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The HMMTOP transmembrane topology prediction server
TLDR
The user is allowed to submit additional information about segment localization to enhance the prediction power, which improves the prediction accuracy as well as helps the interpretation of experimental results, i.e. in epitope insertion experiments.
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Principles governing amino acid composition of integral membrane proteins: application to topology prediction.
TLDR
The method successfully predicted all the transmembrane segments in 143 proteins out of the 158, and for 135 of these proteins both the membrane spanning regions and the topologies were predicted correctly.
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An approximation of partial sums of independent RV'-s, and the sample DF. I
SummaryLet Sn=X1+X2+⋯+Xnbe the sum of i.i.d.r.v.-s, EX1=0, EX12=1, and let Tn= Y1+Y2+⋯+Ynbe the sum of independent standard normal variables. Strassen proved in [14] that if X1 has a finite fourth…
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The degree sequence of a scale‐free random graph process
TLDR
Here the authors obtain P(d) asymptotically for all d≤n1/15, where n is the number of vertices, proving as a consequence that γ=3.9±0.1 is obtained.
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PSORT-B: improving protein subcellular localization prediction for Gram-negative bacteria
TLDR
PSORT-B, an updated version of PSORT for Gram-negative bacteria, is presented, designed to favor high precision over high recall (sensitivity), and attained an overall precision of 97% and recall of 75% in 5-fold cross-validation tests, using a dataset the authors developed of 1443 proteins of experimentally known localization.
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On optimal matchings
TLDR
Givenn random red points on the unit square, the transportation cost between them is tipically √n logn, where logn is the number of red points in the ellipsoidal plane.
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PDB_TM: selection and membrane localization of transmembrane proteins in the protein data bank
TLDR
These assignments are based on the TMDET algorithm, which uses only structural information to locate the most likely position of the lipid bilayer and to distinguish between transmembrane and globular proteins.
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PDBTM: Protein Data Bank of transmembrane proteins after 8 years
TLDR
The new features of the PDBTM database that have been added since its first release, and the current efforts to keep the database up-to-date and easy to use so that it may continue to serve as a fundamental resource for the scientific community.
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CCTOP: a Consensus Constrained TOPology prediction web server
TLDR
The Consensus Constrained TOPology prediction (CCTOP; http://cctop.hu) server is a web-based application providing transmembrane topology prediction that showed superior performance to existing approaches.
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An approximation of partial sums of independent RV's, and the sample DF. II
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