| Date |
Title |
Speaker |
| 20-Feb-02 |
Words and
meanings in biology - part I: structure of amino acids, peptides,
proteins" |
Judith
Klein-Seetharaman |
| 23-Apr-02 |
Overview of the recent
developments in bioinformatics research from RECOMB2002 (Washington) |
Deborah Weisser /
Judith Klein-Seetharaman |
| 30-Apr-02 |
Use of
compression algorithms in biological sequence analysis |
Deborah
Weisser |
| 6-May-02 |
"Classifying G-Protein
Coupled Receptors with Support Vector Machines" by Karchin, Karplus
and Haussler. |
Judith
Klein-Seetharaman |
| 13-May-02 |
Building a
dictionary for genomes: Identification of presumptive regulatory sites by
statistical analysis" by Bussemaker, Li and Siggia |
Rose
Hoberman |
| 21-May-02 |
multiple sequence alignment |
Judith
Klein-Seetharaman |
| 4-Jun-02 |
language
modeling techniques, i.e. whole-sentence modeling |
Roni
Rosenfeld |
| 25-Jun-02 |
Pattern Discovery in Biological
Sequences (A. Brazma et al. (1997) Approaches to the automatic discovery
of patterns in biosequences; B. Brejova et al. (2000) Finding patterns in
biological sequences |
Chengxiang Zhai |
| 2-Jul-02 |
Comparison of
use of SVMs with alternative methods in homology detection (R. Karchin et
al: Classifying G-protein coupled receptors with SVM; L. Liao & W.S.
Noble: Combining pairwise sequence similarity and SVM for remote protein
homology detection) |
Yiming
Yang |
| 9-Sep-02 |
Planning
Seminar |
Judith
Klein-Seetharaman |
| 23-Sep-02 |
Biological
significance of bioinformatics topics |
Judith
Klein-Seetharaman |
| 30-Sep-02 |
Protein
sequence analysis and classification |
Judith
Klein-Seetharaman |
| 7-Oct-02 |
Predicting
Structures I |
Judith
Klein-Seetharaman |
| 14-Oct-02 |
Predicting
structures II |
Ivet
Bahar |
| 21-Oct-02 |
Predicting
structures III |
Judith
Klein-Seetharaman |
| 31-Oct-02 |
Whole
cell modeling |
Shlomo
Ta'asan |
| 11-Nov-02 |
Protein-ligand
interactions |
Judith
Klein-Seetharaman |
| 18-Nov-02 |
Protein-protein
interaction networks |
Judith
Klein-Seetharaman |
| 25-Nov-02 |
Protein
folding |
Ivet
Bahar |
| 2-Dec-02 |
Protein-protein
interaction domains |
Judith
Klein-Seetharaman |
| 9-Dec-02 |
Sequence
patterns in superfamilies |
Judith
Klein-Seetharaman |
| 16-Dec-02 |
Sequence
classification methods |
Betty
Cheng |
| 13-Jan-03 |
"State
of the art in membrane protein prediction" Paper: Chen and Rost
(2002) Appl. Bioinf. |
Gulsum
Anderson |
| 27-Jan-03 |
"Protein-protein
interaction motifs in GPCR" |
Harpreet
Kaur Dhiman |
| 3-Feb-03 |
Protein
protein interaction experimental studies |
Harpreet
Kaur Dhiman |
| 10-Feb-03 |
Clustering
Methods |
Jaime
Carbonell |
| 17-Mar-03 |
Protein
flexibility predictions |
A.
J. Rader |
| 7-Apr-03 |
"Dynamics
of the p53-mdm2 loop in living cells, and the design-principles of
biological feedback." |
Galit
Shenhar |
| 14-Apr-03 |
Immune
System |
Rose
Hoberman |
| 21-Apr-03 |
Gaussian
and anisotropic network models |
Basak
Isin |
| 28-Apr-03 |
DSSP
definitions and dihedral angles |
Judith
Klein-Seetharaman |
| 2-Jun-03 |
host
specificity of viruses |
Madhavi
Ganapathiraju |
| 16-Jun-03 |
A
Probabilistic Approach for Calculating the Entropy and Free Energy of
Macromolecular Systems with Computer Simulation |
Hagai
Meirovitch |
| 30-Jun-03 |
Sequence
classification using n-grams |
Dror
Tobi |
| 7-July-03 |
A survey of
segmenting approaches applied to GPCR |
Deborah
Weisser |
| 31-Jul-03 |
Dynamical field theory |
Claudia
Wilmzig |
| 18-Aug-03 |
Dipeptide
Substitution Matrices |
Oznur
Tastan |
| 25-Aug-03 |
A
comprehensive analysis of protein-protein interactions in Saccharomyces
cerevisiae"- which talks about the protein interaction Database by
CURAGEN(http://portal.curagen.com)- their methodologies and scope |
Venkatesh
Jitender |
| 8-Sep-03 |
A
Tale of Three Models-Simplified Molecular Modeling of Proteins |
Dan
Zuckerman |
| 15-Sep-03 |
Microarray
Experiments |
Judith
Klein-Seetharaman |
| 22-Sep-03 |
IPSVAC
- a bioinformatics platform |
Naveena
Venkatakumari |
| 29-Sep-03 |
PSI
prediction |
Yan
Liu |
| 6-Oct-03 |
Protein
protein interaction prediction |
Yanjun
Qi |
| 13-Oct-03 |
Computational
hypolotyping |
Jiangbo
Miao |
| 20-Oct-03 |
Proceedings
at this year's "European Conference on Computational Biology " |
Rose
Hoberman |
| 10-Nov-03 |
Prediction
of G-protein Coupling Specificity of GPCRs |
Betty
Cheng |
| 17-Nov-03 |
"Modes
of Differential Expression in Cancer: From Discovery Informatics to
Translational Informatics" |
Dr.
