21.4 Cell, DNA, Analysis and Extraction, Microarray

Mullaney, P.F., Achatz, M., Seger, G., Heinze, W., Sinsel, F., Weiss, B., Mann, R.,
Models for low resolution slit scan measurements based on high resolution laser scanning image analysis: DNA and nuclear dimensions,
PR(13), No. 1, 1981, pp. 49-55.
Elsevier DOI 0309
BibRef

Klevecz, R.R.[Robert R.], Eccles, B.A.[Beverly A.],
Method and apparatus for automatic digital image analysis,
US_Patent4,724,543, Feb 9, 1988
WWW Link. BibRef 8802

Chiu, D.K.Y.[David K. Y.], Harauz, G.[George],
A method for inferring probabilistic consensus structure with applications to molecular sequence data,
PR(26), No. 4, April 1993, pp. 643-654.
Elsevier DOI 0401
RNA analysis. BibRef

Chiu, D.K.Y.,
A consensus structure inference algorithm,
CVPR91(755-756).
IEEE DOI 0403
BibRef

Liew, A.W.C.[Alan Wee-Chung], Yan, H.[Hong], Yang, M.[Mengsu],
Robust adaptive spot segmentation of DNA microarray images,
PR(36), No. 5, May 2003, pp. 1251-1254.
Elsevier DOI 0301
BibRef

Spirov, A.V.[Alexander V.], Kazansky, A.B.[Alexander B.], Timakin, D.L.[Dmitry L.], Reinitz, J.[John],
Reconstruction of the Dynamics of Drosophila Genes Expression from Sets of Images Sharing a Common Pattern,
RealTimeImg(8), No. 6, December 2002, pp. 507-518.
DOI Link 0304
BibRef

Kagalwala, F., Kanade, T.,
Reconstructing specimens using DIC microscope images,
SMC-B(33), No. 5, October 2003, pp. 728-737.
IEEE Abstract. 0310
BibRef
Earlier:
Simulating DIC Microscope Images: From Physical Principles to a Computational Model,
PMCVG99(xx-yy). BibRef

Aracena, J., Lamine, S.B., Mermet, M.A., Cohen, O., Demongeot, J.,
Mathematical modeling in genetic networks: relationships between the genetic expression and both chromosomic breakage and positive circuits,
SMC-B(33), No. 5, October 2003, pp. 825-834.
IEEE Abstract. 0310
BibRef

Brändle, N.[Norbert], Bischof, H.[Horst], Lapp, H.[Hilmar],
Robust DNA microarray image analysis,
MVA(15), No. 1, October 2003, pp. 11-28.
Springer DOI 0310
BibRef
Earlier: A1, A3, A2:
Automatic Grid Fitting for Genetic Spot Array Images Containing Guide Spots,
CAIP99(357-366).
Springer DOI 9909
BibRef

Bajcsy, P.,
Gridline: Automatic Grid Alignment in DNA Microarray Scans,
IP(13), No. 1, January 2004, pp. 15-25.
IEEE DOI 0402
BibRef

David, A.[Amit], Lerner, B.[Boaz],
Support vector machine-based image classification for genetic syndrome diagnosis,
PRL(26), No. 8, June 2005, pp. 1029-1038.
Elsevier DOI 0506
BibRef
Earlier:
Signal discrimination using a support vector machine for genetic syndrome diagnosis,
ICPR04(III: 490-493).
IEEE DOI 0409
BibRef

Blekas, K., Galatsanos, N.P., Likas, A., Lagaris, I.E.,
Mixture model analysis of DNA microarray images,
MedImg(24), No. 7, July 2005, pp. 901-909.
IEEE DOI 0508
BibRef

Marias, K., Ripoll, J., Meyer, H., Ntziachristos, V., Orphanoudakis, S.,
Image analysis for assessing molecular activity changes in time-dependent geometries,
MedImg(24), No. 7, July 2005, pp. 894-900.
IEEE DOI 0508
BibRef

Volkovich, Z., Kirzhner, V., Bolshoy, A., Nevo, E., Korol, A.,
The method of N-grams in large-scale clustering of DNA texts,
PR(38), No. 11, November 2005, pp. 1902-1912.
Elsevier DOI 0509
BibRef

Dougherty, E.R.[Edward R.],
The fundamental role of pattern recognition for gene-expression/microarray data in bioinformatics,
PR(38), No. 12, December 2005, pp. 2226-2228.
Elsevier DOI 0510
BibRef

