Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
Study time
Vecka 15
8.00
9.00
10.00
11.00
Måndag
6 april
Tisdag
7 april
Onsdag
8 april
12.00
13.00
14.00
15.00
16.00
Easter Monday
MBK-­‐Re-­‐test, 15.00-­‐
16.15, Meeting room
Individual studies
MBK-­‐Re-­‐examination, 9.00-­‐15.00, MF lecture room
Individual studies
Torsdag
9 april
Individual studies
Fredag
10 april
Individual studies
1
Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
1. Medical genetics, 13-17 april
Vecka 16
8.00
9.00
10.00
11.00
12.00
Introduction
Chromosomes and Chromosomal
abnormalities
AL
Kugelberssalen
PG
Kugelberssalen
Monday
13 april
13.00
14.00
15.00
16.00
Microdeletion and duplication syndromes
Lunch
Individual studies
AL
Kugelberssalen
Monogenic and complex disorders
Monogenic and complex disorders
Tuesday
14 april
Lunch
KLR and HM
Kugelberssalen
Prenatal diagnosis and genetic counselling
Wednesday
15 april
Cancer
Lunch
EB
Kugelberssalen
Thursday
16 april
Individual studies
KLR and HM
Kugelberssalen
Individual studies
ET
Kugelbergsalen
Individual studies - study questions
Lunch
Individual studies - preparation for exercises
Exercises in medical genetics *
Friday
17 april
ES, KLR, HM, AL
Astra (T3), Glaxo (T3), Berzelius (T3), Flemming (T4), Eugeniahemmet
Mandatory
Individual studies - preparation for exercises
Lärare:
AL
Agne Lieden
KLR Kristina Lagerstedt Robinson
PG
Peter Gustavsson
ET
Emma Tham
HM
Helena Malmgren
EB
Erik Björck
JL
Johanna Lundin
ES
Ellika Sahlin
* = mandatory
Kugelbergsalen, Karolinska Universitetssjukhuset Solna, Neurologhuset, R2:U1
Adresser till salar övriga veckor finns även på sista sidan i schemat
2
Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
2. Molecular biological techniques, April 20 - May 8
Vecka 17
8.00
Måndag
20 april
9.00
10.00
Introduction
Introductory Microbiology: Understanding Our
Microbiome
PA
6L
Tisdag
21 apr
Onsdag
22 apr
11.00
PA
6L
TJ
6L
15.00
Introduction to the lab*
Individual studies
FF
6L
Lunch
PSV
6L
Lab:*
cDNA synthesis and PCR
Group 5-8
Protein:protein
interactions
CZ
6L
Lab:*
Isolation of DNA fragments and restriction enzyme digestion and DNA cloning
Group 5-8
Course lab 2
Individual studies
CZ
6L
Global gene expression Immunohistochemistry
Methods to analyse DNA
16.00
Enzymes used in DNA Transfection and reporter genes
manipulation
Lunch
Course lab 2
Fredag
24 apr
Lunch
14.00
PA
6L
Real time PCR
Course lab 2
Torsdag
23 apr
13.00
VA
6L
Cloning techniques
and PCR
Lab:*
RNA extraction
Group 1-4
12.00
KY
6L
DNA-binding / promoter
Lab:*
recruitment, chromatin
RNA extraction
Group 5-8
PD
6L
Course lab 2
Lab:*
cDNA synthesis and PCR
Group 1-4
IN
Individual studies
Individual studies
Course lab 2
Protein analysis
(1D/2D Western, Mass- Lab:*
spec, proteomics), I
Isolation of DNA fragments and restriction enzyme digestion and DNA cloning
Group 1-4
IN
6F
Course lab 2
Alfred Nobels Allé 8, Lecture hall 6L; Hospital, Hus F, Blickagången 9, Kurslab 2
Lärare:
VA
Velmurugesan Arulampalam
TJ
Tomas Jakobsson
AV
Alessandra Villa
PS
Peter Swoboda
PD
Pauliina Damdimopoulou
KY
Konstantin Yakimchuk
IN
Ivan Nalvarte
CD
Carsten Daub
SLG Sylvie Le Guyader
PSV
Peter Svensson
MÖ
Marie Österlund
FF
CZ
Chunyan Zhao
PA
Per Antonson
Fredrik Fagerström-Billai
* = mandatory
Adresser till alla salar finns på sista sidan i schemat
3
Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
Molecular biological techniques, continuing
Vecka 18
8.00
9.00
10.00
11.00
Lab:*
Transformation
Group 1-4
Måndag
27 apr
Lab:*
Transformation
Group 1-4
Fluorescence
microscopy
Lunch
SLG
6L
Course lab 2
Onsdag
29 apr
13.00
14.00
15.00
Transgene technology Lab:*
Transformation
Group 5-8
PA
6L
Course lab 2
Course lab 2
Tisdag
28 apr
12.00
Knockout technology
Proteomics and systems biology
PA
6L
CD
6L
Individual studies
Protein analysis (1D/2D
Western, Mass-spec,
Lab:*
proteomics) II
