rdiaz's library 1017 articles Export

	Validation and extension of an empirical Bayes method for SNP calling on Affymetrix microarrays. [My Copy] Genome biology, Vol. 9, No. 4. (3 April 2008), R63. by Shin Lin, Benilton Carvalho, David J. Cutler, Dan E. Arking, Aravinda Chakravarti, Rafael A. Irizarry posted to snp calling bayesian affymetrix by rdiaz on 2009-10-23 14:19:08 as along with 5 people shikin daforerog maren natstreet jfr
	Detailing regulatory networks through large scale data integration [My Copy] Bioinformatics (13 October 2009), btp588. by Curtis Huttenhower, K. Tsheko Mutungu, Natasha Indik, et al.Woongcheol Yang, Mark Schroeder, Joshua J. Forman, Olga G. Troyanskaya, Hilary A. Coller posted to software network integration expression biclustering by rdiaz on 2009-10-15 18:37:28 as along with 4 people aaron_webber zufar ptrobajo frohike
	STARNET 2: a web-based tool for accelerating discovery of gene regulatory networks using microarray co-expression data. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 332. by Daniel Jupiter, Hailin Chen, Vincent VanBuren posted to visualization software network integration coexpression by rdiaz on 2009-10-15 18:34:42 as along with 5 people and 1 group sillitoe rcr1991 trogdor druvus torfinnnome Orengo Group Journal Picks
	Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome [My Copy] Science, Vol. 326, No. 5950. (9 October 2009), pp. 289-293. by Erez Lieberman-Aiden, Nynke L. van Berkum, Louise Williams, et al.Maxim Imakaev, Tobias Ragoczy, Agnes Telling, Ido Amit, Bryan R. Lajoie, Peter J. Sabo, Michael O. Dorschner, Richard Sandstrom, Bradley Bernstein, M. A. Bender, Mark Groudine, Andreas Gnirke, John Stamatoyannopoulos, Leonid A. Mirny, Eric S. Lander, Job Dekker posted to spatial organization genome chromosome chromosomal 3d by rdiaz on 2009-10-15 18:32:32 as along with 31 people and 3 groups pmcarlton alhufton psique qayub chvlyl TorstenWaldminghaus kintoki Garamonfok inesdesantiago NickFurnham DrRichardBadge roys daveGerrard colinveal frohike nrk891 zwang timflutre afenley kshameer polivares mgatmedsci diamantis flbarroso jdoconnell fenghezi daforerog bpcusack gjuggler gdb gbloeb JLab BergmanLab Journal picks
	Oncogene Mutations, Copy Number Gains and Mutant Allele Specific Imbalance (MASI) Frequently Occur Together in Tumor Cells [My Copy] PLoS ONE, Vol. 4, No. 10. (14 October 2009), e7464. by Junichi Soh, Naoki Okumura, William W. Lockwood, et al.Hiromasa Yamamoto, Hisayuki Shigematsu, Wei Zhang, Raj Chari, David S. Shames, Ximing Tang, Calum MacAulay, Marileila Varella-Garcia, Tõnu Vooder, Ignacio I. Wistuba, Stephen Lam, Rolf Brekken, Shinichi Toyooka, John D. Minna, Wan L. Lam, Adi F. Gazdar posted to tumor metastasis integration cnv by rdiaz on 2009-10-15 18:29:34 as
	Empirical Bayes Analysis of Quantitative Proteomics Experiments [My Copy] PLoS ONE, Vol. 4, No. 10. (14 October 2009), e7454. by Adam A. Margolin, Shao-En Ong, Monica Schenone, et al.Robert Gould, Stuart L. Schreiber, Steven A. Carr, Todd R. Golub posted to proteomics empirical bayesian bayes by rdiaz on 2009-10-15 18:27:45 as along with 3 people and 1 group dandaman brianb ppgardne Journal picks
	Importance of randomization in microarray experimental designs with Illumina platforms. [My Copy] Nucleic acids research, Vol. 37, No. 17. (1 September 2009), pp. 5610-5618. by Ricardo A. Verdugo, Christian F. Deschepper, Gloria Muñoz, Daniel Pomp, Gary A. Churchill posted to illumina experimental design by rdiaz on 2009-10-15 18:04:55 as along with 3 people and 2 groups davidalee yaredo Stew Orengo Group Journal Picks Bioinformatics - CRUK
