brianb's network [55 articles] Export

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	Deciphering the genetic landscape of cancer--from genes to pathways. [My Copy] Trends in genetics : TIG, Vol. 25, No. 10. (08 October 2009), pp. 455-462. by Neal G. Copeland, Nancy A. Jenkins posted to network mapping cancer by brianb on 2009-12-01 02:48:16 as along with 2 people torfinnnome nuin
	Pathway Projector: Web-Based Zoomable Pathway Browser Using KEGG Atlas and Google Maps API [My Copy] PLoS ONE, Vol. 4, No. 11. (11 November 2009), e7710. by Nobuaki Kono, Kazuharu Arakawa, Ryu Ogawa, et al.Nobuhiro Kido, Kazuki Oshita, Keita Ikegami, Satoshi Tamaki, Masaru Tomita posted to network mapping by brianb on 2009-11-12 18:11:31 as along with 3 people renatomilani thomaskelder neils
	STATs in cancer inflammation and immunity: a leading role for STAT3 [My Copy] Nature Reviews Cancer, Vol. 9, No. 11. (01 November 2009), pp. 798-809. by Hua Yu, Drew Pardoll, Richard Jove posted to review network cancer by brianb on 2009-10-23 17:05:01 as
	p53 \|[mdash]\| a Jack of all trades but master of none [My Copy] Nature Reviews Cancer, Vol. 9, No. 11. (24 September 2009), pp. 821-829. by Melissa R. Junttila, Gerard I. Evan posted to review network cancer by brianb on 2009-10-23 17:03:46 as along with 1 person renatomilani
	Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture [My Copy] Molecular Systems Biology, Vol. 5 (18 August 2009) by Raja Jothi, S. Balaji, Arthur Wuster, et al.Joshua A. Grochow, Jorg Gsponer, Teresa M. Przytycka, L. Aravind, Madan M. Babu posted to network modeling genomics by brianb on 2009-10-09 15:20:14 as along with 12 people ashishanand apocapoc dswan sjcockell zwang fenghezi rdiaz megraw poirel TRHvidsten jjray biomcgary
	Oncogenic Pathway Combinations Predict Clinical Prognosis in Gastric Cancer [My Copy] PLoS Genet, Vol. 5, No. 10. (2 October 2009), e1000676. by Chia H. Ooi, Tatiana Ivanova, Jeanie Wu, et al.Minghui Lee, Iain B. Tan, Jiong Tao, Lindsay Ward, Jun H. Koo, Veena Gopalakrishnan, Yansong Zhu, Lai L. Cheng, Julian Lee, Sun Y. Rha, Hyun C. Chung, Kumaresan Ganesan, Jimmy So, Khee C. Soo, Dennis Lim, Weng H. Chan, Wai K. Wong, David Bowtell, Khay G. Yeoh, Heike Grabsch, Alex Boussioutas, Patrick Tan posted to network gene expression diganostic cancer by brianb on 2009-10-07 15:40:18 as along with 3 people bertelsen renatomilani ptrobajo
	Fast and accurate alignment of multiple protein networks. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 8. (22 August 2009), pp. 989-999. by Maxim Kalaev, Vineet Bafna, Roded Sharan posted to proteomics network modeling by brianb on 2009-10-06 20:16:53 as along with 3 people Balou nuin chica
	Sensitive multiplexed analysis of kinase activities and activity-based kinase identification. [My Copy] Nature biotechnology, Vol. 27, No. 10. (04 October 2009), pp. 933-940. by Kazuishi Kubota, Rana Anjum, Yonghao Yu, et al.Ryan C. Kunz, Jannik N. Andersen, Manfred Kraus, Heike Keilhack, Kumiko Nagashima, Stefan Krauss, Cloud Paweletz, Ronald C. Hendrickson, Adam S. Feldman, Chin-Lee L. Wu, John Rush, Judit Villén, Steven P. Gygi posted to signaling proteomics phosphorylation network by brianb on 2009-10-06 20:02:00 as along with 3 people guhjy renatomilani ptrobajo
	Transforming Boolean models to continuous models: methodology and application to T-cell receptor signaling [My Copy] BMC Systems Biology, Vol. 3, No. 1. (28 September 2009), 98. by Dominik Wittmann, Jan Krumsiek, Julio S. Rodriguez, Douglas Lauffenburger, Steffen Klamt, Fabian Theis posted to sysbio signaling quantitation network modeling by brianb on 2009-10-02 19:09:14 as along with 5 people colinveal perkeo cmzmasek rdiaz peterhilbers
