Gerstein Lab Publications

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LabIDAuthorPubMed WebsiteTitleJournal 
infoflow Yan 21603617 - The Spread of. . . PLoS One -
ncvar Mu 21596777 - Analysis of genomic. . . Nucleic Acids Res -
ajobgwas Greenbaum 21534147 - Social considerations in. . . Am J Bioeth -
encode101 21526222 - A user's guide. . . PLoS Biol -
21460040 Fasolo 21460040 - Diverse protein kinase. . . Genes Dev -
crit Gianoulis 21453526 - The CRIT framework. . . Genome Biol -
cisreg Nègre 21430782 - A cis-regulatory map. . . Nature -
21408204 Euskirchen 21408204 - Diverse roles and. . . PLoS Genet -
act Jee 21349863 act.gersteinlab.org/ ACT: aggregation and. . . Bioinformatics -
wavelets Karpikov 21338513 - Tiling array data. . . BMC Bioinformatics -
CNVnator Abyzov 21324876 sv.gersteinlab.org/cnvnator/ CNVnator: An approach. . . Genome Res -
worm_HM Cheng 21324173 archive.gersteinlab.org/proj/chromodel A statistical framework. . . Genome Biol -
cancergenome Berger 21307934 - The genomic complexity. . . Nature -
1kgv Mills 21293372 - Mapping copy number. . . Nature -
rewiring Shou 21253555 - Measuring the evolutionary. . . PLoS Comput Biol -
age Abyzov 21233167 sv.gersteinlab.org/age AGE: defining breakpoints. . . Bioinformatics -
refgeneset Balasubramanian 21205862 - Gene inactivation and. . . Genes Dev -
21204834 Vaccarino 21204834 - Annual Research Review:. . . J Child Psychol Psychiatry -
incrna Lu 21177971 archive.gersteinlab.org/proj/incrna/ Prediction and characterization. . . Genome Res X
21177963 Niu 21177963 - Diverse transcription factor. . . Genome Res -
rseqtools Habegger 21134889 rseqtools.gersteinlab.org RSEQtools: a modular. . . Bioinformatics -
notetsfusions Pflueger 21036922 - Discovery of non-ETS. . . Genome Res -
isproundtable - - www.computer.org/portal/web/csdl/doi/10.1109/MCSE.2010.113 Reproducible Research: Addressing. . . - -
wormawg Gerstein 21177976 www.modencode.org/publications/integrative_worm_2010/ Integrative analysis of. . . Science X
hier-rewiring Bhardwaj 21045205 info.gersteinlab.org/Hierarchy Rewiring of transcriptional. . . Sci Signal X
21035178 Li 21035178 - Extensive in vivo. . . Cell -
cnv-mcmc Zhang 21034510 - Detection of copy. . . BMC Bioinformatics -
1kgpilot 20981092 - A map of. . . Nature -
fusionseq Sboner 20964841 archive.gersteinlab.org/proj/rnaseq/fusionseq FusionSeq: a modular. . . Genome Biol -
structbl Cheung 20739925 - Structured digital tables. . . Mol Syst Biol -
NRGncannote Alexander 20628352 - Annotating non-coding regions. . . Nat Rev Genet X
sdpgenes Khurana 20615899 pseudogene.org/sdpgenes/ Segmental duplications in. . . Nucleic Acids Res -
seqvarrays Agarwal 20565764 modencode.org Comparison and calibration. . . BMC Genomics -
sdpgenesonto Holford 20529940 ontology.pseudogene.org Using semantic web. . . Bioinformatics -
coreg-scaling Bhardwaj 20523742 wiki.gersteinlab.org/pubinfo/Human_TF_List Analysis of combinatorial. . . PLoS Comput Biol -
3v Voss 20478824 3vee.molmovdb.org/ 3V: cavity, channel. . . Nucleic Acids Res X
motifs Lam 20459839 motips.gersteinlab.org MOTIPS: automated motif. . . BMC Bioinformatics X
