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| Line 227: |
Line 227: |
| | |[http://www.cell.com/abstract/S0092-8674(11)00371-0 a high-resolution ''c.elegans'' essential gene network based on phenotypic profiling of a complex tissue] | | |[http://www.cell.com/abstract/S0092-8674(11)00371-0 a high-resolution ''c.elegans'' essential gene network based on phenotypic profiling of a complex tissue] |
| | |- | | |- |
| − | |rowspan = "3" | | + | |rowspan = "3" |2011/04/25 |
| − | |rowspan = "3" |April 25 Mon, 2011
| + | | |
| − | |rowspan = "3" |S Beck | + | |
| | |[http://www.ncbi.nlm.nih.gov/pubmed/21376230 Hallmarks of Cancer : The next generation] | | |[http://www.ncbi.nlm.nih.gov/pubmed/21376230 Hallmarks of Cancer : The next generation] |
| | |- | | |- |
| | + | | |
| | |[http://www.cell.com/abstract/S0092-8674(11)00296-0 Mapping Cancer Origins] | | |[http://www.cell.com/abstract/S0092-8674(11)00296-0 Mapping Cancer Origins] |
| | |- | | |- |
| | + | | |
| | |[http://www.cell.com/abstract/S0092-8674(11)00297-2 Genetic Interactions in Cancer Progression and Treatment] | | |[http://www.cell.com/abstract/S0092-8674(11)00297-2 Genetic Interactions in Cancer Progression and Treatment] |
| | |- | | |- |
| − | |rowspan = "2" | | + | |rowspan = "2" |2011/04/11 |
| − | |rowspan = "2" |April 11 Mon, 2011
| + | | |
| − | |JE Shim | + | |
| | |[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1001273 Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology] | | |[http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1001273 Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology] |
| | |- | | |- |
| − | |T Lee | + | | |
| | |***Changed!*** | | |***Changed!*** |
| | [http://www.ncbi.nlm.nih.gov/pubmed/19557189 Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions] | | [http://www.ncbi.nlm.nih.gov/pubmed/19557189 Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions] |
| | |- | | |- |
| − | |rowspan = "2"| | + | |rowspan = "2"|2011/03/28 |
| − | |rowspan = "2"|March 28 Mon, 2011
| + | | |
| − | |rowspan = "2"|TY Oh | + | |
| | |[http://www.pnas.org/content/106/44/18843.long profiling translatomes of discrete cell populations resolves altered cellular priorities during hypoxia in Arabidopsis] | | |[http://www.pnas.org/content/106/44/18843.long profiling translatomes of discrete cell populations resolves altered cellular priorities during hypoxia in Arabidopsis] |
| | |- | | |- |
| | + | | |
| | |[http://www.nature.com/msb/journal/v6/n1/full/msb201076.html cell-type specific analysis of translating RNAs in developing flowers reveals new levels of control] | | |[http://www.nature.com/msb/journal/v6/n1/full/msb201076.html cell-type specific analysis of translating RNAs in developing flowers reveals new levels of control] |
| | |- | | |- |
| − | |rowspan = "2"| | + | |rowspan = "2"|2011/03/14 |
| − | |rowspan = "2"|March 14 Mon, 2011
| + | | |
| − | |rowspan = "2"|JW Song | + | |
| | |[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WSN-51SFHJD-1&_user=44062&_coverDate=01%2F07%2F2011&_rdoc=1&_fmt=high&_orig=search&_origin=search&_sort=d&_docanchor=&view=c&_acct=C000004738&_version=1&_urlVersion=0&_userid=44062&md5=2f6017aab4c794ed7e78fbbd8447077a&searchtype=a phenotypic landscape of a bacterial cell] | | |[http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6WSN-51SFHJD-1&_user=44062&_coverDate=01%2F07%2F2011&_rdoc=1&_fmt=high&_orig=search&_origin=search&_sort=d&_docanchor=&view=c&_acct=C000004738&_version=1&_urlVersion=0&_userid=44062&md5=2f6017aab4c794ed7e78fbbd8447077a&searchtype=a phenotypic landscape of a bacterial cell] |