	RAS Mutations Affect Tumor Necrosis Factor-Induced Apoptosis in Colon Carcinoma Cells via ERK-Modulatory Negative and Positive Feedback Circuits Along with Non-ERK Pathway Effects. [My Copy] Cancer research (29 September 2009) by Pamela K. Kreeger, Roli Mandhana, Shannon K. Alford, Kevin M. Haigis, Douglas A. Lauffenburger posted to signaling network cancer by brianb on 2009-10-02 19:08:18 as
	Multi-pathway Kinase Signatures of Multipotent Stromal Cells are Predictive for Osteogenic Differentiation. [My Copy] Stem cells (Dayton, Ohio) (11 September 2009) by Manu O. Platt, Catera L. Wilder, Alan Wells, Linda G. Griffith, Douglas A. Lauffenburger posted to signaling network by brianb on 2009-09-16 03:31:53 as
	Molecular networks as sensors and drivers of common human diseases [My Copy] Nature, Vol. 461, No. 7261. (09 September 2009), pp. 218-223. by Eric E. Schadt posted to signaling proteomics network interaction genomics by brianb on 2009-09-14 17:58:14 as along with 15 people daed robfree apocapoc ptrobajo MurphysLab biomcgary greg inesdesantiago pablocarb abhishek_tiwari zufar pkonings rdiaz daforerog megraw
	A novel algorithm for detecting differentially regulated paths based on gene set enrichment analysis [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2787-2794. by Andreas Keller, Christina Backes, Andreas Gerasch, et al.Michael Kaufmann, Oliver Kohlbacher, Eckart Meese, Hans-Peter Lenhof posted to network modeling genomics bioinformatics algorithm by brianb on 2009-08-28 19:05:22 as along with 9 people and 1 group bertelsen jperkins tonamswish heliopais dolchan greg zufar rdiaz ptrobajo Orengo Group Journal Picks
	SubpathwayMiner: a software package for flexible identification of pathways. [My Copy] Nucleic acids research, Vol. 37, No. 19. (25 October 2009), gkp667. by Chunquan Li, Xia Li, Yingbo Miao, et al.Qianghu Wang, Wei Jiang, Chun Xu, Jing Li, Junwei Han, Fan Zhang, Binsheng Gong, Liangde Xu posted to network modeling bioinformatics algorithm by brianb on 2009-08-28 19:03:38 as along with 6 people and 1 group davidalee Vincent_Rouilly ptrobajo irenas renatomilani neils Orengo Group Journal Picks
	Network-assisted protein identification and data interpretation in shotgun proteomics [My Copy] Molecular Systems Biology, Vol. 5 (18 August 2009) by Jing Li, Lisa J. Zimmerman, Byung-Hoon Park, David L. Tabb, Daniel C. Liebler, Bing Zhang posted to proteomics network fdr by brianb on 2009-08-20 15:59:44 as along with 4 people ptrobajo reyez danmaclean biomcgary
	Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics. [My Copy] Cell, Vol. 138, No. 4. (21 August 2009), pp. 795-806. by Paola Picotti, Bernd Bodenmiller, Lukas N. Mueller, Bruno Domon, Ruedi Aebersold posted to proteomics network by brianb on 2009-08-17 02:07:49 as along with 2 people schwartzjmc absterga
	Integrating Proteomic, Transcriptional, and Interactome Data Reveals Hidden Components of Signaling and Regulatory Networks [My Copy] Sci. Signal., Vol. 2, No. 81. (28 July 2009), ra40. by Shao-shan C. Huang, Ernest Fraenkel posted to expression gene network proteomics signaling by brianb on 2009-07-31 20:36:48 as along with 2 people roys sjcockell