Wang, H.Q.[Hong-Qiang], Huang, D.S.[De-Shuang],
Regulation probability method for gene selection,
PRL(27), No. 2, 15 January 2006, pp. 116-122.
Elsevier DOI 0512
BibRef

Jacob, M., Blu, T., Vaillant, C., Maddocks, J.H., Unser, M.,
3-D Shape Estimation of DNA Molecules From Stereo Cryo-Electron Micro-Graphs Using a Projection-Steerable Snake,
IP(15), No. 1, January 2006, pp. 214-227.
IEEE DOI 0601
BibRef

Jacob, M., Blu, T., Unser, M.,
Shape estimation of 3-D DNA molecules from stereo cryo-electron micro-graphs,
ICIP04(III: 1883-1886).
IEEE DOI 0505
BibRef

Samavi, S., Shirani, S., Karimi, N.,
Real-Time Processing and Compression of DNA Microarray Images,
IP(15), No. 3, March 2006, pp. 754-766.
IEEE DOI 0604
BibRef

Jiao, S.H.[Shu-Hong], Goutte, R.[Robert],
Genetic coding of image on synthetic peptides,
IJIST(15), No. 3, 2005, pp. 168-171.
DOI Link 0510
BibRef

Adjeroh, D.A.[Donald A.], Zhang, Y.[Yong], Parthe, R.[Rahul],
On denoising and compression of DNA microarray images,
PR(39), No. 12, December 2006, pp. 2478-2493.
Elsevier DOI 0609
DNA microarrays; Microarray gene clustering; Image context modeling BibRef

Wu, X.T.[Xin-Tao], Ye, Y.[Yong],
Exploring gene causal interactions using an enhanced constraint-based method,
PR(39), No. 12, December 2006, pp. 2439-2449.
Elsevier DOI 0609
Causal modeling; Microarray; Interaction analysis BibRef

Mamitsuka, H.[Hiroshi],
Selecting features in microarray classification using ROC curves,
PR(39), No. 12, December 2006, pp. 2393-2404.
Elsevier DOI 0609
Feature subset selection; cDNA microarray; ROC; Non-parametric hypothesis testing; Binary classification BibRef

Rovetta, S.[Stefano], Masulli, F.[Francesco],
Shared farthest neighbor approach to clustering of high dimensionality, low cardinality data,
PR(39), No. 12, December 2006, pp. 2415-2425.
Elsevier DOI 0609
Data clustering; Similarity-based clustering; High-dimensional data analysis; DNA microarray data analysis BibRef

Zahid, M.A.H., Mittal, A.[Ankush], Joshi, R.C.,
A pattern recognition-based approach for phylogenetic network construction with constrained recombination,
PR(39), No. 12, December 2006, pp. 2312-2322.
Elsevier DOI 0609
Evolutionary relationship; Phylogenetic network; Recombination; SNP; Gall trees; Pattern recognition BibRef

Ruiz, R.[Roberto], Riquelme, J.C.[José C.], Aguilar-Ruiz, J.S.[Jesús S.],
Incremental wrapper-based gene selection from microarray data for cancer classification,
PR(39), No. 12, December 2006, pp. 2383-2392.
Elsevier DOI 0609
Microarray; Gene selection; Classification; Feature selection BibRef

Ceccarelli, M.[Michele], Antoniol, G.[Giuliano],
A Deformable Grid-Matching Approach for Microarray Images,
IP(15), No. 10, October 2006, pp. 3178-3188.
IEEE DOI 0609
BibRef

Antoniol, G.[Giuliano], Ceccarelli, M.[Michele],
Microarray image gridding with stochastic search based approaches,
IVC(25), No. 2, February 2007, pp. 155-163.
Elsevier DOI 0701
Markov random fields; Gridding; Genetic algorithm; Microarray BibRef

Novikov, E.[Eugene], Barillot, E.[Emmanuel],
A noise-resistant algorithm for grid finding in microarray image analysis,
MVA(17), No. 5, October 2006, pp. 337-345.
Springer DOI 0609
BibRef

Niijima, S.[Satoshi], Kuhara, S.[Satoru],
Gene subset selection in kernel-induced feature space,
PRL(27), No. 16, December 2006, pp. 1884-1892.
Elsevier DOI 0611
Keywords: Microarray; Gene selection; Cancer classification; Kernel methods BibRef