callgraph Yan 20439753 networks.gersteinlab.org/callgraph Comparing genomes to. . . Proc Natl Acad Sci U S A X
metamembrane Patel 20430783 metagenomics.gersteinlab.org/membrane Analysis of membrane. . . Genome Res X
20369013 Lee 20369013 - Network modeling identifies. . . PLoS Comput Biol X
orthologs Fang 20361041 wiki.gersteinlab.org/pubinfo/Ortholog_Resources Getting started in. . . PLoS Comput Biol X
nethier Bhardwaj 20351254 info.gersteinlab.org/Hierarchy Analysis of diverse. . . Proc Natl Acad Sci U S A X
20299548 Kasowski 20299548 - Variation in transcription. . . Science X
20233430 Sboner 20233430 - Molecular sampling of. . . BMC Med Genomics X
unitary Zhang 20210993 - Identification and analysis. . . Genome Biol X
20122235 Bhardwaj 20122235 - Genome-wide sequence-based prediction. . . BMC Bioinformatics X
20194744 Wu 20194744 - Dynamic transcriptomes during. . . Proc Natl Acad Sci U S A X
personalgenomics Snyder 20194435 - Personal genome sequencing:. . . Genes Dev X
20174564 Zhong 20174564 - Genome-wide identification of. . . PLoS Genet X
20159853 Mok 20159853 - Deciphering protein kinase. . . Sci Signal X
20139302 Raha 20139302 - Close association of. . . Proc Natl Acad Sci U S A X
dream Yip 20126643 - Improved reconstruction of. . . PLoS One X
breakseq Lam 20037582 sv.gersteinlab.org/breakseq/ Nucleotide-resolution analysis of. . . Nat Biotechnol X
rigidfinder Abyzov 19705487 rigidfinder.molmovdb.org RigidFinder: a fast. . . Proteins X
lawvsscience - - www.sciencemag.org/cgi/content/summary/323/5911/210a Science and the. . . - X
20080792 Canaan 20080792 - EBNA1 regulates cellular. . . Proc Natl Acad Sci U S A X
socnet-persgenomics Greenbaum 19998104 - Social networking and. . . Am J Bioeth X
19841731 Tonikian 19841731 - Bayesian modeling of. . . PLoS Biol X
gapdh-pgenes Liu 19835609 pseudogene.org/glycolysis/ Comprehensive analysis of. . . BMC Genomics X
rlm Sboner 19817483 - Robust-linear-model normalization to. . . J Proteome Res X
mirna-evol Cheng 19751524 - The relationship between. . . BMC Genomics X
drugdiscovrev Arinaminpathy 19733256 - Computational analysis of. . . Drug Discov Today X
rescore Cheng 19723326 - mRNA expression profiles. . . Genome Biol X
sonoseq Auerbach 19706456 - Mapping accessible chromatin. . . Proc Natl Acad Sci U S A X
multilevellearning Yip 19656385 - Multi-level learning: improving. . . BMC Bioinformatics X
textminingpart2 Rzhetsky 19649304 - Getting started in. . . PLoS Comput Biol X
NDRG1 Pflueger 19649210 - N-myc downstream regulated. . . Neoplasia X
ricepgenes Guo 19649160 - Small RNAs originated. . . PLoS Comput Biol X
netdynamicsrev Alexander 19638611 - Understanding modularity in. . . Sci Signal X
seqvmpss Sasidharan 19630981 - An approach to. . . BMC Res Notes X
artificialtm Talbert-Slagle 19605488 - Artificial transmembrane oncoproteins. . . J Virol X
downs Korbel 19597142 - The genetic architecture. . . Proc Natl Acad Sci U S A X
reseqsim Du 19593373 archive.gersteinlab.org/proj/ReSeqSim/ Integrating sequencing technologies. . . PLoS Comput Biol X
modencode-marker Celniker 19536255 modencode.org Unlocking the secrets. . . Nature X