| | |- | | |- |
| | + | | |
| | |[http://www.nature.com/msb/journal/v6/n1/full/msb2010107.html cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action] | | |[http://www.nature.com/msb/journal/v6/n1/full/msb2010107.html cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action] |
| | |- | | |- |
| − | | + | |rowspan = "2"|2011/02/28 |
| − | |rowspan = "2"| | + | | |
| − | |rowspan = "2"|February 28 Mon, 2011
| + | |
| − | |KS Kim | + | |
| | |[http://www.pnas.org/content/early/2010/09/23/1004666107.abstract genomic patterns of pleiotropy and the evolution of complexity] | | |[http://www.pnas.org/content/early/2010/09/23/1004666107.abstract genomic patterns of pleiotropy and the evolution of complexity] |
| | |- | | |- |
| − | |HJ Han | + | | |
| | |[http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1001009 simultaneous genome-wide inference of physical, genetic, regulatory, and functional pathway] | | |[http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1001009 simultaneous genome-wide inference of physical, genetic, regulatory, and functional pathway] |
| | |- | | |- |
| | + | |2011/02/21 |
| | | | | | |
| − | |February 21 Mon, 2011
| |
| − | |MH Lee
| |
| | |[http://www.nature.com/msb/journal/v6/n1/full/msb201071.html dynamic interaction networks in a hierarchically organized tissue] | | |[http://www.nature.com/msb/journal/v6/n1/full/msb201071.html dynamic interaction networks in a hierarchically organized tissue] |
| | |- | | |- |
| | + | |2011/02/14 |
| | | | | | |
| − | |February 14 Mon, 2011
| |
| − | |AR Cho
| |
| | |[http://www.sciencemag.org/content/330/6009/1385.abstract rewiring of genetic networks in response to DNA damage] | | |[http://www.sciencemag.org/content/330/6009/1385.abstract rewiring of genetic networks in response to DNA damage] |
| | |- | | |- |
| | |rowspan = "2"| | | |rowspan = "2"| |
| − | |rowspan = "2"|January 31 Mon, 2011 | + | |rowspan = "2"|2011/01/31 |
| − | |rowspan = "2"|JW Song | + | | |
| | |[http://www.nature.com/nrg/journal/v10/n9/abs/nrg2633.html Applying mass spectrometry-based proteomics to genetics, genomics and network biology] | | |[http://www.nature.com/nrg/journal/v10/n9/abs/nrg2633.html Applying mass spectrometry-based proteomics to genetics, genomics and network biology] |
| | |- | | |- |
| | + | | |
| | |[http://physiolgenomics.physiology.org/content/33/1/18.long Data analysis and bioinformatics tools for tandem mass spectrometry in proteomics] | | |[http://physiolgenomics.physiology.org/content/33/1/18.long Data analysis and bioinformatics tools for tandem mass spectrometry in proteomics] |
| | |- | | |- |
| − | |rowspan = "2"| | + | |rowspan = "2"|2010/12/27 |
| − | |rowspan = "2" | December 27 Mon, 2010
| + | | |
| − | |ER Kim | + | |
| | |[http://www.nature.com/nature/journal/v467/n7312/full/nature09326.html Functional_roles_fornoise_in_genetic_circuits] | | |[http://www.nature.com/nature/journal/v467/n7312/full/nature09326.html Functional_roles_fornoise_in_genetic_circuits] |
| | |- | | |- |
| Date
|
Paper_index
|
Paper_title
|
| 2012/03/05
|
2012-34
|
(8,HH Kim)Mapping and quantifying mammalian transcriptomes by RNA-Seq.
