Computational Biology

  • United Kingdom

Research Output

2010

Visualization of image data from cells to organisms

Walter, T., Shattuck, D. W., Baldock, R., Bastin, M. E., Carpenter, A. E., Duce, S., Ellenberg, J., Fraser, A., Hamilton, N., Pieper, S., Ragan, M. A., Schneider, J. E., Tomancak, P. & Hériché, J. K., 1 Mar 2010, In : Nature Methods. 7, 3, p. S26-S41 16 p.

Research output: Contribution to journalReview article

167 Citations (Scopus)

Visualization of multiple alignments, phylogenies and gene family evolution

Procter, J. B., Thompson, J., Letunic, I., Creevey, C., Jossinet, F. & Barton, G. J., 1 Mar 2010, In : Nature Methods. 7, 3, p. S16-S25 10 p.

Research output: Contribution to journalReview article

51 Citations (Scopus)
2009

RE J1034+396: the origin of the soft X-ray excess and quasi-periodic oscillation

Middleton, M., Done, C., Ward, M., Gierliński, M. & Schurch, N., 21 Mar 2009, In : Monthly Notices of the Royal Astronomical Society. 394, 1, p. 250-260 11 p.

Research output: Contribution to journalArticle

63 Citations (Scopus)

Reprocessing of X-rays in the outer accretion disc of the black hole binary XTE J1817-330

Gierliński, M., Done, C. & Page, K., 21 Jan 2009, In : Monthly Notices of the Royal Astronomical Society. 392, 3, p. 1106-1114 9 p.

Research output: Contribution to journalArticle

77 Citations (Scopus)
2008

A periodicity of ∼1 hour in X-ray emission from the active galaxy RE J1034+396

Gierliński, M., Middleton, M., Ward, M. & Done, C., 18 Sep 2008, In : Nature. 455, 7211, p. 369-371 3 p.

Research output: Contribution to journalArticle

162 Citations (Scopus)

High-frequency X-ray variability as a mass estimator of stellar and supermassive black holes

Gierliński, M., Nikołajuk, M. & Czerny, B., 11 Jan 2008, In : Monthly Notices of the Royal Astronomical Society. 383, 2, p. 741-749 9 p.

Research output: Contribution to journalArticle

Open Access
File
42 Citations (Scopus)
100 Downloads (Pure)

The superorbital variability and triple nature of the X-ray source 4U 1820-303

Zdziarski, A. A., Wen, L. & Gierliński, M., 1 Dec 2008, Astrophysics of Compact Objects - International Conference on Astrophysics of Compact Objects. Vol. 968. 1 p. 244. (AIP Conference Proceedings; vol. 968).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

X-ray irradiation in XTE J1817-330 and the inner radius of the truncated disc in the hard state

Gierliński, M., Done, C. & Page, K., 1 Aug 2008, In : Monthly Notices of the Royal Astronomical Society. 388, 2, p. 753-760 8 p.

Research output: Contribution to journalArticle

Open Access
File
103 Citations (Scopus)
96 Downloads (Pure)
2007

An absorption origin for the soft excess in Seyfert 1 active galactic nuclei

Middleton, M., Done, C. & Gierliński, M., 17 Oct 2007, In : Monthly Notices of the Royal Astronomical Society. 381, 4, p. 1426-1436 11 p.

Research output: Contribution to journalArticle

Open Access
File
46 Citations (Scopus)
92 Downloads (Pure)

Analysing the atolls: X-ray spectral transitions of accreting neutron stars

Gladstone, J., Done, C. & Gierliński, M., 11 Jun 2007, In : Monthly Notices of the Royal Astronomical Society. 378, 1, p. 13-22 10 p.

Research output: Contribution to journalArticle

Open Access
File
70 Citations (Scopus)
99 Downloads (Pure)

Dependence of the orbital modulation of X-rays from 4U 1820-303 on the accretion rate

Zdziarski, A. A., Gierliński, M., Wen, L. & Kostrzewa, Z., 21 May 2007, In : Monthly Notices of the Royal Astronomical Society. 377, 3, p. 1017-1023 7 p.

