Page Genomics13

Welcome to the Wiki of the MSc lecture Genomics (19711 - CUB848/CUB849).

News

Nachklausur: : The 2nd exam will be oral. It will be on April 1st from 9 am on. Please contact me for a time slot.

Die Ergebnisse der Review sind online.

Ich brauch die Mailadresse von Karl Baczkowski !!!

Ergebniss des 1. Reviews sind online.

ACHTUNG. Die Übung am 5.12. fällt aus. Die Review findet am 28.11. statt.

Am 21.11 ist normal Übung. Lecture 5 wird nicht relevant für den ersten Review sein, sondern für den 2.

Times and Dates

Event	Day	Time	Address	Room
Lecture (CUB848)	Tue	14-16	Arnimallee 6	SR 007/008
Exercise (CUB849)	Thu	08-10	Takustraße 9	SR 006

Schedule

Date	Lecture	Lecturer
15.10.-26.11.	Algorithms for approximate string search in NGS data and applications
15.10.2013	Lecture 1: NGS technologies	Robinson
22.10.2013	Lecture 2: Read mapping considerations	Reinert
29.10.2013	Lecture 3: Myers bitvector edit distance algorithm	Weese
05.11.2013	Lecture 4: Hierarchical pigeonhole filter	Weese
12.11.2013	Lecture 5: Variant Calling and Annotation I	Robinson
19.11.2013	Lecture 6: Index based methods and the BWT	Reinert
26.11.2013	Lecture 7: Variant Calling and Annotation II	Robinson
28.11.2013	Review 1 (during exercises)
03.12.-14.01.	Computing genetic variations
03.12.2013	Lecture 8: Problems in metagenome analysis	Reinert/Singer
10.12.2013	Lecture 9: Variant Calling and Annotation II	Robinson
17.12.2013	Lecture 10: Structural Variants I	Robinson
07.01.2014	Lecture 11: Structural Variants II	Robinson
14.01.2014	Review 2 (during exercises)
.??.??-??.??.	Quantitative NGS analysis
14.01.2014	Lecture 12: RNA-seq I	Robinson
21.01.2014	Lecture 13: RNA-seq II	Robinson
28.01.2014	Lecture 14: ChIP-seq I	Robinson
04.02.2014	Lecture 15: ChIP-Seq II	Robinson
11.02.2014	Exam

Exercises

Discussed at	Excerise
31.10.2013	Exercise 2 / Exercise 2 Solutions
07.11.2013	Exercise 3
14.11.2013	Exercise 4
28.11.2013	Exercise 5
05.12.2013	Exercise 6
12.12.2013	Exercise 7
09.01.2014	Exercise 8

Requirements for Aktive Teilnahme

Results exam:

last 4 digits Matrikelnummer	points	mark
xxx7260	78,5	1,0
xxx8435	68	1,0
xxx9384	78	1,0
xxx3598	69,5	1,0
xxx4686	67	1,0
xxx5235	61,5	1,3
xxx3802	70,5	1,0
xxx3445	75,5	1,0
xxx3468	64,5	1,0
xxx8301	67,5	1,0
xxx8784	75,5	1,0
xxx7797	68	1,0
xxx4969	54	2,0
xxx7263	0	5,0
xxx4280	0	5,0
xxx5985	79	1,0
xxx0831	71,5	1,0
xxx7500	68	1,0
xxx9991	87	1,0
xxx9371	77	1,0
xxx6903	76	1,0
xxx2710	48,5	2,7
xxx8177	74	1,0
xxx7470	73,5	1,0
xxx5174	70,5	1,0
xxx2952	74,5	1,0
xxx4123	59,5	1,3
xxx2427	70	1,0
xxx6620	81	1,0
xxx5789	78	1,0

You need to reach 50% of all points of the two reviews. Results review 1 (problem 2 b) was discounted since it had an error in the formulation, hence a total of 44 points could be achieved).

last 4 digits Matrikelnummer	points	percent
7260	42	96
5235	23	53
3802	22	50
8784	28	64
7263	28	64
4969	28	64
3598	41	94
3445	30	69
3057	38	87
7470	28	64
3468	26	60
8260	28	64
5789	42	96
6620	30	69
6742	16	37
8301	29	66
2952	36	82
2142	28	64
2427	23	53
4123	33	75
9384	30	69
2710	25	57
7500	38	87
8177	30	69
8435	37	85
4686	36	82

Review 2

last 4 digits Matrikelnummer	points	percent
4969	33	74
5235	40	91
8789	26	60
8435	40	91
3802	36	83
3598	44	100
7263	34	77
4686	35	80
5789	41	94
3468	30	69
3057	30	69
8177	44	100
3445	30	69
2142	34	77
7500	29	66
7260	40	91
9384	28	63
7470	35	80
9123	25	57
2710	41	94
8301	30	69
2952	35	80
6620	38	86
4280	18	40
2427	24	54

Exam results

• varcall-2013-A.pdf: varcall-2013-A.pdf

• varcall-2013-A.pdf: varcall-2013-A.pdf

• varcall-2013-B.pdf: varcall-2013-B.pdf|