|
| 2012-33
|
(11,Go&Ju)Differential expression analysis for sequence count data
|
| 2012-32
|
(12,Go&Ju)edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
|
2012/02/27
2012/02/28
|
2012-31
|
(1,JW Song)RNA-Seq: a revolutionary tool for transcriptomics
|
| 2012-30
|
(2,JW Song)Computational methods for transcriptome annotation and quantification using RNA-seq
|
| 2012-29
|
(3,HJ Han)From RNA-seq reads to differential expression results
|
| 2012-28
|
(4,AR Cho)Comprehensive comparative analysis of strand-specific RNA sequencing methods
|
| 2012-27
|
(5,T Lee)A Low-Cost Library Construction Protocol and Data Analysis Pipeline for Illumina-Based Strand-Specific Multiplex RNA-Seq
|
| 2012-26
|
(6,So&Shin)Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
|
| 2012-25
|
(7,So&Shin)TopHat: discovering splice junctions with RNA-Seq
|
| 2012/02/06
|
2012-24
|
mirConnX: condition-specific mRNA-microRNA network integrator
|
| 2012-23
|
Construction and Analysis of an Integrated Regulatory Network Derived from High-Throughput Sequencing Data
|
| 2012-22
|
A Densely Interconnected Genome-Wide Network of MicroRNAs and Oncogenic Pathways Revealed Using Gene Expression Signatures
|
| 2012-21
|
Reprogramming of miRNA networks in cancer and leukemia
|
| 2012-20
|
An Extensive MicroRNA-Mediated Network of RNA-RNA Interactions Regulates Established Oncogenic Pathways in Glioblastoma
|
| 2012/01/30
|
2012-19
|
Principles and Strategies for Developing Network Models in Cancer
|
| 2012-18
|
Reverse engineering of regulatory networks in human B cells
|
| 2012-17
|
Variations in DNA elucidate molecular networks that cause disease
|
| 2012-16
|
Harnessing gene expression to identify the genetic basis of drug resistance
|
| 2012-15
|
An Integrated Approach to Uncover Drivers of Cancer
|
| 2012/01/09
|
2012-14
|
Genetic variation in an individual human exome.
|
| 2012-13
|
Predicting phenotypic variation in yeast from individual genome sequences.
|
| 2012-12
|
Clinical assessment incorporating a personal genome.
|
2012/01/09
2012/01/16
|
2012-11
|
Human allelic variation: perspective from protein function, structure, and evolution.
|
| 2012-10
|
Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm.
|
| 2012-09
|
Prediction of deleterious human alleles.
|
| 2012-08
|
Human non-synonymous SNPs: server and survey.
|
| 2012-07
|
A method and server for predicting damaging missense mutations.
|
| 2012-06
|
SNAP: predict effect of non-synonymous polymorphisms on function
|
2012/01/09
2012/01/16
|
2012-05
|
Computational and statistical approaches to analyzing variants identified by exome sequencing.
|
| 2012-04
|
Shifting paradigm of association studies: value of rare single-nucleotide polymorphisms.
|
| 2012-03
|
Targeted capture and massively parallel sequencing of 12 human exomes.
|
2012/01/09
2012/01/16
|
2012-02
|
The distribution of fitness effects of new mutations.