evolrate Xia 19521505 - Integrated assessment of. . . PLoS Comput Biol X
saltresponse Ni 19487574 - Dynamic and complex. . . Genes Dev X
packingeff Bhardwaj 19472340 www2.molmovdb.org/wiki/info/index.php/Protein_Packing Relating protein conformational. . . Protein Sci X
personalphenotypes Snyder 19455137 - Personal phenotypes to. . . Mol Syst Biol X
base Cheng 19442316 - Systematic identification of. . . BMC Genomics X
zebrafish Mishima 19240126 - Zebrafish miR-1 and. . . Genes Dev X
pemer Korbel 19236709 sv.gersteinlab.org/pemer/ PEMer: a computational. . . Genome Biol X
stonehinge Keating 19180449 stonehinge.molmovdb.org StoneHinge: hinge prediction. . . Protein Sci X
metagenomics Gianoulis 19164758 networks.gersteinlab.org/metagenomics Quantifying environmental adaptation. . . Proc Natl Acad Sci U S A X
multiplex Lefrançois 19159457 - Efficient yeast ChIP-Seq. . . BMC Genomics X
ergaberation Demichelis 19156837 - Distinct genomic aberrations. . . Genes Chromosomes Cancer X
hoxa Zhang 19144990 - A myelopoiesis-associated regulatory. . . Blood X
rp-pgenes Balasubramanian 19123937 www.pseudogene.org/ribosomal-protein Comparative analysis of. . . Genome Biol X
PeakSeq Rozowsky 19122651 www.gersteinlab.org/proj/PeakSeq PeakSeq enables systematic. . . Nat Biotechnol X
mapktargets Popescu 19095804 - MAPK target networks. . . Genes Dev X
msb Wang 19037015 - MSB: a mean-shift-based. . . Genome Res X
rnaseq Wang 19015660 - RNA-Seq: a revolutionary. . . Nat Rev Genet X
tse Yip 19015141 networks.gersteinlab.org/tse/ Training set expansion:. . . Bioinformatics X
pseudofam Lam 18957444 pseudofam.pseudogene.org Pseudofam: the pseudogene. . . Nucleic Acids Res X
amsci - - papers.gersteinlab.org/e-print/amsci Genomics Confounds Gene. . . - X
mismatch Seringhaus 19117516 - Mismatch oligonucleotides in. . . BMC Genomics X
tric Yam 19011634 - Defining the TRiC/CCT. . . Nat Struct Mol Biol X
anonymity Greenbaum 19003717 - Genomic anonymity: have. . . Am J Bioeth X
olfacdiversity Hasin 18989455 - High-resolution copy-number variation. . . PLoS Genet X
sdcnvcorr Kim 18842824 www.gersteinlab.org/proj/sdcnvcorr/ Analysis of copy. . . Genome Res X
chip-seq-simu Zhang 18725927 www.gersteinlab.org/proj/chip-seq-simu/ Modeling ChIP sequencing. . . PLoS Comput Biol X
transmemb-oxy-content Sasidharan 18628944 - Transmembrane protein oxygen. . . PLoS One X
CellTextMining Rzhetsky 18614002 - Seeking a new. . . Cell X
sirnapgene Sasidharan 18528383 - Genomics: protein fossils. . . Nature X
cosbcnv Korbel 18511261 - The current excitement. . . Curr Opin Struct Biol X
hcpin Huang 18487680 - Targeting the human. . . Mol Cell Proteomics X
3prime Lian 18487515 - A genomic analysis. . . Genome Res X
rubincancer Mertz 18478571 - Association of cytokeratin. . . Int J Cancer X
yeasttranscriptome Nagalakshmi 18451266 - The transcriptional landscape. . . Science X
hingemaster Flores 18433058 molmovdb.org/cgi-bin/submit-flexoracle.cgi HingeMaster: normal mode. . . Proteins X
CD4 Zhang 18414925 - Rapid evolution by. . . J Mol Evol X
killapp Bourne 18369428 - Open access: taking. . . PLoS Comput Biol X