	How to visually interpret biological data using networks [My Copy] Nature Biotechnology, Vol. 27, No. 10. (01 October 2009), pp. 921-924. by Daniele Merico, David Gfeller, Gary D. Bader posted to visualization teaching review network by rdiaz on 2009-10-15 18:03:37 as along with 13 people and 1 group Geknitics perkeo qayub mhamidi OliverHarriman AJCann grahamc megraw tmmurali fgibson gotgenes druvus dullhunk Journal picks
	Discovery of protein-DNA interactions by penalized multivariate regression. [My Copy] Nucleic acids research, Vol. 37, No. 16. (September 2009), pp. 5246-5254. by Leonid Zamdborg, Ping Ma posted to transcription_factors transcription regression penalization factor by rdiaz on 2009-10-15 17:56:32 as
	Integrated Analysis of Copy Number Alterations and Gene Expression: A Bivariate Assessment of Equally Directed Abnormalities [My Copy] Bioinformatics (14 October 2009), btp592. by Martin Schafer, Holger Schwender, Sylvia Merk, Claudia Haferlach, Katja Ickstadt, Martin Dugas posted to integration expression cnv cgh by rdiaz on 2009-10-15 16:56:24 as
	From disease association to risk assessment: an optimistic view from genome-wide association studies on type 1 diabetes. [My Copy] PLoS genetics, Vol. 5, No. 10. (9 October 2009), e1000678. by Zhi Wei, Kai Wang, Hui-Qi Q. Qu, et al.Haitao Zhang, Jonathan Bradfield, Cecilia Kim, Edward Frackleton, Cuiping Hou, Joseph T. Glessner, Rosetta Chiavacci, Charles Stanley, Dimitri Monos, Struan F. Grant, Constantin Polychronakos, Hakon Hakonarson posted to teaching performance gwas classification by rdiaz on 2009-10-09 17:58:15 as along with 2 people ptrobajo lp2
	Population-Wide Generalizability of Genome-Wide Discovered Associations [My Copy] J. Natl. Cancer Inst., Vol. 101, No. 19. (7 October 2009), pp. 1297-1299. by John P. A. Ioannidis posted to review population gwas critique by rdiaz on 2009-10-09 15:49:33 as along with 1 person merpublic
	Classifier Technology and the Illusion of Progress [My Copy] Statistical Science, Vol. 21, No. 1. (19 Jun 2006), pp. 1-14. by David J. Hand posted to teaching review prediction classification by rdiaz on 2009-10-09 13:15:34 as along with 2 people and 1 group arsyed mdreid Statistical Machine Learning
	A unified approach to false discovery rate estimation [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 303. by Korbinian Strimmer posted to teaching review fdr by rdiaz on 2009-10-09 13:08:42 as along with 12 people Zephyrus jlorent Gorzomagnificent daforerog bertelsen guhjy VGreiff dolchan barriot nuin joaocarrico shigepong
	fdrtool: a versatile R package for estimating local and tail area-based false discovery rates [My Copy] Bioinformatics, Vol. 24, No. 12. (15 June 2008), pp. 1461-1462. by Korbinian Strimmer posted to software fdr by rdiaz on 2009-10-09 13:07:56 as along with 4 people bertelsen isimpson guhjy APRegier
	The SNP ratio test: pathway analysis of genome-wide association datasets [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2762-2763. by Colm O'Dushlaine, Elaine Kenny, Elizabeth A. Heron, et al.Ricardo Segurado, Michael Gill, Derek W. Morris, Aiden Corvin posted to snp set pathway gwas gene by rdiaz on 2009-10-09 10:45:52 as along with 8 people shikin zufar liqbbi daforerog natstreet pkonings guhjy druvus
	Caleydo: connecting pathways and gene expression [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2760-2761. by Marc Streit, Alexander Lex, Michael Kalkusch, Kurt Zatloukal, Dieter Schmalstieg posted to visualization software pathway network gene expression by rdiaz on 2009-10-09 10:45:08 as along with 5 people and 1 group daforerog sebastien_vigneau guhjy dswan sjcockell Bioinformatics
