Alvis Brazma

2008
38		Alvis Brazma, Satoru Miyano, Tatsuya Akutsu: Proceedings of the 6th Asia-Pacific Bioinformatics Conference, APBC 2008, 14-17 January 2008, Kyoto, Japan Imperial College Press 2008
37	EE	Yannick Haudry, Chuang Kee Ong, Laurence Ettwiller, Hugo Berube, Ivica Letunic, Misha Kapushesky, Paul-Daniel Weeber, Xi Wang, Julien Gagneur, Charles Girardot, Detlev Arendt, Peer Bork, Alvis Brazma, Eileen E. M. Furlong, Joachim Wittbrodt, Thorsten Henrich: Comparing and Analysing Gene Expression Patterns Across Animal Species Using 4DXpress. APBC 2008: 373-382
36	EE	Alvis Brazma, Satoru Miyano, Tatsuya Akutsu: Preface. APBC 2008
35	EE	Robert Giegerich, Alvis Brazma, Inge Jonassen, Esko Ukkonen, Martin Vingron: The BREW workshop series: a stimulating experience in PhD education. Briefings in Bioinformatics 9(3): 250-253 (2008)
34	EE	Yannick Haudry, Hugo Berube, Ivica Letunic, Paul-Daniel Weeber, Julien Gagneur, Charles Girardot, Misha Kapushesky, Detlev Arendt, Peer Bork, Alvis Brazma, Eileen E. M. Furlong, Joachim Wittbrodt, Thorsten Henrich: 4DXpress: a database for cross-species expression pattern comparisons. Nucleic Acids Research 36(Database-Issue): 847-853 (2008)
2007
33	EE	Helen E. Parkinson, Misha Kapushesky, Mohammadreza Shojatalab, Niran Abeygunawardena, R. Coulson, Anna Farne, Ele Holloway, N. Kolesnykov, P. Lilja, M. Lukk, R. Mani, Tim Rayner, Anjan Sharma, E. William, Ugis Sarkans, Alvis Brazma: ArrayExpress - a public database of microarray experiments and gene expression profiles. Nucleic Acids Research 35(Database-Issue): 747-750 (2007)
2006
32	EE	Jonathon Blake, Christian Schwager, Misha Kapushesky, Alvis Brazma: ChroCoLoc: an application for calculating the probability of co-localization of microarray gene expression. Bioinformatics 22(6): 765-767 (2006)
2005
31	EE	Walter R. Gilks, Brian D. M. Tom, Alvis Brazma: Fusing microarray experiments with multivariate regression. ECCB/JBI 2005: 143
30	EE	Steffen Durinck, Yves Moreau, Arek Kasprzyk, Sean Davis, Bart De Moor, Alvis Brazma, Wolfgang Huber: BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis. Bioinformatics 21(16): 3439-3440 (2005)
29	EE	Aurora Torrente, Misha Kapushesky, Alvis Brazma: A new algorithm for comparing and visualizing relationships between hierarchical and flat gene expression data clusterings. Bioinformatics 21(21): 3993-3999 (2005)
28	EE	Ugis Sarkans, Helen E. Parkinson, Gonzalo Garcia Lara, Ahmet Oezcimen, Anjan Sharma, Niran Abeygunawardena, Sergio Contrino, Ele Holloway, Philippe Rocca-Serra, Gaurab Mukherjee, Mohammadreza Shojatalab, Misha Kapushesky, Susanna-Assunta Sansone, Anna Farne, Tim Rayner, Alvis Brazma: The ArrayExpress gene expression database: a software engineering and implementation perspective. Bioinformatics 21(8): 1495-1501 (2005)
27	EE	Helen E. Parkinson, Ugis Sarkans, Mohammadreza Shojatalab, Niran Abeygunawardena, Sergio Contrino, R. Coulson, Anna Farne, Gonzalo Garcia Lara, Ele Holloway, Misha Kapushesky, P. Lilja, Gaurab Mukherjee, Ahmet Oezcimen, Tim Rayner, Philippe Rocca-Serra, Anjan Sharma, Susanna-Assunta Sansone, Alvis Brazma: ArrayExpress - a public repository for microarray gene expression data at the EBI. Nucleic Acids Research 33(Database-Issue): 553-555 (2005)
2004
26		Misha Kapushesky, Patrick Kemmeren, Aedín C. Culhane, Steffen Durinck, Jan Ihmels, Christine Körner, Meelis Kull, Aurora Torrente, Ugis Sarkans, Jaak Vilo, Alvis Brazma: Expression Profiler: next generation - an online platform for analysis of microarray data. Nucleic Acids Research 32(Web-Server-Issue): 465-470 (2004)