Transformation
Group 5-8
IN
6F
Course lab 2
Lunch
MÖ
6L
Individual studies
Fredag
1 maj
Första Maj
Individual studies
Lab: *
Lab: *
Group 5-8
Group 1-4
Start o/n cultures Start o/n cultures
Pharm drug dev
Torsdag
30 apr
16.00
Course lab 2
Individual studies
Course lab 2
Alfred Nobels Allé 8, Lecture hall 6L and 6F; Hospita, Hus F, Blickagången 9, Kurslab 2
Lärare:
VA
Velmurugesan Arulampalam
TJ
Tomas Jakobsson
AV
Alessandra Villa
PS
Peter Swoboda
PD
Pauliina Damdimopoulou
KY
Konstantin Yakimchuk
IN
Ivan Nalvarte
CD
Carsten Daub
SLG Sylvie Le Guyader
PSV
Peter Svensson
MÖ
Marie Österlund
FF
CZ
Chunyan Zhao
PA
Per Antonson
Fredrik Fagerström-Billai
* = mandatory
Adresser till alla salar finns på sista sidan i schemat
4
Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
Molecular biological techniques, continuing
Vecka 19
8.00
9.00
10.00
11.00
Lab:*
Restriction enzym digest and gel analysis
Group 1-4
Måndag
4 maj
12.00
13.00
Time for questions
6L
Course lab 2
16.00
Individual studies
Course lab 2
Individual studies/write labreport
Onsdag
6 maj
Individual studies/write labreport
09.00 - 12.00
Intermediate exam 2
15.00
Lab:*
Restriction enzym digest and gel analysis
Group 5-8
Tisdag
5 maj
Torsdag
7 maj
14.00
Lunch
Individual studies/write labreport
Lunch
Individual studies/write labreport
Exam hall 5Y
C. Elegans
Fredag
8 maj
PSW
6L
Alfred Nobels Allé 8, Lecture hall 6L, 6F and Exam hall 5Y, Hospita, Hus F, Blickagången 9, Course lab 2
Lärare:
VA
Velmurugesan Arulampalam
TJ
Tomas Jakobsson
AV
Alessandra Villa
PS
Peter Swoboda
PD
Pauliina Damdimopoulou
KY
Konstantin Yakimchuk
IN
Ivan Nalvarte
CD
Carsten Daub
SLG Sylvie Le Guyader
PSV
Peter Svensson
MÖ
Marie Österlund
FF
CZ
Chunyan Zhao
PA
Per Antonson
Fredrik Fagerström-Billai
* = mandatory
Adresser till alla salar finns på sista sidan i schemat
5
Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
3. Bioinformatics, May 11 - 13
Vecka 20
8.00
9.00
10.00
11.00
Introduction to Bioinformatics
Måndag
11 maj
12.00
Genome organization and
evolution
PSV
6L
13.00
Lunch
CD
6L
Lunch
PSV
6L
CD
6L
Lunch
PSV
6F
Lab 1 *
Group 1-4
16.00
Individual studies
Lab 1 *
Group 5-8
Individual studies
PSV
Computer room 6G Matilda
Alignments and phylogenetic trees Structural bioinformatics
Onsdag
13 maj
15.00
PSV
Computer room 6G Matilda
Scientific publications and archives Archives and information retrieval
Tisdag
12 maj
14.00
PSV
6F
Torsdag
14 maj
Kristi Himmelfärdsdag
Fredag
15 maj
Individual studies
Lab 2 *
Group 1-4
Lab 2*
Group 5-8
PSV
Computer room 6G Matilda
PSV
Computer room 6G Matilda
Alfred Nobels Allé 8, Lecture hall 6L, 6F and Computer room Matilda, 6G
Lärare:
VA
Velmurugesan Arulampalam
TJ
Tomas Jakobsson
AV
Alessandra Villa
PS
Peter Swoboda
PD
Pauliina Damdimopoulou
KY
Konstantin Yakimchuk
IN
Ivan Nalvarte
CD
Carsten Daub
SLG Sylvie Le Guyader
PSV
Peter Svensson
MÖ
Marie Österlund
FF
CZ
Chunyan Zhao
PA
Per Antonson
Fredrik Fagerström-Billai
* = mandatory
Adresser till alla salar finns på sista sidan i schemat
6
Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
3. Structure biology, May 18 - 22
Vecka 21
8.00
9.00
10.00
11.00
12.00
13.00
Protein structure and stability
Måndag
18 maj
Lunch
AV
6L
Lunch
AV
6L
Lunch
AV
6L
Lunch
AV
6F
Structure biology Computer lab *
Group 5-8
Individual studies
Structure biology Computer lab *
Group 1-4
Individual studies
Structure biology Computer lab *
Group 5-8
Individual studies
Computer room 6G Matilda
Structure prediction and molecular modelling
Fredag
22 maj
Individual studies
Computer room 6G Matilda
Other techniques to determine protein structure
Torsdag
21 maj
16.00
Computer room 6G Matilda
Methods to determine three-dimensional structure II
Onsdag
20 maj
Structure biology Computer lab *
Group 1-4
15.00
Computer room 6G Matilda
Methods to determine three-dimensional structure I
Tisdag
19 maj