	Methods for labeling error detection in microarrays based on the effect of data perturbation on the regression model [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2708-2714. by Chen Zhang, Chunguo Wu, Enrico Blanzieri, et al.You Zhou, Yan Wang, Wei Du, Yanchun Liang posted to sample mislabeled microarray incorrect expression by rdiaz on 2009-10-09 10:44:00 as along with 1 person guhjy
	Gene ranking and biomarker discovery under correlation [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2700-2707. by Verena Zuber, Korbinian Strimmer posted to t-test shrinkage ranking prediction microarray marker correlation classification biomarker by rdiaz on 2009-10-09 10:42:56 as along with 6 people pkonings ericrpaquet guhjy brianb nuin neils
	Moderated effect size and P-value combinations for microarray meta-analyses [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2692-2699. by Guillemette Marot, Jean-Louis Foulley, Claus-Dieter Mayer, Florence Jaffrezic posted to microarray meta-analysis expression by rdiaz on 2009-10-09 10:41:20 as along with 6 people zufar shikin dswan renatomilani nuin daforerog
	A modified LOESS normalization applied to microRNA arrays: a comparative evaluation [My Copy] Bioinformatics, Vol. 25, No. 20. (15 October 2009), pp. 2685-2691. by Davide Risso, Maria S. Massa, Monica Chiogna, Chiara Romualdi posted to normalization mirna by rdiaz on 2009-10-09 10:34:38 as along with 9 people and 1 group VR lwaldron heliopais dswan renatomilani nuin guhjy myzhang ealloza microRNA
	Multi-dimensional correlations for gene coexpression and application to the large-scale data of Arabidopsis. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 20. (15 October 2009), pp. 2677-2684. by Kengo Kinoshita, Takeshi Obayashi posted to correlation coexpression by rdiaz on 2009-10-09 10:33:50 as along with 3 people and 1 group daveGerrard kintoki natstreet BergmanLab
	Life After GWA Studies [My Copy] Science, Vol. 326, No. 5950. (9 October 2009), pp. 239-240. by Emmanouil T. Dermitzakis, Andrew G. Clark posted to teaching risk review prediction personalized medicine individualized gwas by rdiaz on 2009-10-09 10:25:21 as along with 1 person robfree
	Recurrent copy number alterations in BRCA1-mutated ovarian tumors alter biological pathways. [My Copy] Human mutation (2 October 2009) by Karin Leunen, Olivier Gevaert, Anneleen Daemen, et al.Vanessa Vanspauwen, Geneviève Michils, Bart De Moor, Philippe Moerman, Ignace Vergote, Eric Legius posted to recurrent method hmm example cnv acgh by rdiaz on 2009-10-09 10:06:13 as along with 1 person frohike
	Bayesian variable and model selection methods for genetic association studies. [My Copy] Genetic epidemiology, Vol. 33, No. 1. (10 January 2009), pp. 27-37. by Brooke L. Fridley posted to gwas bayesian by rdiaz on 2009-10-08 17:48:50 as along with 2 people lp2 guhjy
	A Bayesian toolkit for genetic association studies. [My Copy] Genetic epidemiology, Vol. 30, No. 3. (April 2006), pp. 231-247. by David J. Lunn, John C. Whittaker, Nicky Best posted to gwas bayesian by rdiaz on 2009-10-08 17:42:43 as along with 2 people tg150 guhjy
	Simultaneous Analysis of All SNPs in Genome-Wide and Re-Sequencing Association Studies [My Copy] PLoS Genet, Vol. 4, No. 7. (25 July 2008), e1000130. by Clive J. Hoggart, John C. Whittaker, Maria De Iorio, David J. Balding posted to gwas bayesian by rdiaz on 2009-10-08 17:29:00 as along with 10 people orzenil ajbattle kimorley akmanning daforerog shoshin djkt Stew guhjy Schmidtc
	Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls [My Copy] Nature, Vol. 447, No. 7145. (07 June 2007), pp. 661-678. posted to gwas bayesian by rdiaz on 2009-10-08 17:27:51 as along with 36 people and 3 groups ajbattle joseph_x_zhou psique zufar mattwa daforerog ilyashl ekostem cchurc1 gruberjd Hans45 lkolodziej xingxu raistrick guhjy jfr yas hpiwowar larios vplagnol jandot frohike qmwwallace joepickrell massivemayhem Garamonfok PredictER hms jo_davies caseybrown mcgannd raiyar ramensky wenhui balicea mfm11 Bioinformatics T_lab parkinson's disease references
	Putting DNA to the test [My Copy] Nature, Vol. 461, No. 7265. (07 October 2009), pp. 697-698. posted to review personalized medicine individualized genomics ethics by rdiaz on 2009-10-08 10:47:17 as along with 1 person chriswillmott
	Origins and functional impact of copy number variation in the human genome [My Copy] Nature, Vol. advance online publication (07 October 2009) by Donald F. Conrad, Dalila Pinto, Richard Redon, et al.Lars Feuk, Omer Gokcumen, Yujun Zhang, Jan Aerts, T. Daniel Andrews, Chris Barnes, Peter Campbell, Tomas Fitzgerald, Min Hu, Chun H. Ihm, Kati Kristiansson, Daniel G. MacArthur, Jeffrey R. MacDonald, Ifejinelo Onyiah, Andy W. Pang, Sam Robson, Kathy Stirrups, Armand Valsesia, Klaudia Walter, John Wei, Chris Tyler-Smith, Nigel P. Carter, Charles Lee, Stephen W. Scherer, Matthew E. Hurles posted to review disease cnv by rdiaz on 2009-10-08 10:46:25 as along with 20 people and 1 group Zephyrus gthorisson vplagnol biovils psique chvlyl daed daforerog zufar jessopher DrRichardBadge operon colinveal frohike sf11 sameersoi polivares dswan qayub bpcusack Journal picks
	Finding the missing heritability of complex diseases. [My Copy] Nature, Vol. 461, No. 7265. (8 October 2009), pp. 747-753. by Teri A. Manolio, Francis S. Collins, Nancy J. Cox, et al.David B. Goldstein, Lucia A. Hindorff, David J. Hunter, Mark I. McCarthy, Erin M. Ramos, Lon R. Cardon, Aravinda Chakravarti, Judy H. Cho, Alan E. Guttmacher, Augustine Kong, Leonid Kruglyak, Elaine Mardis, Charles N. Rotimi, Montgomery Slatkin, David Valle, Alice S. Whittemore, Michael Boehnke, Andrew G. Clark, Evan E. Eichler, Greg Gibson, Jonathan L. Haines, Trudy F. Mackay, Steven A. McCarroll, Peter M. Visscher posted to teaching review heritability gwas disease by rdiaz on 2009-10-08 10:44:49 as along with 16 people and 1 group virolog timflutre daveGerrard leemachado lp2 natstreet ns6 balajis jclau liqbbi josepe daforerog fenghezi carolep merpublic djkt Journal picks
	Human genetics: Sharp focus on the variable genome [My Copy] Nature, Vol. 461, No. 7265. (07 October 2009), pp. 735-736. by John A. L. Armour posted to variation teaching review cnv catalogue by rdiaz on 2009-10-08 10:43:04 as along with 4 people josepe bpcusack carolep merpublic
	An agenda for personalized medicine [My Copy] Nature, Vol. 461, No. 7265. (07 October 2009), pp. 724-726. by Pauline C. Ng, Sarah S. Murray, Samuel Levy, J. Craig Venter posted to teaching review personalized microarray medicine individualized gwas caveat by rdiaz on 2009-10-08 10:41:10 as along with 4 people operon merpublic brianb chriswillmott
	Human genetics: Hit or miss? : Nature News [My Copy] posted to teaching review gwas by rdiaz on 2009-10-08 10:39:14 as
	Rapid inexpensive genome-wide association using pooled whole blood. [My Copy] Genome research, Vol. 19, No. 11. (3 October 2009), pp. 2075-2080. by Jamie E. Craig, Alex W. Hewitt, Amy E. McMellon, et al.Anjali K. Henders, Lingjun Ma, Leanne Wallace, Shiwani Sharma, Kathryn P. Burdon, Peter M. Visscher, Grant W. Montgomery, Stuart Macgregor posted to method gwas design by rdiaz on 2009-10-07 11:08:14 as along with 5 people daforerog neils giovanni natstreet merpublic