netdisorder Kim 18364713 - The role of. . . Mol Syst Biol X
sdafollowup Seringhaus 18328823 - Manually structured digital. . . FEBS Lett X
encodespikein Johnson 18258921 - Systematic evaluation of. . . Genome Res X
funnygene Seringhaus 18254929 www.gersteinlab.org/proj/funnygene/ Uncovering trends in. . . Genome Biol X
encoderaceseq Wu 18173853 - Systematic analysis of. . . Genome Biol X
nr-pseudogenes Zhang 18065488 pseudogene.org/nr/ Analysis of nuclear. . . Mol Biol Evol X
coevolution Yip 18056067 coevolution.gersteinlab.org/coevolution/ An integrated system. . . Bioinformatics X
semweb-dbinteg - - www.cs.concordia.ca/~baker/SW-RKDLS-May-2006.htm Semantic Web Approach. . . - X
webantitrust - - www.cs.concordia.ca/~baker/SW-RKDLS-May-2006.htm Semantic Web Standards:. . . - X
netpossel Kim 18077332 www.gersteinlab.org/proj/netpossel/ Positive selection at. . . Proc Natl Acad Sci U S A X
cancerdysreg Setlur 17974971 - Integrative microarray analysis. . . Cancer Res X
semweb-ir Smith 17923450 hub.gersteinlab.org/ir-supp Leveraging the structure. . . Bioinformatics X
hsp90 McClellan 17923092 - Diverse cellular functions. . . Cell X
sv Korbel 17901297 sv.gersteinlab.org Paired-end mapping reveals. . . Science X
pare Yu 17718915 proteomics.gersteinlab.org PARE: a tool. . . BMC Bioinformatics X
regnetdiverge Borneman 17690298 www.gersteinlab.org/proj/regnetdiverge Divergence of transcription. . . Science X
mimix Orchard 17687370 - The minimum information. . . Nat Biotechnol X
universalarray Royce 17686789 - Toward a universal. . . Nucleic Acids Res X
YEASTPLATCMP Borneman 17638031 - Transcription factor binding. . . Funct Integr Genomics X
flexoracle Flores 17587456 molmovdb.org FlexOracle: predicting flexible. . . BMC Bioinformatics X
edgeontology Lu 17583513 - Comparing classical pathways. . . Trends Biochem Sci X
encode-pilot 17571346 encode.gersteinlab.org Identification and analysis. . . Nature X
chipchipcmp Euskirchen 17568005 - Mapping of transcription. . . Genome Res X
encoderna Washietl 17568003 - Structured RNAs in. . . Genome Res X
encodepgenes Zheng 17568002 pseudogene.org/ENCODE Pseudogenes in the. . . Genome Res X
tredist Zhang 17567997 dart.gersteinlab.org/ENCODE/TR/ Statistical analysis of. . . Genome Res X
dart Rozowsky 17567993 DART.gersteinlab.org The DART classification. . . Genome Res X
encodepromoters Trinklein 17567992 - Integrated analysis of. . . Genome Res X
grgenerev Gerstein 17567988 wiki.gersteinlab.org/pubinfo/What_is_a_gene What is a. . . Genome Res X
pseudomedian Royce 17555595 tiling.gersteinlab.org/pseudomedian/ An efficient pseudomedian. . . BMC Bioinformatics X
breakptr Korbel 17551006 breakptr.gersteinlab.org Systematic prediction and. . . Proc Natl Acad Sci U S A X
funcsim Yu 17540677 www.gersteinlab.org/proj/funcsim/ Total ancestry measure:. . . Bioinformatics X
proteomicsurvey Wu 17519225 - Global survey of. . . Mol Cell Proteomics X
HingeAtlas Flores 17519025 molmovdb.org/HAG/ Hinge Atlas: relating. . . BMC Bioinformatics X
tilescope Zhang 17501994 tilescope.gersteinlab.org Tilescope: online analysis. . . Genome Biol X