	Comparative Analysis Reveals Conserved Protein Phosphorylation Networks Implicated in Multiple Diseases [My Copy] Sci. Signal., Vol. 2, No. 81. (28 July 2009), ra39. by Chris S. Tan, Bernd Bodenmiller, Adrian Pasculescu, et al.Marko Jovanovic, Michael O. Hengartner, Claus Jorgensen, Gary D. Bader, Ruedi Aebersold, Tony Pawson, Rune Linding posted to disease network phosphorylation proteomics signaling by brianb on 2009-07-31 20:32:55 as along with 2 people arjun_citeulike renatomilani
	A survey of visualization tools for biological network analysis. [My Copy] Biodata mining, Vol. 1, No. 1. (28 November 2008), 12. by Georgios A. Pavlopoulos, Anna-Lynn L. Wegener, Reinhard Schneider posted to bioinformatics modeling network by brianb on 2009-07-25 18:45:53 as along with 13 people and 2 groups nolodie abhishek_tiwari eesruiz daforerog lptolik guhjy renatomilani hersh006 behindtherabbit dswan fgibson allysonlister sjcockell ImagCom - Biomedical Text Computing Complex Networks
	Multi-tissue coexpression networks reveal unexpected subnetworks associated with disease [My Copy] Genome Biology, Vol. 10, No. 5. (22 May 2009), R55. by Radu Dobrin, Jun Zhu, Cliona Molony, et al.Carmen Argman, Mark Parrish, Sonia Carlson, Mark Allan, Daniel Pomp, Eric Schadt posted to disease modeling network by brianb on 2009-05-26 17:56:12 as along with 6 people greg winterstream grahamc ptrobajo lp2 roys
	Application of laser microdissection and reverse-phase protein microarrays to the molecular profiling of cancer signal pathway networks in the tissue microenvironment. [My Copy] Clinics in laboratory medicine, Vol. 29, No. 1. (March 2009), pp. 1-13. by V. Espina, J. Wulfkuhle, L. A. Liotta posted to arrays lcm network proteomics signaling by brianb on 2009-04-26 22:03:05 as along with 1 person Zephyrus
	Pathway Biomarker Profiling of Localized and Metastatic Human Prostate Cancer Reveal Metastatic and Prognostic Signatures† [My Copy] Journal of Proteome Research, Vol. 0, No. 0. (0000) by Robert L. Grubb, Jianghong Deng, Peter A. Pinto, et al.James L. Mohler, Arul Chinnaiyan, Mark Rubin, Marston W. Linehan, Lance A. Liotta, Emanuel F. Petricoin, Julia D. Wulfkuhle posted to arrays network proteomics by brianb on 2009-04-26 22:00:23 as
	Integrating pathway data for systems pathology. [My Copy] In silico biology, Vol. 7, No. 2 Suppl. (2007) by E. Wingender, J. Hogan, F. Schacherer, A. P. Potapov, O. Kel-Margoulis posted to network pathology proteomics by brianb on 2009-04-20 16:35:51 as along with 1 person guhjy
	Fuzzy Logic Analysis of Kinase Pathway Crosstalk in TNF/EGF/Insulin-Induced Signaling [My Copy] PLoS Comput Biol, Vol. 5, No. 4. (3 April 2009), e1000340. by Bree B. Aldridge, Julio Saez-Rodriguez, Jeremy L. Muhlich, Peter K. Sorger, Douglas A. Lauffenburger posted to bioinformatics modeling network proteomics by brianb on 2009-04-06 18:11:23 as along with 4 people ptrobajo abhishek_tiwari renatomilani agonzale
	A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 52. (30 December 2008), pp. 20870-20875. by Kasper Lage, Niclas T. Hansen, Olof E. Karlberg, et al.Aron C. Eklund, Francisco S. Roque, Patricia K. Donahoe, Zoltan Szallasi, Thomas S. Jensen, Søren Brunak posted to pathology expression gene network tissue by brianb on 2009-03-27 15:07:02 as along with 4 people grahamc bertelsen nedwards jfr
	KEGGgraph: a graph approach to KEGG PATHWAY in R and Bioconductor. [My Copy] Bioinformatics (Oxford, England) (23 March 2009) by Jitao David D. Zhang, Stefan Wiemann posted to bioinformatics network by brianb on 2009-03-26 18:07:42 as along with 2 people svenrahmann neils