|
| 2012-01
|
Most Rare Missense Alleles Are Deleterious in Humans: Implications for Complex Disease and Association Studies
|
| 2011/11/28
|
|
(Shin)Data-Driven Methods to Discover Molecular Determinants of Serious Adverse Drug Events
|
|
|
(Shin)Network pharmacology: the next paradigm in drug discovery
|
|
|
(Oh)Systematic exploration of synergistic drug pairs
|
|
|
(Shim)Chemogenomic profiling predicts antifungal synergies
|
|
|
(Beck)A strategy for predicting the chemosensitivity of human cancers and its application to drug discovery
|
|
|
(Hwang)Analysis of drug-induced effect patterns to link structure and side effects of medicines
|
| 2011/11/14
|
|
Network-Based Elucidation of Human Disease Similarities Reveals Common Functional Modules Enriched for Pluripotent Drug Targets
|
|
|
Cross-species discovery of syncretic drug combinations that potentiate the antifungal fluconazole
|
|
|
Analysis of multiple compound–protein interactions reveals novel bioactive molecules
|
| 2011/11/07
|
|
Drug—target network
|
|
|
A side effect resource to capture phenotypic effects of drugs
|
|
|
Quantitative systems-level determinants of human genes targeted by successful drugs
|
|
|
Drug Target Identification Using Side-Effect Similarity
|
| 2011/11/07
|
|
Discovery and Preclinical Validation of Drug Indications Using Compendia of Public Gene Expression Data
|
|
|
Exploiting drug–disease relationships for computational drug repositioning
|
|
|
Drug Discovery in a Multidimensional World: Systems, Patterns, and Networks
|
| 2011/10/05
|
|
Analysis of membrane proteins in metagenomics: Networks of correlated environmental features and protein families
|
|
|
Quantifying environmental adaptation of metabolic pathways in metagenomics
|
|
|
Quantitative assessment of protein function prediction from metagenomics shotgun sequences
|
| 2011/10/04
|
|
A human gut microbial gene catalogue established by metagenomic sequencing
|
|
|
Molecular eco-systems biology: towards an understanding of community function
|
|
|
Microbial community profiling for human microbiome projects: Tools, techniques, and challenges
|
|
|
Unravelling the effects of the environment and host genotype on the gut microbiome
|
| 2011/09/19
|
|
independently evolved virulence effectors converge onto hubs in a plant immune system Network
|
|
|
Evidence for network evolution in an arabidopsis interactome Map
|
| 2011/09/05
|
|
Exome Sequencing of Ion Channel Genes Reveals Complex Profiles Confounding Personal Risk Assessment in Epilepsy
|
|
|
Pluripotency factors in Embryonic stem cells Regulate Differentiation into Germ Layers
|
| 2011/09/22
|
|
Integrated Genome-scale predition of Detrimental Mutations in Transcription Networks
|
|
|
From expression QTLs to personalized transcriptomics
|
| 2011/06/20
|
JH Shin
|
a user's guide to the encyclopedia of DNA elements(ENCODE)
|
| 2011/03/30
|
|
enterotypes of the human gut microbiome
|
|
|
toward molecular trait-based ecology, through intergration of biogeochemical, geographical and metagenomic data
|
| 2011/03/16
|
|
variable pathogenicity determines individual lifespan in caenorhabditis elegans
|
| a high-resolution c.elegans essential gene network based on phenotypic profiling of a complex tissue
|
| 2011/04/25
|
|
Hallmarks of Cancer : The next generation
|
|
|
Mapping Cancer Origins
|
|
|
Genetic Interactions in Cancer Progression and Treatment
|
| 2011/04/11
|
|
Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology
|
|
|
***Changed!***
Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions
|
| 2011/03/28
|
|
profiling translatomes of discrete cell populations resolves altered cellular priorities during hypoxia in Arabidopsis
|
|
|
cell-type specific analysis of translating RNAs in developing flowers reveals new levels of control
|
| 2011/03/14
|
|
phenotypic landscape of a bacterial cell
