... MINIREVIEW
Functional classification of scaffold proteins and related
molecules
La
´
szlo
´
Buday
1,2
and Pe
´
ter Tompa
1
1 Institute of Enzymology, Biological Research Center, Hungarian Academy of Sciences, ... PDZ domains, and binds
a variety of receptors ⁄ channels, cytoskeletal and
Table 1. Scaffold proteins and their kin. Representatives of the four ca...
... label of o and its observed attributes; (2) the cor-
relations between the label of o and the observed at-
tributes and labels of nodes connected to o; and (3)
the correlations between the label of ... describe related work (Section 5)
and offer analysis and conclusions (Section 6).
2 Task Definition
2.1 Collective Classification
Given a network and an object o in the...
... match between the
values of K and the number of classes at the par-
ticular level of the gold standard is the closest.
IB is clearly better than ID at all levels of gold
standard. It yields its ... precision of
clusters and ACC the recall. We define an F mea-
sure as the harmonic mean of mPUR and ACC:
F =
2 · mPUR · ACC
mPUR + ACC
The statistical significance of the results...
... results for hedge
classification as a standalone task. In experiments
we made use of the hedge classification dataset of
scientific texts provided by (Medlock and Briscoe,
2007) and used a labeled ... data.
• The extension of the feature representation
used by previous works with bigrams and tri-
grams and an evaluation of the benefit of using
longer keywords in hedge class...
... 2. Intact-cell MALDI-TOF mass spectra
of mycelia and spores of Trichoderma
strains. The masses 7347 and 7494 of
T. atroviride spores correlate with two proc-
essed products of the spore hydrophobin
SRH1 ... 7232
and 7237 in (A) and (E), or 7509 and 7514 in (A) and (C). An obvious shift is the appearance of higher mass peaks upon sporulation, presum-
ably related to the...
... was dissolved in 20 lLof8
M
urea and incubated at 37 °C for 1 h. To the solution, 60 lL
of 0.2
M
Tris/HCl buffer (pH 9.0) and 5 pmol of lysyl
endopeptidase were added, and the m ixture was incubated ... 210 nm of the effluent was monitored
continuously. The peptides were isolated and lyophilized.
Amino acid sequence analysis
The N-terminal amino acid sequence of the enzyme and...
... one of the most frequent words in
the English language, accounting for about 1% of
tokens in text and over a quarter of all third-person
pronouns.
1
Usually between a quarter and a half of
it ... pio-
neering work of Paice and Husk (1987), the inclu-
sion of non-referential it detection in a full anaphora
resolution system by Lappin and Leass (1994), and
the machine lear...
... fractions (M + 0) and
(M + 1) of fragment 260 of Ala, fraction (M + 0) of
fragment 288 of Val and all the measurements associated
with fragment 186 of Val. All six measurements are
redundant and can be ... of
OAA (Asp) ) from TBDMS-Asp fragment 390 – and [2-3] of PYR
(Ala) ) from TBDMS-Ala fragment 232 ) based on Eq. (1). The
relationship between the carbon atoms of Gl...
... Keresztessy
2
and La
´
szlo
´
Fe
´
su
¨
s
1,2
1 Apoptosis and Genomics Research Group of Hungarian Academy of Sciences, Debrecen, Hungary
2 Department of Biochemistry and Molecular Biology, Medical and ... of cells [11].
The actual enzymatic activity of TG2 is determined
by its structural state induced by the types and
amounts of bound ligands [12]. The X-ray structure...
... the
major bands at 22 and 42 kDa, there appeared minor
bands at molecular masses of around 20 and 39–
41 kDa, which partly shifted from the major bands,
coinciding with the appearance of a significant ... 179
theoretical isoelectric point and molecular mass of 9.11
and 63 129 Da, respectively, before removal of the pre-
dicted signal peptide and 9.01 and 60 147 Da after
rem...