	Coexpression network based on natural variation in human gene expression reveals gene interactions and functions [My Copy] Genome Research, Vol. 19, No. 11. (1 November 2009), pp. 1953-1962. by Renuka R. Nayak, Michael Kearns, Richard S. Spielman, Vivian G. Cheung posted to variation reconstruction network expression coexpression by rdiaz on 2009-10-07 11:01:51 as along with 9 people and 1 group antonkratz nsc129psu iskathy lp2 TRHvidsten megraw owhitney tmmurali natstreet Journal picks
	Why data-sharing policies matter. [My Copy] Proceedings of the National Academy of Sciences of the United States of America (18 September 2009) by Alan E. Guttmacher, Elizabeth G. Nabel, Francis S. Collins posted to software sharing patent free data copyright by rdiaz on 2009-10-07 10:35:27 as
	Survival prediction using gene expression data: A review and comparison [My Copy] Comput. Stat. Data Anal., Vol. 53, No. 5. (2009), pp. 1590-1603. by Wessel N. van Wieringen, David Kun, Regina Hampel, Anne L. Boulesteix posted to teaching survival review microarray cox by rdiaz on 2009-10-06 14:01:31 as along with 1 person Borelli
	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 network equation differential continuos boolean by rdiaz on 2009-10-02 16:04:40 as along with 5 people colinveal perkeo cmzmasek brianb peterhilbers
	The Coordinates of Truth [My Copy] Science, Vol. 326, No. 5949. (2 October 2009), pp. 53-54. by Gary J. Nabel posted to science philosophy epistemology by rdiaz on 2009-10-02 16:02:27 as along with 2 people kevinchannon flbarroso
	What Happened to Global Warming? Scientists Say Just Wait a Bit [My Copy] Science, Vol. 326, No. 5949. (2 October 2009), pp. 28-a-29. by Richard A. Kerr posted to climate change by rdiaz on 2009-10-02 15:56:41 as along with 1 person and 2 groups jago climate_change UNFCCC
	BayesCall: A model-based base-calling algorithm for high-throughput short-read sequencing [My Copy] Genome Research, Vol. 19, No. 10. (6 October 2009), pp. 1884-1895. by Wei-Chun Kao, Kristian Stevens, Yun S. Song posted to sequencing illumina bayesian by rdiaz on 2009-10-02 15:26:43 as along with 13 people and 2 groups heliopais dakelley lp2 megraw torfinnnome djkt n00c farhat druvus polivares stajich fpattyn jbhiatt BergmanLab Mycology
	Generalized singular value decomposition for comparative analysis of genome-scale expression data sets of two different organisms. [My Copy] Proc Natl Acad Sci U S A, Vol. 100, No. 6. (18 March 2003), pp. 3351-3356. by Orly Alter, Patrick O. Brown, David Botstein posted to svd matrix integration expression by rdiaz on 2009-10-01 16:25:10 as along with 3 people lptolik opheliav wnpx
	Array comparative genomic hybridization copy number profiling: a new tool for translational research in solid malignancies. [My Copy] Seminars in radiation oncology, Vol. 18, No. 2. (April 2008), pp. 98-104. by José Luis L. Costa, Gerrit Meijer, Bauke Ylstra, Carlos Caldas posted to translational classification cgh by rdiaz on 2009-10-01 15:26:23 as along with 1 person abhattac
	BAC array CGH distinguishes mutually exclusive alterations that define clinicogenetic subtypes of gliomas. [My Copy] International journal of cancer. Journal international du cancer, Vol. 122, No. 8. (15 April 2008), pp. 1778-1786. by Ahmed Idbaih, Yannick Marie, Carlo Lucchesi, et al.Gaëlle Pierron, Elodie Manié, Virginie Raynal, Véronique Mosseri, Khê Hoang-Xuan, Michèle Kujas, Isabel Brito, Karima Mokhtari, Marc Sanson, Emmanuel Barillot, Alain Aurias, Jean-Yves Y. Delattre, Olivier Delattre posted to example classification cgh by rdiaz on 2009-10-01 15:24:32 as along with 1 person kdpreter