14.00
Lunch
AV
6L
Structure biology Computer lab *
Correction, Group 1-8
Individual studies
Computer room 6G Matilda
Alfred Nobels Allé 8, Lecture hall 6L, 6F and Computer room Matilda 6G
Lärare:
VA
Velmurugesan Arulampalam
TJ
Tomas Jakobsson
AV
Alessandra Villa
PS
Peter Swoboda
PD
Pauliina Damdimopoulou
KY
Konstantin Yakimchuk
IN
Ivan Nalvarte
CD
Carsten Daub
SLG Sylvie Le Guyader
PSV
Peter Svensson
MÖ
Marie Österlund
FF
CZ
Chunyan Zhao
PA
Per Antonson
Fredrik Fagerström-Billai
* = mandatory
Adresser till alla salar finns på sista sidan i schemat
7
Karolinska Institutet
Department of Biosciences and Nutrition
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
4. Strukturbiologi, 19 maj - 23 maj
Vecka 22
8.00
9.00
10.00
11.00
12.00
13.00
14.00
09.00-12.00
Retake Intermediate exam 2
Måndag
25 maj
15.00
16.00
Preparation of presentations
Seminar room GEEN
Tisdag
26 maj
Preparation of presentations
Onsdag
27 maj
Preparation of presentations
Integrating project *
Presentations
Torsdag
28 maj
Lunch
6L
Integrating project *
Presentations
Individual studies
6L
Fredag
29 maj
Individual studies
Alfred Nobels Allé 8, Lecture hall 6LSeminar room GREEN,Novum, main building, floor 6 elevator F
Lärare:
VA
Velmurugesan Arulampalam
TJ
Tomas Jakobsson
AV
Alessandra Villa
PS
Peter Swoboda
PD
Pauliina Damdimopoulou
KY
Konstantin Yakimchuk
IN
Ivan Nalvarte
CD
Carsten Daub
SLG Sylvie Le Guyader
PSV
Peter Svensson
MÖ
Marie Österlund
FF
CZ
Chunyan Zhao
PA
Per Antonson
Fredrik Fagerström-Billai
* = mandatory
Adresser till alla salar finns på sista sidan i schemat
8
Karolinska Institutet
Department of Biosciences and Nutrition
Vecka 23
8.00
9.00
Måndag
1 juni
Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
10.00
11.00
Time for questions
12.00
Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
13.00
14.00
15.00
16.00
Course council
meeting
Individual studies
Individual studies
6F
GREEN Meeting Room
Tisdag
2 juni
Individual studies
Onsdag
3 juni
Individual studies
09:00 - 15:00
Exam
Torsdag
4 juni
Exam hall 5Y
Fredag
5 juni
Alfred Nobels Allé 8, Lecture hall 6L and Exam hall 5Y; Novum, Blickagången 6, floor 6 (elevator F), Meeting room GREEN,
Lärare:
VA
Velmurugesan Arulampalam
TJ
Tomas Jakobsson
AV
Alessandra Villa
PS
Peter Swoboda
PD
Pauliina Damdimopoulou
KY
Konstantin Yakimchuk
IN
Ivan Nalvarte
CD
Carsten Daub
SLG Sylvie Le Guyader
PSV
Peter Svensson
MÖ
Marie Österlund
FF
CZ
Chunyan Zhao
PA
Per Antonson
Fredrik Fagerström-Billai
* = mandatory
Adresser till alla salar finns på sista sidan i schemat
9
Karolinska Institutet
Department of Biosciences and Nutrition
Adresser 'll undervisningslokaler Cell Biology and Genetics, Spring 2015
Part 2: Molecular biology with genetics
All maps Karolinska Solna and Huddinge available on the course website under the headingKartor över Karolinska ,Solna och Huddinge finns på kurswebben under rubriken "Schema" Lecture hall Petrénsalen Nobels väg 12B KI Campus, Solna Lecture hall Rehabsalen Norrbacka, Karolinska Universitetssjukhuset, Solna S4:01 Lecture hall Kugelbergsalen, R2:U1 Karolinska Universitetssjukhuset, Solna Neurology building, R2:U1 Lecture hall 6L+6F Alfred Nobels Allé 8, floor 6 KI Campus, Huddinge Course lab 2 Hus F2, plan 8 Karolinska Universitetssjukhuset, Huddinge Computer room 6G Alfred Nobels Allé 8, floor 6 KI Campus, Huddinge Exam hall 5Y Alfred Nobels Allé 8, floor 5 KI Campus, Huddinge Schedule weeks 15-­‐23, preliminary, updated 2015-­‐02-­‐04
Literature Bioinforma'cs Arthur Lesk, IntroducLon to BioinformaLcs, 3rd ediLon 1: IntroducJon 2: Genome organizaJon and evoluJon 3: ScienJfic publicaJons and archives 4: Archives and informaJon retrieval 5: Alignments and phylogeneJc trees 6: Structural bioinformaJcs 7: Proteomics and systems biology Seminar room GREEN Novum, Blickagången 6, elevator F, floor 6, KI Campus, Huddinge 10