|
|
|
cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action
|
| 2011/02/28
|
|
genomic patterns of pleiotropy and the evolution of complexity
|
|
|
simultaneous genome-wide inference of physical, genetic, regulatory, and functional pathway
|
| 2011/02/21
|
|
dynamic interaction networks in a hierarchically organized tissue
|
| 2011/02/14
|
|
rewiring of genetic networks in response to DNA damage
|
|
|
2011/01/31
|
|
Applying mass spectrometry-based proteomics to genetics, genomics and network biology
|
|
|
Data analysis and bioinformatics tools for tandem mass spectrometry in proteomics
|
| 2010/12/27
|
|
Functional_roles_fornoise_in_genetic_circuits
|
| T Lee
|
Estimation_of_effect_size_distribution_from_genome-wide_association_studies_and_implications_for_future_discoveries
|
|
|
November 15 Mon, 2010
|
AR Cho
|
Liver_and_Adipose_Expression_associated_SNPs_are_enriched_for_association_to_type_2_diabetes
|
| SG Ji
|
It's_the_machine_that_matters:_predicting_gene_function_and_phenotype_from_protein_networks
|
|
|
November 1 Mon, 2010
|
HH Kim
|
A_genome-wide_map_of_human_genetic_interactions_inferred_from_radiation_hybrid_genotypes
|
| JH Shin
|
A_Genome-Wide_Gene_Function_Prediction_Resource_for_Drosophila_melanogaster
|
|
|
October 11 Mon, 2010
|
JE Shim
|
Dissecting_spatio-temporal_protein_networks_driving_human_heart_development_and_related_disorders
|
|
|
September 13 Mon, 2010
|
SH Hwang
|
Transposable_elements_have_rewired_the_core_regulatory_network_of_human_embryonic_stem_cells
Limits_of_sequence_and_functional_conservation
|
|
|
May 26 Wed, 2010
|
AR Cho
|
network_based_elucidation_of_human_disease_similarities_reveals_common_functional_modules_enriched_for_pluripotent_drug_targets.pdf
|
|
|
May 19 Wed, 2010
|
SG Ji
|
interpreting_metabolomic_profiles_using_unbiased_pathway_models.pdf
|
|
|
April 21 Wed, 2010
|
JH Shin
|
identification_of_networks_of_co_occurring_tumor_related_dna_copy_number_changes_using_a_genome_wide_scoringapproach.pdf
|
|
|
April 14 Wed, 2010
|
TY Oh
|
an_atlas_of_combinatorial_transcriptional_regulation_in_mouse_and_man
|
|
|
April 7 Wed, 2010
|
HHkim
|
systematic_discovery_of_nonobvious_human_disease_models_through_orthologous_phenotypes
|
| T Lee
|
genome_side_association_study_of_107_phenotypes_in_Arabidopsis_thaliana_inbred_lines
|
|
|
Mar 31 Wed, 2010
|
JE Shim
|
toward_stem_cell_systems_biology_from_molecules_to_networks_and_landscapes.pdf
systems_biology_of_stem_cell_fate_and_cellular_reprogramming
|
|
|
Mar 24 Wed, 2010
|
SH Hwang
|
dynamic_modularity_in_protein_interaction_networks_predicts_breast_cancer_outcome
|
|
|
Jan 18 Mon, 2010
|
TY Oh(T Lee)
|
JournalClub_100118_a_tutorial_on_statistical_methods_for_population_association_studies
|
|
|
Jan 16 Sat, 2010
|
JE Shim(MH Lee)
|
systems-level_dinamic_analyses_of_fate_change_in_murine_embryonic_stem_cells
|
|
|
Jan 15 Fri, 2010
|
SG Ji
|
distinguishing_direct_versus_indirect_transcription_factor-DNA-interactions
|
|
|
Jan 14 Thu, 2010
|
HH kim
|
chemogenomic_profiling_predicts_antifungal_synergies
|
|
|
Jan 13 Wed, 2010
|
JH Shin(ER Kim)
|
edgetic_perturbation_models_of_human_inherited_disorders
|
|
|
Jan 12 Tue, 2010
|
TY Oh(T Lee)
|
analysis_of_cell_fate_from_single-cell_gene_expression_profiles_in_C.elegans
|
|
|
Jan 11 Mon, 2010
|
JE Shim(MH Lee)
|
predicting_new_molecular_targets_for_known_drugs.pdf
Reference:SEA(Similarity Ensemble Approach)
|
|
|
Jan 09 Sat, 2010
|
SG Ji
|
harnessing_gene_expression_to_identify_the_genetic_basis_of_drug_resistance
|
|
|
Jan 08 Fri, 2010
|
AR Cho
|
an_integrative_approach_to_reveal_driver_gene_fusions_from_paired_end_sequencing_data_in_cancer
|
|
|
Jan 07 Thu, 2010
|
HH Kim
|
a_phenotypic_profile_of_the_candida_albicans_regulatory_network
|
|
|
Jan 06 Wed, 2010
|
JH Shin(ER Kim)
|
a_global_view_of_protein_expression_in_human_cells_tissues_and_organs
|