Research output: Contribution to journalArticle

Open Access
21 Citations (Scopus)
643 Citations (Scopus)

Purification, crystallization and data collection of methicillin-resistant Staphylococcus aureus Sar2676, a pantothenate synthetase

Seetharamappa, J., Oke, M., Liu, H., McMahon, S. A., Johnson, K. A., Carter, L., Dorward, M., Zawadzki, M., Overton, I. M., Van Niekirk, C. A. J., Graham, S., Botting, C. H., Taylor, G. L., White, M. F., Barton, G. J., Coote, P. J. & Naismith, J. H., 5 May 2007, In : Acta Crystallographica Section F: Structural Biology and Crystallization Communications. 63, 6, p. 488-491 4 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

The iron K feature in narrow line Seyfert 1 galaxies: Evidence for a P Cygni profile?

Done, C., Sobolewska, M. A., Gierliński, M. & Schurch, N. J., 1 Jan 2007, In : Monthly Notices of the Royal Astronomical Society: Letters. 374, 1, p. L15-L19 5 p.

Research output: Contribution to journalLetter

Open Access
31 Citations (Scopus)

The Structure of Serine Palmitoyltransferase; Gateway to Sphingolipid Biosynthesis

Yard, B. A., Carter, L. G., Johnson, K. A., Overton, I. M., Dorward, M., Liu, H., McMahon, S. A., Oke, M., Puech, D., Barton, G. J., Naismith, J. H. & Campopiano, D. J., 27 Jul 2007, In : Journal of Molecular Biology. 370, 5, p. 870-886 17 p.

Research output: Contribution to journalArticle

76 Citations (Scopus)

The superorbital variability and triple nature of the X-ray source 4U 1820-303

Zdziarski, A. A., Wen, L. & Gierliński, M., 21 May 2007, In : Monthly Notices of the Royal Astronomical Society. 377, 3, p. 1006-1016 11 p.

Research output: Contribution to journalArticle

Open Access
37 Citations (Scopus)
2006

A normalised scale for structural genomics target ranking: the OB-Score

Overton, I. M. & Barton, G. J., 10 Jul 2006, In : FEBS Letters. 580, 16, p. 4005-4009 5 p.

Research output: Contribution to journalArticle

46 Citations (Scopus)

Black hole spin in GRS 1915+105

Middleton, M., Done, C., Gierliński, M. & Davis, S. W., 11 Dec 2006, In : Monthly Notices of the Royal Astronomical Society. 373, 3, p. 1004-1012 9 p.

Research output: Contribution to journalArticle

Open Access
71 Citations (Scopus)

Consistency of the black hole mass determination in AGN from the reverberation and the X-ray excess variance method

Nikołajuk, M., Czerny, B., Ziółkowski, J. & Gierliński, M., 11 Aug 2006, In : Monthly Notices of the Royal Astronomical Society. 370, 3, p. 1534-1540 7 p.

Research output: Contribution to journalArticle

Open Access
27 Citations (Scopus)
Open Access
File
44 Citations (Scopus)
96 Downloads (Pure)

Truncated disc versus extremely broad iron line in XTE J1650-500

Done, C. & Gierliński, M., 1 Apr 2006, In : Monthly Notices of the Royal Astronomical Society. 367, 2, p. 659-668 10 p.

Research output: Contribution to journalArticle

Open Access
File
59 Citations (Scopus)
99 Downloads (Pure)

X-ray spectral transitions of black holes from RXTE all-sky monitor

Gierliński, M. & Newton, J., 1 Aug 2006, In : Monthly Notices of the Royal Astronomical Society. 370, 2, p. 837-844 8 p.

Research output: Contribution to journalArticle

Open Access
File
49 Citations (Scopus)
94 Downloads (Pure)
2005

Accretion in strong gravity: From galactic to supermassive black holes

Done, C. & Gierliński, M., 1 Dec 2005, Astrophysics and Space Science: From X-Ray Binaries to Quasars: Black Holes on all Mass Scales. Springer Netherlands, p. 167-175 9 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

GRS 1915+105: The distance, radiative processes and energy-dependent variability

Zdziarski, A. A., Gierliński, M., Rao, A. R., Vadawale, S. V. & Mikolajewska, J., 1 Jul 2005, In : Monthly Notices of the Royal Astronomical Society. 360, 3, p. 825-838 14 p.