2003
25		Catherine Brooksbank, Evelyn Camon, Midori A. Harris, Michele Magrane, Maria Jesus Martin, Nicola J. Mulder, Claire O'Donovan, Helen E. Parkinson, Mary Ann Tuli, Rolf Apweiler, Ewan Birney, Alvis Brazma, Kim Henrick, Rodrigo Lopez, Guenter Stoesser, Peter Stoehr, Graham Cameron: The European Bioinformatics Institute's data resources. Nucleic Acids Research 31(1): 43-50 (2003)
24		Alvis Brazma, Helen E. Parkinson, Ugis Sarkans, Mohammadreza Shojatalab, Jaak Vilo, Niran Abeygunawardena, Ele Holloway, Misha Kapushesky, Patrick Kemmeren, Gonzalo Garcia Lara, Ahmet Oezcimen, Philippe Rocca-Serra, Susanna-Assunta Sansone: ArrayExpress - a public repository for microarray gene expression data at the EBI. Nucleic Acids Research 31(1): 68-71 (2003)
2002
23		Kimmo Palin, Esko Ukkonen, Alvis Brazma, Jaak Vilo: Correlating gene promoters and expression in gene disruption experiments. ECCB 2002: 172-180
22		J. Rung, T. Schlitt, Alvis Brazma, K. Freivalds, Jaak Vilo: Building and analysing genome-wide gene disruption networks. ECCB 2002: 202-210
21		Catherine A. Ball, Gavin Sherlock, Helen E. Parkinson, Philippe Rocca-Serra, Catherine Brooksbank, Helen C. Causton, Duccio Cavalieri, Terry Gaasterland, Pascal Hingamp, Frank Holstege, Martin Ringwald, Paul T. Spellman, Christian J. Stoeckert Jr., Jason E. Stewart, Ronald Taylor, Alvis Brazma, John Quackenbush: An open letter to the scientific journals. Bioinformatics 18(11): 1409 (2002)
2001
20		Alvis Brazma: On the Importance of Standardisation in Life Sciences. Bioinformatics 17(1): 113-114 (2001)
2000
19		Jaak Vilo, Alvis Brazma, Inge Jonassen, Alan J. Robinson, Esko Ukkonen: Mining for Putative Regulatory Elements in the Yeast Genome Using Gene Expression Data. ISMB 2000: 384-394
1998
18		Alvis Brazma, Inge Jonassen, Jaak Vilo, Esko Ukkonen: Predicting gene regulatory elements from their expression data in the complete yeast genome. German Conference on Bioinformatics 1998
17	EE	Alvis Brazma, Inge Jonassen, Jaak Vilo, Esko Ukkonen: Pattern Discovery in Biosequences. ICGI 1998: 257-270
16		Alvis Brazma, Inge Jonassen, Ingvar Eidhammer, David Gilbert: Approaches to the Automatic Discovery of Patterns in Biosequences. Journal of Computational Biology 5(2): 277-304 (1998)
1997
15		Alvis Brazma, Tomas P. Flores, Peter Maccallum, Alan J. Robinson: Data Mining and Visualisation in Molecular Biology Databases. German Conference on Bioinformatics 1997: 127
14		Alvis Brazma, Jaak Vilo, Esko Ukkonen: Finding transcription factor binding site combinations in the yeast genome. German Conference on Bioinformatics 1997: 57-59
13		Alvis Brazma, Jaak Vilo, Esko Ukkonen, Kimmo Valtonen: Data Mining for Regulatory Elements in Yeast Genome. ISMB 1997: 65-74
12		Alvis Brazma, Karlis Cerans: Noise-Tolerant Efficient Inductive Synthesis of Regular Expressions from Good Examples. New Generation Comput. 15(1): 105-140 (1997)
1996
11		Alvis Brazma, Esko Ukkonen, Jaak Vilo: Discovering Unbounded Unions of Regular Pattern Languages from Positive Examples (Extended Abstract). ISAAC 1996: 95-104
10		Alvis Brazma, Inge Jonassen, Esko Ukkonen, Jaak Vilo: Discovering Patterns and Subfamilies in Biosequences. ISMB 1996: 34-43
1995
9		Alvis Brazma: Learning of regular expressions by pattern matching. EuroCOLT 1995: 392-403
1994
8		Alvis Brazma: Efficient Algorithm for Learning Simple Regular Expressions from Noisy Examples. AII/ALT 1994: 260-271
7		Alvis Brazma, Karlis Cerans: Efficient Learning of Regular Expressions from Good Examples. AII/ALT 1994: 76-90
