (2D HPLC, 2D PAGE, MS: bottom-up, top-down),
• - functional proteomics - methodology, methods (TAP-tagging, Two-Hybrid, SEAM strategy)
• - bioinformatics in MS-assisted proteomics identification of protein in organisms with and without sequenced genoms (MS BLAST, MultiTag)
• - quantitative analysis of protein complexes internal standard method; mass tagging (ICAT, ICMT, TMT, MCAT, GIST, SILAC, SIL), absolute quantification of proteins and peptides by MS
• - structural proteomics methodology (chemical cross-linking), methods (FTICR MS)
• - lipidomics (analysis of lipids and cellular membranes) fundamentals in lipidomics (structure and function of cell. membranes and their components), analytical approaches: lipid extraction, TLC, GC, LC, SFC, GPC, MS (PIS, HGS, FAS)

Assessment methods (in Czech)

Přednáška je založena na prezentaci, která bude k dispozici ve formátu PDF. Předmět je ukončen ústní zkouškou.

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.

C7940 Bioanalytical Methods

Extent and Intensity

2/0/0. 2 credit(s). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Chemistry Section – Faculty of Science

Timetable

Fri 16:00–16:50 Cpm,02016

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 14 fields of study the course is directly associated with, display

Course objectives

Subject summarises the basic knowledge of the analytical approaches in analysis of biomacromolecules snd supramolecular structures for students of non-biological and non-biochemical branches and also important theoretical background for their understanding.

Syllabus

• - Analytical approaches in bioanalysis - Affinity methods - Immunoanalysis - Analysis of DNA - Analysis of protein complexes - Analysis of lipids and cell membranes

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.

C7940 Bioanalytical Methods

Extent and Intensity

1/0/0. 1 credit(s) (fasci plus compl plus > 4). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Chemistry Section – Faculty of Science

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 15 fields of study the course is directly associated with, display

Course objectives

Subject briefly summarises the basic knowledge of the analytical approaches in biological field of research for students of non-biological and non-biochemical branches and also important theoretical background for their understanding.

Syllabus

• 1) Analytical approaches in bioscience, high-throuput analyses (automatic analysers, multi-channel and multi-component analysis, validation, standardisation). 2) Special bioanalytical methods: chiroptical methods (optical rotational dispersion, circular dichroism), affinity methods (interactions of biochemical and fysiological nature as basics of affinity interactions, methods of the use of affinity interactions - immunoanalytical methods, affinity chromatography, affinity electrophoresis, qualitative and quantitative characterisation of affinity interaction), blotting. 3) Basics of immunochemistry - immunity system: antigen, antibody. 4) Immunoanlysis, in solutions, in gels, combined techniques. 5) Basics of molecular biology and genetics - bases, nucleoside, nucleotide, gene, genome, transcription, translation, structure and function of RNA and DNA. 6) Supramolecular analyses, molecular cytogenetics: DNA diagnostics - PCR and following methods (ACRS, PCR-ASO, DGGE, SSCP and CMC)

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.
The course is taught: every week.

C7940 Bioanalytical Methods

Extent and Intensity

1/0/0. 1 credit(s) (fasci plus compl plus > 4). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Chemistry Section – Faculty of Science

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 15 fields of study the course is directly associated with, display

Course objectives

Subject briefly summarises the basic knowledge of the analytical approaches in biological field of research for students of non-biological and non-biochemical branches and also important theoretical background for their understanding.

Syllabus

• 1) Analytical approaches in clinical chemistry and biochemistry, rutine analyses (automatic analysers, multi-channel and multi-component analysis, validation, standardisation), chiroptical methods (optical rotation dispersion, circular dichroism), affinity methods (interactions of biochemical and fysiological nature as basics of affinity interactions, methods of the use of affinity interactions - immunoanalytical methods, affinity chromatography, affinity electrophoresis, qualitativ and quantitativ characterisation of affinity interaction), blotting. 2) Basics of immunochemistry - immunity system: antigen, antibody. 3) Immunoanlysis, in solutions, in gels, combined techniques. 4) Basics of molecular biology and genetics - bases, nukleoside, nucleotide, gene, genome, transcription, translation, structure and function of RNA and DNA. 5) Supramolecular analytics, molekular cytogenetics - DNA diagnostics, DNA diagnostics - PCR and following methods (ACRS, PCR-ASO, DGGE, SSCP and CMC)

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.
The course is taught: every week.

C7940 Bioanalytical Methods

Extent and Intensity

1/0/0. 2 credit(s). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Chemistry Section – Faculty of Science

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 15 fields of study the course is directly associated with, display

Course objectives

Subject briefly summarises the basic knowledge of the analytical approaches in biological field of research for students of non-biological and non-biochemical branches and also important theoretical background for their understanding.