SDA Gerstein 17495904 - Structured digital abstract. . . Nature X
linkhub Smith 17493288 hub.gersteinlab.org/ LinkHub: a Semantic. . . BMC Bioinformatics X
gettingconnected Zhu 17473168 - Getting connected: analysis. . . Genes Dev X
rnai Gerstein 17465677 pubnet.gersteinlab.org/rnai/ RNAi development. . . . PLoS Comput Biol X
bottleneck Yu 17447836 www.gersteinlab.org/proj/bottleneck/ The importance of. . . PLoS Comput Biol X
bioinformatics_sequence_effects Royce 17387113 tiling.gersteinlab.org/sequence_effects/ Assessing the need. . . Bioinformatics X
pgene-classify Zheng 17382428 www.pseudogene.org The ambiguous boundary. . . Trends Genet X
ricearray Li 17372628 dart.gersteinlab.org/rice/ Global identification and. . . PLoS One X
atprotchip Popescu 17360592 plants.gersteinlab.org/ Differential binding of. . . Proc Natl Acad Sci U S A X
baumannii Smith 17344419 - New insights into. . . Genes Dev X
novelprimaternas Zhang 17288572 - Comparative analysis of. . . BMC Evol Biol X
infoarch Seringhaus 17239245 - Publishing perishing? Towards. . . BMC Bioinformatics X
chemnobel Seringhaus 17204626 - Chemistry Nobel rich. . . Science X
cop Yu 17158151 bioinfo.mbb.yale.edu/ExpressYourself/ Positional artifacts in. . . Nucleic Acids Res X
platformcmp Emanuelsson 17119069 tiling.gersteinlab.org/platformcmp/ Assessing the performance. . . Genome Res X
pgenedb Karro 17099229 pseudogene.org Pseudogene.org: a comprehensive. . . Nucleic Acids Res X
cbb-prog Gerstein 16650809 - An interdepartmental Ph.D.. . . J Biomed Inform X
paperdeath - - www.the-scientist.com/2006/9/1/25/1/ The Death of. . . - X
powerlaw-analytic - - - Analytical Evolutionary Model. . . - X
quantbiosymp Rozowsky 17381286 - Novel transcribed regions. . . Cold Spring Harb Symp Quant Biol X
structint Kim 17185604 sin.gersteinlab.org Relating three-dimensional structures. . . Science X
webmining-letter Smith 17170276 - Data mining on. . . Science X
phenome2 Liu 17112314 www.gersteinlab.org/proj/phenome/ An integrative genomic. . . PLoS Comput Biol X
procat Zhu 17109749 purelight.biology.yale.edu:8080/servlets-examples/procat.html ProCAT: a data. . . Genome Biol X
bocatfbs Wang 17078876 www.gersteinlab.org/proj/BoCaTFBS/ BoCaTFBS: a boosted. . . Genome Biol X
hit Burba 17060355 helix.gersteinlab.org Helix Interaction Tool. . . Bioinformatics X
tilinghmm Du 17038339 tiling.gersteinlab.org/hmm/ A supervised hidden. . . Bioinformatics X
phenome Goh 17038185 www.gersteinlab.org/proj/phenome/ Integration of curated. . . BMC Genomics X
tyna Yip 17021160 networks.gersteinlab.org/tyna/ The tYNA platform. . . Bioinformatics X
nethierarchy Yu 17003135 www.gersteinlab.org/proj/nethierarchy/ Genomic analysis of. . . Proc Natl Acad Sci U S A X
tos9 Srikantha 16950924 - TOS9 regulates white-opaque. . . Eukaryot Cell X
mie.microarray.analysis.review Royce 16939796 - Extrapolating traditional DNA. . . Methods Enzymol X
454amp Pinard 16928277 - Assessment of whole. . . BMC Genomics X
pseudopiped Zheng 16925835 pseudogene.org/pseudoPipeD/index.html A computational approach. . . Genome Biol X