Research output: Contribution to journalArticle

49 Citations (Scopus)

Patterns of energy-dependent variability from Comptonization

Gierliński, M. & Zdziarski, A. A., 11 Nov 2005, In : Monthly Notices of the Royal Astronomical Society. 363, 4, p. 1349-1360 12 p.

Research output: Contribution to journalArticle

Open Access
File
54 Citations (Scopus)
95 Downloads (Pure)

Physics of accretion in the millisecond pulsar XTE J1751 - 305

Gierliński, M. & Poutanen, J., 1 Jun 2005, In : Monthly Notices of the Royal Astronomical Society. 359, 4, p. 1261-1276 16 p.

Research output: Contribution to journalArticle

68 Citations (Scopus)

Scaling variability from stellar to supermassive black holes

Done, C. & Gierliński, M., 21 Nov 2005, In : Monthly Notices of the Royal Astronomical Society. 364, 1, p. 208-216 9 p.

Research output: Contribution to journalArticle

Open Access
File
47 Citations (Scopus)
97 Downloads (Pure)
2004

Black hole accretion discs: Reality confronts theory

Gierliński, M. & Done, C., 21 Jan 2004, In : Monthly Notices of the Royal Astronomical Society. 347, 3, p. 885-894 10 p.

Research output: Contribution to journalArticle

125 Citations (Scopus)

GOtcha: a new method for prediction of protein function assessed by the annotation of seven genomes

Martin, D. M. A., Berriman, M. & Barton, G. J., 18 Nov 2004, In : BMC Bioinformatics. 5, 17 p., 178.

Research output: Contribution to journalArticle

Open Access
File
183 Citations (Scopus)
52 Downloads (Pure)

GRS 1915+105: The brightest Galactic black hole

Done, C., Wardziński, G. & Gierliński, M., 1 Apr 2004, In : Monthly Notices of the Royal Astronomical Society. 349, 2, p. 393-403 11 p.

Research output: Contribution to journalArticle

98 Citations (Scopus)

GX 339-4: The distance, state transitions, hysteresis and spectral correlations

Zdziarski, A. A., Gierlinski, M., Mikołajewska, J., Wardziński, G., Smith, D. M., Harmon, B. A. & Kitamoto, S., 1 Jul 2004, In : Monthly Notices of the Royal Astronomical Society. 351, 3, p. 791-807 17 p.

Research output: Contribution to journalArticle

205 Citations (Scopus)

Is the soft excess in active galactic nuclei real?

Gierliński, M. & Done, C., 21 Mar 2004, In : Monthly Notices of the Royal Astronomical Society. 349, 1, p. L7-L11 5 p.

Research output: Contribution to journalArticle

289 Citations (Scopus)

Modelling the pulse profiles of accreting millisecond pulsars and X-ray bursters

Poutanen, J. & Gierliński, M., 1 Jun 2004, In : Nuclear Physics B - Proceedings Supplements. 132, p. 640-643 4 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Radiative processes, spectral states and variability of black-hole binaries

Zdziarski, A. A. & Gierliński, M., 1 May 2004, In : Progress of Theoretical Physics Supplements. 155, p. 99-119 21 p.

Research output: Contribution to journalReview article

188 Citations (Scopus)

Spectral transitions in X-ray binaries

Done, C. & Gierliński, M., 1 May 2004, In : Progress of Theoretical Physics Supplements. 155, p. 9-18 10 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

The Jalview Java alignment editor

Clamp, M., Cuff, J., Searle, S. M. & Barton, G. J., 12 Feb 2004, In : Bioinformatics. 20, 3, p. 426-427 2 p.

Research output: Contribution to journalArticle

1119 Citations (Scopus)
2003

Correlated timing and spectral behavior of 4U 1705-44

Olive, J. F., Barret, D. & Gierliński, M., 20 Jan 2003, In : Astrophysical Journal. 583, 1 I, p. 416-423 8 p.