	Array comparative genome hybridization for tumor classification and gene discovery in mouse models of malignant melanoma. [My Copy] Cancer research, Vol. 63, No. 17. (1 September 2003), pp. 5352-5356. by Rónán C. O'Hagan, Cameron W. Brennan, Andrew Strahs, et al.Xuegong Zhang, Karuppiah Kannan, Melissa Donovan, Craig Cauwels, Norman E. Sharpless, Wing Hung H. Wong, Lynda Chin posted to example classification cgh by rdiaz on 2009-10-01 15:21:50 as
	Microarrays, Empirical Bayes and the Two-Groups Model [My Copy] Statistical Science, Vol. 23 (2008), pp. 1-47. by B. Efron posted to testing multiple microarrays fdr empirical bayes by rdiaz on 2009-10-01 14:55:21 as along with 1 person abrentnall
	High-Dimensional Classification Using Features Annealed Independence Rules. [My Copy] Annals of statistics, Vol. 36, No. 6. (2008), pp. 2605-2637. by Jianqing Fan, Yingying Fan posted to variable selection rate prediction limit error classification by rdiaz on 2009-10-01 14:52:05 as
	MicroarrayDesigner: an online search tool and repository for near-optimal microarray experimental designs [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (22 September 2009), 304. by Ahmet Sacan, Nilgun Ferhatosmanoglu, Hakan Ferhatosmanoglu posted to microarray expression experimental design by rdiaz on 2009-10-01 11:13:49 as along with 4 people csgillespie Zephyrus daforerog nuin
	RCMAT: a regularized covariance matrix approach to testing gene sets [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 300. by Phillip Yates, Mark Reimers posted to set ontology go gene fdr by rdiaz on 2009-10-01 11:13:09 as along with 5 people and 1 group dipenps stajich heliopais barriot neils Mycology

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medical_informatics	1
mendelian	1
metagenome	1
metastasis	1
methods	1
microrna	1
mining	1
mislabeled	1
missing	1
mobby	1
module	1
natural	1
nci60	1
new	1
nework	1
non-parametric	1
odds	1
oligonucleotide	1
omics	1
oncotypedx	1
optimal	1
pair	1
pangenome	1
parallel	1
path	1
pca	1
pedigree	1
penncnv	1
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platform	1
plotting	1
policy	1
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professional	1
profile	1
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propagation	1
psychiatry	1
psychology	1
publication	1
p-values	1
pyne	1
python	1
quantitative	1
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rare	1
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rearrangements	1
reconstrucion	1
reconstructino	1
regularization	1
regulation	1
repeatability	1
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repeats	1
replicate	1
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resampling	1
research	1
sam	1
scale	1
segmentation	1
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sequence	1
shrinkage	1
signs	1
similarity	1
single-gene	1
smooth	1
society	1
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spatial	1
spatiotemporal	1
specificity	1
spectral	1
sperm	1
splicing	1
standards	1
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storage	1
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subject	1
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svd	1
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target	1
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threshold	1
thresholding	1
tiling	1
trait	1
transcription_factors	1
translational	1
truth	1
tumor	1
uncertainty	1
uncertainty_propagation	1
union	1
unit	1
validation	1
variance	1
wave	1
web-based	1
whistleblowing	1
window	1
xp	1

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