	Integrating siRNA and protein-protein interaction data to identify an expanded insulin signaling network. [My Copy] Genome research, Vol. 19, No. 6. (4 June 2009), pp. 1057-1067. by Zhidong Tu, Carmen Argmann, Kenny K. Wong, et al.Lyndon J. Mitnaul, Stephen Edwards, Iliana C. Sach, Jun Zhu, Eric E. Schadt posted to interaction network proteomics rnai signaling by brianb on 2009-03-13 17:29:55 as along with 4 people ptrobajo megraw kshameer roys
	Learning signaling network structures with sparsely distributed data. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 2. (February 2009), pp. 201-212. by K. Sachs, S. Itani, J. Carlisle, G. P. Nolan, D. Pe'er, D. A. Lauffenburger posted to network signaling by brianb on 2009-02-08 20:08:33 as along with 3 people carlk mstumpf frohike
	Pathway-based biomarker search by high-throughput proteomics profiling of secretomes. [My Copy] Journal of proteome research, Vol. 8, No. 3. (March 2009), pp. 1489-1503. by Kevin Lawlor, Arpi Nazarian, Lynne Lacomis, Paul Tempst, Josep Villanueva posted to mapping network proteomics by brianb on 2009-02-07 17:38:20 as along with 4 people guhjy xingxu nedwards neils
	Dynamic modularity in protein interaction networks predicts breast cancer outcome. [My Copy] Nature biotechnology, Vol. 27, No. 2. (1 February 2009), pp. 199-204. by Ian W. Taylor, Rune Linding, David Warde-Farley, et al.Yongmei Liu, Catia Pesquita, Daniel Faria, Shelley Bull, Tony Pawson, Quaid Morris, Jeffrey L. Wrana posted to diganostic disease interaction network proteomics by brianb on 2009-02-04 22:37:19 as along with 14 people and 1 group ukhan zufar guhjy jfr frohike fenghezi ptrobajo jaimie nedwards dakelley absterga phoenixzxl grahamc provero cube_and_beyond
	A network biology approach to aging in yeast [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 4. (27 January 2009), pp. 1145-1150. by David R. Lorenz, Charles R. Cantor, James J. Collins posted to modeling network by brianb on 2009-02-04 22:35:23 as along with 4 people TRHvidsten cactus rdiaz bcondon
	HDAC3: taking the SMRT-N-CoRrect road to repression. [My Copy] Oncogene, Vol. 26, No. 37. (13 August 2007), pp. 5439-5449. by P. Karagianni, J. Wong posted to cancer network signaling by brianb on 2009-01-29 15:46:55 as
	Input-output behavior of ErbB signaling pathways as revealed by a mass action model trained against dynamic data [My Copy] Mol Syst Biol, Vol. 5 (20 January 2009) by William W. Chen, Birgit Schoeberl, Paul J. Jasper, et al.Mario Niepel, Ulrik B. Nielsen, Douglas A. Lauffenburger, Peter K. Sorger posted to modeling network proteomics signaling by brianb on 2009-01-21 17:27:22 as along with 5 people mhellmann agomez agonzale cjryan stringertheory
	An integrated workflow for charting the human interaction proteome: insights into the PP2A system [My Copy] Mol Syst Biol, Vol. 5 (20 January 2009) by Timo Glatter, Alexander Wepf, Ruedi Aebersold, Matthias Gstaiger posted to interaction modeling network proteomics by brianb on 2009-01-21 17:26:03 as along with 2 people phoenixzxl guhjy
	Dynamic map of protein interactions in the Escherichia coli chemotaxis pathway [My Copy] Mol Syst Biol, Vol. 5 (20 January 2009) by David Kentner, Victor Sourjik posted to interaction modeling network proteomics signaling by brianb on 2009-01-21 17:25:08 as along with 1 person jjray
	How to deal with large models[quest] [My Copy] Mol Syst Biol, Vol. 5 (20 January 2009) by William S. Hlavacek posted to modeling network proteomics signaling by brianb on 2009-01-21 17:23:20 as along with 3 people and 1 group sobolevnrm lptolik agonzale baker-group