predess Seringhaus 16899653 www.gersteinlab.org/proj/predess Predicting essential genes. . . Genome Res X
sciam2 Gerstein 16866288 papers.gersteinlab.org/e-print/sciam2/ The real life. . . Sci Am X
netcmp Yu 16859507 networks.gersteinlab.org/network/netcomp/ Design principles of. . . Genome Biol X
ribotunnel Voss 16784753 geometry.molmovdb.org/3v/ The geometry of. . . J Mol Biol X
tndist Seringhaus 16648358 - Genomic analysis of. . . Nucleic Acids Res X
genomebrowser Gerstein 16598230 - Tools needed to. . . Nature X
pseudopipe Zhang 16574694 pseudogene.org PseudoPipe: an automated. . . Bioinformatics X
krogan-cplx Krogan 16554755 - Global landscape of. . . Nature X
hracgh Urban 16537408 - High-resolution mapping of. . . Proc Natl Acad Sci U S A X
defective-clique Yu 16455753 topnet.gersteinlab.org/clique/ Predicting interactions in. . . Bioinformatics X
targethub Borneman 16449570 - Target hub proteins. . . Genes Dev X
memint Xia 16413578 - Integrated prediction of. . . J Mol Biol X
molmovdb-update-nar Flores 16381870 molmovdb.org The Database of. . . Nucleic Acids Res X
tilingtools Bertone 16365382 tiling.gersteinlab.org Design optimization methods. . . Genome Res X
ijcnnn - - - Inferring Protein-Protein Interactions. . . - X
intint-chapter - - networks.gersteinlab.org/intint/ Protein Interaction Prediction. . . - X
movableorf Gelperin 16322557 - Biochemical and genetic. . . Genes Dev X
phosphorylome Ptacek 16319894 networks.gersteinlab.org/phosphorylome Global analysis of. . . Nature X
stat1 Hartman 16319195 array.mbb.yale.edu/chr22/STAT/ Global changes in. . . Genes Dev X
pilot-rice-tiling Stolc 16217608 - A pilot study. . . Plant Mol Biol X
security_data_archiving Smith 16168090 - Network security and. . . Genome Biol X
pubnet Douglas 16168087 pubnet.gersteinlab.org/ PubNet: a flexible. . . Genome Biol X
ASIC1 Coric 16002453 - Proton sensitivity of. . . J Physiol X
intint2 Lu 15998909 networks.gersteinlab.org/intint/ Assessing the limits. . . Genome Res X
Tiling-analysis Royce 15979196 - Issues in the. . . Trends Genet X
yeasthub Cheung 15961502 yeasthub.gersteinlab.org YeastHub: a semantic. . . Bioinformatics X
chr22-pgene-exp Zheng 15876366 pseudogene.org Integrated pseudogene annotation. . . J Mol Biol X
chrres-rev Bertone 15868420 - Applications of DNA. . . Chromosome Res X
multispecies-microarray Gilad 15867429 - Multi-species microarrays reveal. . . Genome Res X
est-pgene-exp Harrison 15860774 pseudogene.org Transcribed processed pseudogenes. . . Nucleic Acids Res X
beckwith-jb05 Huber 15838024 - Use of thioredoxin. . . J Bacteriol X
prot-prod-mie Acton 15808222 nesg.org Robotic cloning and. . . Methods Enzymol X
gpcrsnps-nar Balasubramanian 15784611 www.gersteinlab.org/proj/gpcrsnp Sequence variation in. . . Nucleic Acids Res X
microrna Grosshans 15737928 www.gersteinlab.org/proj/microrna The temporal patterning. . . Dev Cell X
nmodes2 Alexandrov 15722444 molmovdb.org/nma/ Normal modes for. . . Protein Sci X
nucprot Voss 15670598 geometry.molmovdb.org/NucProt/ Calculation of standard. . . J Mol Biol X
narimpediments Greenbaum 15608202 - Impediments to database. . . Nucleic Acids Res X