Research output: Contribution to journalArticle

28 Citations (Scopus)

Discovery of powerful millisecond flares from Cygnus X-1

Gierliński, M. & Zdziarski, A. A., 11 Aug 2003, In : Monthly Notices of the Royal Astronomical Society. 343, 3, p. L84-L88 5 p.

Research output: Contribution to journalArticle

31 Citations (Scopus)

Increased coverage obtained by combination of methods for protein sequence database searching

Webber, C. & Barton, G. J., 22 Jul 2003, In : Bioinformatics. 19, 11, p. 1397-1403 7 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Observing the effects of the event horizon in black holes

Done, C. & Gierliński, M., 11 Jul 2003, In : Monthly Notices of the Royal Astronomical Society. 342, 4, p. 1041-1055 15 p.

Research output: Contribution to journalArticle

108 Citations (Scopus)

On the nature of the X-ray emission from the accreting millisecond pulsar SAX J1808.4-3658

Poutanen, J. & Gierliński, M., 21 Aug 2003, In : Monthly Notices of the Royal Astronomical Society. 343, 4, p. 1301-1311 11 p.

Research output: Contribution to journalArticle

158 Citations (Scopus)

The X-ray/γ-ray spectrum of XTE J1550-564 in the very high state

Gierliński, M. & Done, C., 11 Jul 2003, In : Monthly Notices of the Royal Astronomical Society. 342, 4, p. 1083-1092 10 p.

Research output: Contribution to journalArticle

52 Citations (Scopus)

Visual representation of database search results: the RHIMS Plot

Martin, D. M. A., Hill, P., Barton, G. J. & Flavell, A. J., 22 May 2003, In : Bioinformatics. 19, 8, p. 1037-1038 2 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)
2002

A comment on the colour-colour diagrams of low-mass X-ray binaries

Gierliński, M. & Done, C., 21 Apr 2002, In : Monthly Notices of the Royal Astronomical Society. 331, 4, p. L47-L50 4 p.

Research output: Contribution to journalReview article

Open Access
51 Citations (Scopus)

Creation and analysis of protein multiple sequence alignments

Barton, G. J., 11 Jan 2002, Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins. Second ed. Wiley, Vol. 43. p. 215-32 18 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

4 Citations (Scopus)

Phase-resolved X-ray spectroscopy of the millisecond pulsar SAX J1808.4-3658

Gierliński, M., Done, C. & Barret, D., 21 Mar 2002, In : Monthly Notices of the Royal Astronomical Society. 331, 1, p. 141-153 13 p.

Research output: Contribution to journalArticle

Open Access
69 Citations (Scopus)

The X-ray spectrum of the atoll source 4U 1608-52

Gierliński, M. & Done, C., 21 Dec 2002, In : Monthly Notices of the Royal Astronomical Society. 337, 4, p. 1373-1380 8 p.

Research output: Contribution to journalArticle

Open Access
68 Citations (Scopus)

X-ray and γ-ray spectra and variability of the black hole candidate GX 339-4

Wardziński, G., Zdziarski, A. A., Gierliński, M., Grove, J. E., Jahoda, K. & Johnson, W. N., 11 Dec 2002, In : Monthly Notices of the Royal Astronomical Society. 337, 3, p. 829-839 11 p.

Research output: Contribution to journalArticle

Open Access
55 Citations (Scopus)
2001

3Dee: a database of protein structural domains

Siddiqui, A. S., Dengler, U. & Barton, G. J., Feb 2001, In : Bioinformatics. 17, 2, p. 200-1 2 p.

Research output: Contribution to journalArticle

46 Citations (Scopus)

Application of a relativistic accretion disc model to X-ray spectra of LMC X-1 and GRO J1655-40

Gierliński, M., Maciołek-Niedźwiecki, A. & Ebisawa, K., 11 Aug 2001, In : Monthly Notices of the Royal Astronomical Society. 325, 3, p. 1253-1265 13 p.

Research output: Contribution to journalArticle

Open Access
66 Citations (Scopus)