	Computational verification of protein-protein interactions by orthologous co-expression. [My Copy] BMC Bioinformatics, Vol. 6, No. 1. (2005) by I. Tirosh, N. Barkai posted to bioinformatics interaction network proteomics by brianb on 2008-11-24 21:09:04 as along with 4 people and 2 groups nedwards marcius conkymacro bluto BioinfoCIPF SGU-CIPF
	Quantitative modeling perspectives on the ErbB system of cell regulatory processes. [My Copy] Experimental cell research, Vol. 315, No. 4. (15 February 2009), pp. 717-725. by Matthew J. Lazzara, Douglas A. Lauffenburger posted to cancer diganostic interaction network proteomics by brianb on 2008-11-23 16:35:25 as along with 1 person guhjy
	Protein networks markedly improve prediction of subcellular localization in multiple eukaryotic species [My Copy] Nucl. Acids Res. (4 October 2008), gkn619. by Kiyoung Lee, Han-Yu Chuang, Andreas Beyer, et al.Min-Kyung Sung, Won-Ki Huh, Bonghee Lee, Trey Ideker posted to localization modeling network proteomics by brianb on 2008-11-13 14:36:02 as along with 6 people tienholin carlk neils grahamc giovenko ptrobajo
	Data-driven modelling of signal-transduction networks [My Copy] Nature Reviews Molecular Cell Biology, Vol. 7, No. 11., pp. 820-828. by Kevin A. Janes, Michael B. Yaffe posted to modeling network signaling by brianb on 2008-10-20 18:20:20 as along with 8 people and 2 groups windman83 babakap cryptochrome guhjy cdppublications winterschlaefer cdpwebadmin shikin CDP GeneGo
	Modelling and analysis of gene regulatory networks [My Copy] Nat Rev Mol Cell Biol, Vol. 9, No. 10. (October 2008), pp. 770-780. by Guy Karlebach, Ron Shamir posted to gene modeling network by brianb on 2008-09-30 21:06:53 as along with 14 people antonkratz agonzale cannin tklee aviad_work kaarsinogen thomaskelder fgibson druvus balicea nedwards dakelley guhjy tmmurali
	Identification of pathways for atherosclerosis in mice: integration of quantitative trait locus analysis and global gene expression data. [My Copy] Circulation research, Vol. 101, No. 3. (3 August 2007) by Susanna S. Wang, Eric E. Schadt, Hui Wang, et al.Xuping Wang, Leslie Ingram-Drake, Weibin Shi, Thomas A. Drake, Aldons J. Lusis posted to expression gene network by brianb on 2008-09-16 21:23:03 as along with 1 person ajbattle
	Variations in DNA elucidate molecular networks that cause disease. [My Copy] Nature, Vol. 452, No. 7186. (27 March 2008), pp. 429-435. by Yanqing Chen, Jun Zhu, Pek Yee Y. Lum, et al.Xia Yang, Shirly Pinto, Douglas J. MacNeil, Chunsheng Zhang, John Lamb, Stephen Edwards, Solveig K. Sieberts, Amy Leonardson, Lawrence W. Castellini, Susanna Wang, Marie-France F. Champy, Bin Zhang, Valur Emilsson, Sudheer Doss, Anatole Ghazalpour, Steve Horvath, Thomas A. Drake, Aldons J. Lusis, Eric E. Schadt posted to gene modeling network by brianb on 2008-09-16 21:22:02 as along with 22 people and 2 groups mnishimu Zephyrus biomcgary daforerog roys druvus nicklynch semrich jbsaltz djkt raiyar lp2 jo_davies shikin caseybrown ptrobajo guhjy echinotrix natstreet sanchezbuelna jfr chrisamiller 4th_floor_JC GeneGo
	Systems biology: On the cell cycle and its switches [My Copy] Nature, Vol. 454, No. 7202. (16 July 2008), pp. 288-289. by Silvia D. M. Santos, James E. Ferrell posted to modeling network sysbio by brianb on 2008-08-08 14:58:53 as along with 2 people reyez cabbagesofdoom