James Lyons-Weiler |
| 15-Dec-03 |
Golden
mean structure of genetic sequences |
Madhavi
Ganapathiraju |
| 26-Jan-04 |
Short Time
Series Microarray Data |
Jason
Ernst |
| 7-Feb-04 |
Halpert and Bruno:
Evolutionary Distances for Protein-Coding Sequences: Modeling
Site-Specific Residue Frequencies; McClellan and McCracken: Estimating the
Influence of Selection on the Variable Amino Acid Sites of the Cytochrome
b Protein Functional Domains; Dagan et al: Ratios of Radical to
Conservative Amino Acid Replacement are Affected by Mutational and
Compositional FActors and May Not be Indicative of Positive Darwinian
Selection |
Rose
Hoberman |
| 15-Mar-04 |
Mechanism
of Signal Transduction by Rhodopsin as a Model GPCR |
Basak
Isin |
| 22-Mar-04 |
Grid
Computing - An Introduction and Applications |
Naveena
Venkatakumari |
| 5-Apr-04 |
A
review of structure learning methods and related comments |
Fan
Liu |
| 12-Apr-04 |
Structure
alignment methods |
Venkatesh
Jitender |
| 19-Apr-04 |
Imbalanced
set classification |
Yanjun
Qui |
| 26-Apr-04 |
Sequence-structure
correlation and its applications |
Jiangbo
Miao |
| 10-May-04 |
The
signature molecular descriptor |
Madhavi
Ganapathiraju |
| 17-May-04 |
Language
of DNA, RNA & Proteins |
Betty
Cheng |
| 24-May-04 |
Large-scale
expression of rhodopsin in the baculovirus system |
Harpreet
Dhiman |
|
7-Jun-04
|
"Physical
Network Models and Multi-source Data Integration" |
Jason
Ernst |
|
14-Jun-04
|
Review of
"First Annual RECOMB Workshop on Regulatory Genomics" March 26-27, 2004. |
Rose
Hoberman |
|
21-Jun-04
|
Membrane model for the G protein coupled
receptor rhodopsin: hydrophobic interface and dynamical structure |
Basak
Isin |
|
28-Jun-04
|
A Queue-based Method for Simulation
of Biological Self-Assembly Systems |
Farokh Jamalyaria
|
|
12-July-04
|
Modulation
of intrinsic  ,
 propensities of
amino acids by neighboring residues in the coil regions of protein structures:
NMR analysis and dissection of a ß-hairpin peptide
Griffiths-Jones, S.R., Sharman, G.J., Maynard,
A.J., and Searle, M.S. |
Venkatesh Jitender
|
|
19-July-04
|
|
Hari Krishna
|
|
26-July-04
|
The regulatory network learned from
microarray data using Lasso |
Fan Li
|
|
2-Aug-04
|
Structural genomics: computational
methods for structure analysis |
Yan Liu
|
|
9-Aug-04
|
charization of transmembrane
protein structure. |
Madhavi Ganapathiraju
|
|
16-Aug-04
|
Literature review
about classification methods for unbalanced class distribution condition |
Yanjun Qi
|
|
23-Aug-04
|
No Seminar |
|
|
30-Aug-04
|
An
Analysis of helix-to-strand transition between peptides with Identical
Sequences
-Zhou etal. |
Viji Manoharan
|
|
7-Sep-04
|
No Seminar |
|
|
14-Sep-04
|
|
Jiangbo Miao
|
|
21-Sep-04
|
No Seminar |
|
|
28-Sep-04
|
Interaction
between calcium-free calmodulin and IQ motif of neurogranin studied by NMR |
David Man
|
|
5-Oct-04
|
Structural aspects and design of
low-molecular-mass complement inhibitors" by D. Morikis and J.D. Lambris. |
Betty Cheng
|
|
12-Oct-04
|
Naturally occurring mutation of the opsin gene (T4R) in dogs affects glycosylation and stability of the G protein – coupled receptor"
Krzysztof Palczewski etal , JBC September 30, 2004. |
Harpreet Dhiman
|
|
19-Oct-04
|
"Genomic analysis of regulatory network dynamics reveals large toplogical
changes". Nature, Sep. 2004. |
Jason Ernst
|
|
26-Oct-04
|
A novel approach to the recognition of protein architecture from sequence
using fourier analysis and neural networks
by Adrian J. Shepherd, Denise Gorse, Janet M. Thornton |
MAdhavi Ganapathiraju
|
|
2-Nov-04
|
Sequence Comparisons Using
Multiple Sequences Detect Three Times as Many Remote Homologues as Pairwise
Methods' J. of Mol. Biol. 1998. |
Yong Lee
|
|
9-Nov-04
|
Molecular Dynamics Simulations of Peptides and Proteins
with Amplified Collective Motions |
Basak Isin
|
|
16-Nov-04
|
|
Venkatesh Jitender
|
|
23-Nov-04
|
|
Hari Krishna
|
|
30-Nov-04
|
|
Fan Li
|
|
|
|
|