6		Karlis Kaugars, Juris Reinfelds, Alvis Brazma: A Simple Algorithm for Drawing Large Graphs on Small Screens. Graph Drawing 1994: 278-281
1993
5	EE	Alvis Brazma: Efficient Identification of Regular Expressions from Representative Examples. COLT 1993: 236-242
4		Alvis Brazma: Learning a Subclass of Regular Expressions by Recognizing Periodic Repetitions. SCAI 1993: 137-146
1991
3		Alvis Brazma: Inductive Synthesis of Dot Expressions. Baltic Computer Science 1991: 156-212
1990
2		Efim B. Kinber, Alvis Brazma: Models of Inductive Synthesis. J. Log. Program. 9(2&3): 221-233 (1990)
1986
1		Alvis Brazma, Efim B. Kinber: Generalized Regular Expressions-A Language for Synthesis of Programs with Braching in Loops. Theor. Comput. Sci. 46(3): 175-195 (1986)

Coauthor Index

1	Niran Abeygunawardena	[24] [27] [28] [33]
2	Tatsuya Akutsu	[36] [38]
3	Rolf Apweiler	[25]
4	Detlev Arendt	[34] [37]
5	Catherine A. Ball	[21]
6	Hugo Berube	[34] [37]
7	Ewan Birney	[25]
8	Jonathon Blake	[32]
9	Peer Bork	[34] [37]
10	Catherine Brooksbank	[21] [25]
11	Graham Cameron	[25]
12	Evelyn Camon	[25]
13	Helen C. Causton	[21]
14	Duccio Cavalieri	[21]
15	Karlis Cerans	[7] [12]
16	Sergio Contrino	[27] [28]
17	R. Coulson	[27] [33]
18	Aedín C. Culhane	[26]
19	Sean Davis	[30]
20	Steffen Durinck	[26] [30]
21	Ingvar Eidhammer	[16]
22	Laurence Ettwiller	[37]
23	Anna Farne	[27] [28] [33]
24	Tomas P. Flores	[15]
25	K. Freivalds	[22]
26	Eileen E. M. Furlong	[34] [37]
27	Terry Gaasterland	[21]
28	Julien Gagneur	[34] [37]
29	Robert Giegerich	[35]
30	David Gilbert (David R. Gilbert)	[16]
31	Walter R. Gilks	[31]
32	Charles Girardot	[34] [37]
33	Midori A. Harris	[25]
34	Yannick Haudry	[34] [37]
35	Thorsten Henrich	[34] [37]
36	Kim Henrick	[25]
37	Pascal Hingamp	[21]
38	Ele Holloway	[24] [27] [28] [33]
39	Frank Holstege	[21]
40	Wolfgang Huber	[30]
41	Jan Ihmels	[26]
42	Inge Jonassen	[10] [16] [17] [18] [19] [35]
43	Misha Kapushesky	[24] [26] [27] [28] [29] [32] [33] [34] [37]
44	Arek Kasprzyk	[30]
45	Karlis Kaugars	[6]
46	Patrick Kemmeren	[24] [26]
47	Efim B. Kinber	[1] [2]
48	N. Kolesnykov	[33]
49	Christine Körner	[26]
50	Meelis Kull	[26]
51	Gonzalo Garcia Lara	[24] [27] [28]
52	Ivica Letunic	[34] [37]
53	P. Lilja	[27] [33]
54	Rodrigo Lopez	[25]
55	M. Lukk	[33]
56	Peter Maccallum	[15]
57	Michele Magrane	[25]
58	R. Mani	[33]
59	Maria Jesus Martin	[25]
60	Satoru Miyano	[36] [38]
61	Bart De Moor	[30]
62	Yves Moreau	[30]
63	Gaurab Mukherjee	[27] [28]
64	Nicola J. Mulder	[25]
65	Claire O'Donovan	[25]
66	Ahmet Oezcimen	[24] [27] [28]
67	Chuang Kee Ong	[37]
68	Kimmo Palin	[23]
69	Helen E. Parkinson	[21] [24] [25] [27] [28] [33]
70	John Quackenbush	[21]
71	Tim Rayner	[27] [28] [33]
72	Juris Reinfelds	[6]
73	Martin Ringwald	[21]
74	Alan J. Robinson	[15] [19]
75	Philippe Rocca-Serra	[21] [24] [27] [28]
76	J. Rung	[22]
77	Susanna-Assunta Sansone	[24] [27] [28]
78	Ugis Sarkans	[24] [26] [27] [28] [33]
79	T. Schlitt	[22]
80	Christian Schwager	[32]
81	Anjan Sharma	[27] [28] [33]
82	Gavin Sherlock	[21]
83	Mohammadreza Shojatalab	[24] [27] [28] [33]
84	Paul T. Spellman	[21]
85	Jason E. Stewart	[21]
86	Christian J. Stoeckert Jr.	[21]
87	Peter Stoehr	[25]
88	Guenter Stoesser	[25]
89	Ronald Taylor	[21]
90	Brian D. M. Tom	[31]
91	Aurora Torrente	[26] [29]
92	Mary Ann Tuli	[25]
93	Esko Ukkonen	[10] [11] [13] [14] [17] [18] [19] [23] [35]
94	Kimmo Valtonen	[13]
95	Jaak Vilo	[10] [11] [13] [14] [17] [18] [19] [22] [23] [24] [26]
96	Martin Vingron	[35]
97	Xi Wang	[37]
98	Paul-Daniel Weeber	[34] [37]
99	E. William	[33]
100	Joachim Wittbrodt	[34] [37]

Colors in the list of coauthors