	Deducing topology of protein-protein interaction networks from experimentally measured sub-networks [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Ling Yang, Thomas Vondriska, Zhangang Han, Robb Maclellan, James Weiss, Zhilin Qu posted to interaction modeling network proteomics by brianb on 2008-07-04 21:01:16 as along with 6 people sergiun cerca satre dolchan renatomilani neils
	Assessing the limits of genomic data integration for predicting protein networks [My Copy] Genome Research, Vol. 15, No. 7. (July 2005), pp. 945-953. by Long J. Lu, Yu Xia, Alberto Paccanaro, Haiyuan Yu, Mark Gerstein posted to bioinformatics genomics modeling network by brianb on 2008-06-05 05:08:41 as along with 17 people and 3 groups ashishanand paccanarolab jaimie aelef okarsligil lfriedl balajis maryee opheliav wnpx mbeautru eukfn grahamc nedwards iris_2001 carlk phoenixzxl Paccanaro Lab kdl Bioinformatics
	Protein networks in disease. [My Copy] Genome research, Vol. 18, No. 4. (1 April 2008), pp. 644-652. by Trey Ideker, Roded Sharan posted to bioinformatics modeling network proteomics by brianb on 2008-06-05 05:07:23 as along with 27 people shikin carlk isimpson chica saket zufar kaarsinogen giovenko guhjy balicea tmmurali Borelli jwdietrich frohike bootsy nedwards roys mclarenv phoenixzxl schuylrp jfr paolomarcatili gracio thomaskelder ptrobajo raiyar zwang
	NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways [My Copy] Nucl. Acids Res. (4 June 2008), gkn336. by Sylvain Brohee, Karoline Faust, Gipsi Lima-Mendez, et al.Olivier Sand, Rekin's Janky, Gilles Vanderstocken, Yves Deville, Jacques van Helden posted to bioinformatics modeling network proteomics by brianb on 2008-06-05 04:57:45 as along with 2 people neils balicea
	Probabilistic assembly of human protein interaction networks from label-free quantitative proteomics. [My Copy] Proc Natl Acad Sci U S A (24 January 2008) by Mihaela E E. Sardiu, Yong Cai, Jingji Jin, et al.Selene K K. Swanson, Ronald C C. Conaway, Joan W W. Conaway, Laurence Florens, Michael P P. Washburn posted to bioinformatics interaction modeling network proteomics by brianb on 2008-05-30 04:40:18 as along with 2 people guhjy renatomilani
	Statistics of cellular signal transduction as a race to the nucleus by multiple random walkers in compartment/phosphorylation space [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 45. (7 November 2006), pp. 16752-16757. by Ting Lu, Tongye Shen, Chenghang Zong, Jeff Hasty, Peter G. Wolynes posted to modeling network phosphorylation proteomics signaling by brianb on 2008-05-28 15:10:39 as along with 1 person neils

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proteomics	668
quantitation	143
electrophoresis	142
bioinformatics	137
interaction	78
disease	73
cancer	70
diganostic	60
chromatography	59
phosphorylation	55
network	55
fdr	43
expression	42
modeling	41
gene	40
formaldehyde	37
tissue	36
genomics	34
statistics	33
ptm	33
pathology	32
signaling	31
fragmentation	31
plasma	22
antibody	22
arrays	21
review	20
fluid	19
sample_prep	19
topdown	16
repository	16
algorithm	15
bias	15
lcm	15
silac	13
mapping	10
sysbio	10
isoform	9
xlink	9
sle	8
itraq	8
dige	7
localization	7
diabetes	5
prokaryote	5
ionization	4
imaging	4
time-course	4
annotation	4
rnai	3
csc	3
ar	3
metabolomics	3
glycosylation	3
food	3
standard	3
apoptosis	3
structure	3
population	3
hdx	3
noise	2
mrm	2
chip	2
autophagy	2
metrics	2
splicing	2
snp	2
subtilis	2
y2h	1
mirna	1
immunology	1
spr	1
db	1
toxicity	1
faims	1
fret	1
antimicrobial	1
matlab	1
opinion	1
circulating	1

brianb's network [55 articles] Export

brianb's tags