Syllabus

• 1) Analytical approaches in clinical chemistry and biochemistry, rutine analyses (automatic analysers, multi-channel and multi-component analysis, validation, standardisation), chiroptical methods (optical rotation dispersion, circular dichroism), affinity methods (interactions of biochemical and fysiological nature as basics of affinity interactions, methods of the use of affinity interactions - immunoanalytical methods, affinity chromatography, affinity electrophoresis, qualitativ and quantitativ characterisation of affinity interaction), blotting. 2) Basics of immunochemistry - immunity system: antigen, antibody. 3) Immunoanlysis, in solutions, in gels, combined techniques. 4) Basics of molecular biology and genetics - bases, nukleoside, nucleotide, gene, genome, transcription, translation, structure and function of RNA and DNA. 5) Supramolecular analytics, molekular cytogenetics - DNA diagnostics, DNA diagnostics - PCR and following methods (ACRS, PCR-ASO, DGGE, SSCP and CMC)

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.
The course is taught: every week.

C7940 Bioanalytical Methods

Extent and Intensity

1/0/0. 2 credit(s). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Chemistry Section – Faculty of Science

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 15 fields of study the course is directly associated with, display

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.
The course is taught: every week.

C7940 Bioanalytics I - Biomacromolecules

Extent and Intensity

2/0/0. 2 credit(s) (fasci plus compl plus > 4). Recommended Type of Completion: zk (examination). Other types of completion: k (colloquium).

Teacher(s)

doc. Mgr. Jan Havliš, Dr. (lecturer)

Guaranteed by

doc. Mgr. Jan Havliš, Dr.
Department of Chemistry – Chemistry Section – Faculty of Science

Prerequisites

Basic knowledge of biochemistry is prerequisited (C3181 Biochemistry I, C4182 Biochemistry II). C7895 Mass Spectrometry of biomolecules is a recommended lecture

Course Enrolment Limitations

The course is also offered to the students of the fields other than those the course is directly associated with.

fields of study / plans the course is directly associated with

there are 16 fields of study the course is directly associated with, display

Course objectives

Subject summarises the basic knowledge of the analytical approaches in analysis of biomacromolecules snd suprabiomolecular structures and also important theoretical background for their understanding.

Syllabus

• 1) analytical approaches in v bioanalytics – demands; high throuput, shotgun analysis, standardization
• afinity methods – principles, carry-out and use (separation, interaction studies), IMAC, APAGE
• 2) immunoanalytic methods – principles; immunoanalysis – precipitation, agglutination, immunoessay, methods: FIA, LIA, RIA, EIA, ELISA, IAC, IACE, SELDI…
• 3) gel electrophoresis – principles, carry-out (1D, 2D); blotting
• 4) genomics (analysis of DNA) – fundaments of genetics (structure, function of DNA), analytical approaches: PCR, restriction enzymes; direct and indirect sequencing; DNA methylation and its analysis
• 5) basics of mass spectrometry – principles; ionisation, mass analysis (tandem MS, vacuum technique), detection; mass spectrum
• proteomics (analysis of proteins and their complexes) – fundamentals (structure of proteins and protein complexes)
• expression proteomics – methodology, methods (2D HPLC, 2D PAGE, 2D imaging, MS: bottom-up, top-down)
• 6) functional proteomics - methodology, methods (TAP-tagging, Two-Hybrid, SEAM strategy, ion-mobility strategy)
• 7) bioinformatics in MS-assisted proteomics – identification of protein in organisms with and without sequenced genoms (MS BLAST, MultiTag)
• 8) quantitative analysis of protein complexes – internal standard method; mass tagging (ICAT, ICMT, TMT, MCAT, GIST, SILAC, SIL), absolute quantification of proteins and peptides by MS
• 9) structural proteomics – methodology (chemical cross-linking), methods (FTICR MS)
• 10) lipidomics (analysis of lipids and cellular membranes) – fundamentals (structure and function of cellular membranes and their components), analytical approaches: lipid extraction, TLC, GC, LC, SFC, GPC, MS analysis (PIS, HGS, FAS), shot-gun analysis

Assessment methods (in Czech)

Přednáška je založena na prezentaci, která bude k dispozici ve formátu PDF. Předmět je ukončen ústní zkouškou.

Language of instruction

Czech

Further Comments

The course can also be completed outside the examination period.
The course is taught annually.
The course is taught: every week.

• Enrolment Statistics (recent)