hpc-cases Carriero 15492032 - A high productivity/low. . . J Am Med Inform Assoc X
yeast-hub - - yeasthub.gersteinlab.org An XML-Based Approach. . . - X
memhlx-qrb Lehnert 15999419 - Computational analysis of. . . Q Rev Biophys X
replication-timing-pnas White 15591350 array.mbb.yale.edu/chr22/ DNA replication-timing analysis. . . Proc Natl Acad Sci U S A X
tiling-jcb Berman 15579244 zerlina.ingentaselect.com/vl=9024539/cl=83/nw=1/rpsv/cw/mal/10665277/v11n4/contp1-1.htm Fast optimal genome. . . J Comput Biol X
humgenome-tiling Bertone 15539566 transcriptome.gersteinlab.org/ Global identification of. . . Science X
encode-annouce 15499007 encode.gersteinlab.org The ENCODE (ENCyclopedia. . . Science X
zhao-ppint Lin 15491499 - Information assessment on. . . BMC Bioinformatics X
hall-sci Hall 15486299 - Regulation of gene. . . Science X
tn7-analysis Kumar 15466296 - Large-scale mutagenesis of. . . Genome Res X
funcpred-goldstd Jansen 15451510 www.cbio.mskcc.org/~jansen/comb/ Analyzing protein function. . . Curr Opin Microbiol X
sandy Luscombe 15372033 sandy.topnet.gersteinlab.org/ Genomic analysis of. . . Nature X
prok-pgenes Liu 15345048 prokaryotes.pseudogene.org/ Comprehensive analysis of. . . Genome Biol X
pgene-rev-COGD Zhang 15261647 www.pseudogene.org/ Large-scale analysis of. . . Curr Opin Genet Dev X
nesg-targets Wunderlich 15211503 nesg.org/ The protein target. . . Proteins X
trans-reg Babu 15193307 - Structure and evolution. . . Curr Opin Struct Biol X
netrev Xia 15189167 - Analyzing cellular biochemistry. . . Annu Rev Biochem X
sex-devcell Rinn 15177028 - Major molecular differences. . . Dev Cell X
security Greenbaum 15175700 - Computer security in. . . Nat Biotechnol X
interolog Yu 15173116 interolog.gersteinlab.org/ Annotation transfer between. . . Genome Res X
essen Yu 15145574 bioinfo.mbb.yale.edu/network/essen Genomic analysis of. . . Trends Genet X
dimaio-consensus-seq-jmb04 Freeman-Cook 15111056 - Selection and characterization. . . J Mol Biol X
protconf-cosb Goh 15102456 molmovdb.org/cosb/ Conformational changes associated. . . Curr Opin Struct Biol X
euskirchen_mcb_creb_chipchip Euskirchen 15082775 array.mbb.yale.edu/chr22/ CREB binds to. . . Mol Cell Biol X
pathway-enz Das 15048835 - A method using. . . Proteins X
largemot-cocb Gerstein 15036151 molmovdb.org/molmovdb/cocb Exploring the range. . . Curr Opin Chem Biol X
memrecomb Liu 14993608 - Transmembrane protein domains. . . Proc Natl Acad Sci U S A X
mouse-pgenes-TIG Zhang 14746985 pseudogene.org/ Comparative analysis of. . . Trends Genet X
spine2-jmb Goh 14741208 mining.nesg.org Mining the structural. . . J Mol Biol X
topnet Yu 14724320 genecensus.org/TopNet TopNet: a tool. . . Nucleic Acids Res X
3dhmm Alexandrov 14715091 molmovdb.org/geometry/3dhmm Using 3D Hidden. . . BMC Bioinformatics X
worm-interactome Li 14704431 - A map of. . . Science -
mots-mie Krebs 14696388 molmovdb.org Tools and databases. . . Methods Enzymol X
epub D Greenbaum - - An analysis of. . . - X
hugenome-cshl Lian 15338632 - Identification of novel. . . Cold Spring Harb Symp Quant Biol X
artifact2 Kluger 14667251 - Relationship between gene. . . BMC Genomics X
human-pgenes-gr2003 Zhang 14656962 pseudogene.org Millions of years. . . Genome Res X
arabidopsis-blue-reg Jiao 14605227 - A genome-wide analysis. . . Plant Physiol X
nature-biotech-2003 Zhang 14595359 - Reconstructing genetic networks. . . Nat Biotechnol X
polyorfome Harrison 14583187 pseudogene.org/polyo A "polyORFomic" analysis. . . J Mol Biol X
intint Jansen 14564010 genecensus.org/intint A Bayesian networks. . . Science X
svm-echipchip Qian 14555624 bioinfo.mbb.yale.edu/expression/echipchip Prediction of regulatory. . . Bioinformatics X
martone-pnas-nfkb-chipchip Martone 14527995 array.mbb.yale.edu/chr22 Distribution of NF-kappaB-binding. . . Proc Natl Acad Sci U S A X
indel-nar Zhang 12954770 www.pseudogene.org/indel-nar/ Patterns of nucleotide. . . Nucleic Acids Res X
prot-v-mrna Greenbaum 12952525 bioinfo.mbb.yale.edu/expression/prot-v-mrna Comparing protein abundance. . . Genome Biol X
dbcopyright Greenbaum 12949555 papers.gersteinlab.org/e-print/dbcopyright/extra/web/index.html A universal legal. . . Nat Biotechnol X
cyc-pseudogenes Zhang 12909341 bioinfo.mbb.yale.edu/genome/pseudogene/human-cyc The human genome. . . Gene X
echipchip Yu 12902159 bioinfo.mbb.yale.edu/regulation/TIG Genomic analysis of. . . Trends Genet X
artifact Qian 12866403 - Identification and correction. . . Biotechniques X
issue-overview-cosb03 Gerstein 12831885 - Sequences and topology.. . . Curr Opin Struct Biol X
expressyourself Luscombe 12824348 bioinfo.mbb.yale.edu/expressyourself ExpressYourself: A modular. . . Nucleic Acids Res X
jbio03-TFBS Zhang 12814519 - Of mice and. . . J Biol X
compbias Harrison 12801414 - A method to. . . Genome Biol X
xtalmine Kimber 12784215 - Data mining crystallization. . . Proteins X
spine2-nar Goh 12771210 nesg.org SPINE 2: a. . . Nucleic Acids Res X
mrp-pseudogenes Zhang 12706105 bioinfo.mbb.yale.edu/genome/pseudogene/ Identification and characterization. . . Genomics X
whatisgene Snyder 12690176 bioinfo.mbb.yale.edu/genome/yeast/orfome Genomics. Defining genes. . . Science X
revisit-cai Jansen 12682375 bioinfo.mbb.yale.edu/expression/codons Revisiting the codon. . . Nucleic Acids Res X
biclusters Kluger 12671006 bioinfo.mbb.yale.edu/genome/expression Spectral biclustering of. . . Genome Res X
strucgenomics-progress Gerstein 12637721 - Structural genomics: current. . . Science X
chr22-transcriptome-genesdev Rinn 12600945 array.mbb.yale.edu/chr22 The transcriptional activity. . . Genes Dev X
flypgenes Harrison 12560500 pseudogene.org Identification of pseudogenes. . . Nucleic Acids Res X
sg-orthologs Savchenko 12557182 - Strategies for structural. . . Proteins X
prot-ontology Lan 12547426 partslist.org/func Ontologies for proteomics:. . . Curr Opin Chem Biol X
molmovdb2 Echols 12520056 molmovdb.org MolMovDB: analysis and. . . Nucleic Acids Res X
vol-sensanal-bioinfo Tsai 12117797 bioinfo.mbb.yale.edu/geometry Calculations of protein. . . Bioinformatics X
transposon-loc Kumar 11914276 genecensus.org/localize Subcellular localization of. . . Genes Dev X
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