Lee, A.J.T.[Anthony J.T.], Lin, C.W.[Chao-Wen], Lo, W.H.[Wen-Hsing], Chen, C.C.[Chieh-Chun], Chen, J.X.[Jia-Xin],
A novel filtration method in biological sequence databases,
PRL(28), No. 4, 1 March 2007, pp. 447-458.
Elsevier DOI 0701
Bioinformatics; Sequence comparison; Filtration method BibRef

Lukac, R.[Rastislav], Plataniotis, K.N.[Konstantinos N.],
cDNA microarray image segmentation using root signals,
IJIST(16), No. 2, 2006, pp. 51-64.
DOI Link 0703
BibRef
Earlier:
Vector Median Root Signals Determination for cDNA Microarray Image Segmentation,
ICIAR05(879-885).
Springer DOI 0509
BibRef

Lukac, R.[Rastislav], Plataniotis, K.N.[Konstantinos N.], Smolka, B.[Bogdan], Venetsanopoulos, A.N.[Anastasios N.],
An Automated Multichannel Procedure for cDNA Microarray Image Processing,
ICIAR04(II: 1-8).
Springer DOI 0409
BibRef

Bello, M.[Musodiq], Ju, T.[Tao], Carson, J.[James], Warren, J.[Joe], Chiu, W.[Wah], Kakadiaris, I.A.[Ioannis A.],
Learning-Based Segmentation Framework for Tissue Images Containing Gene Expression Data,
MedImg(26), No. 5, May 2007, pp. 728-744.
IEEE DOI 0705
BibRef

Ray, S.S., Bandyopadhyay, S., Pal, S.K.,
Dynamic Range-Based Distance Measure for Microarray Expressions and a Fast Gene-Ordering Algorithm,
SMC-B(37), No. 3, June 2007, pp. 742-749.
IEEE DOI 0706
BibRef

Li, J.[Jie], Tang, X.L.[Xiang-Long], Zhao, W.[Wei], Huang, J.H.[Jian-Hua],
A new framework for identifying differentially expressed genes,
PR(40), No. 11, November 2007, pp. 3249-3262.
Elsevier DOI 0707
Microarray data; t-Test; Wilcoxon rank sum test; KS-test; Differentially expressed genes; "Outlier" gene; Regression model; Window of confidence level BibRef

Zhu, Z.X.[Ze-Xuan], Ong, Y.S.[Yew-Soon], Dash, M.[Manoranjan],
Markov blanket-embedded genetic algorithm for gene selection,
PR(40), No. 11, November 2007, pp. 3236-3248.
Elsevier DOI 0707
Microarray; Feature selection; Markov blanket; Genetic algorithm (GA); Memetic algorithm (MA) BibRef

Napoletani, D., Struppa, D.C., Sauer, T., Morozov, V., Vsevolodov, N., Bailey, C.,
Functional dissipation microarrays for classification,
PR(40), No. 12, December 2007, pp. 3393-3400.
Elsevier DOI 0709
Features enhancement; Matching pursuit; Classification; Non-linear iterative maps; Wavelet transforms BibRef

Ridgway, G.R., Godsill, S.J.,
Bayesian Image Modeling of cDNA Microarray Spots,
SPLetters(14), No. 10, October 2007, pp. 653-656.
IEEE DOI 0711
BibRef

Hoogeboom, H., Kosters, W., Laros, J.,
Selection of DNA Markers,
SMC-C(38), No. 1, January 2008, pp. 26-32.
IEEE DOI 0712
BibRef

Morris, D.,
Blind Microarray Gridding: A New Framework,
SMC-C(38), No. 1, January 2008, pp. 33-41.
IEEE DOI 0712
BibRef

Li, J., Tang, X., Liu, J., Huang, J., Wang, Y.,
A novel approach to feature extraction from classification models based on information gene pairs,
PR(41), No. 6, June 2008, pp. 1975-1984.
Elsevier DOI 0802
Feature extraction; Information gene pair; Microarray data; Cancer classification; Genetic algorithm BibRef

Cho, H., Lee, J.K.,
Error-Pooling Empirical Bayes Model for Enhanced Statistical Discovery of Differential Expression in Microarray Data,
SMC-A(38), No. 2, March 2008, pp. 425-436.
IEEE DOI 0803
BibRef

Nilsson, B.[Bjorn],
A compression algorithm for pre-simulated Monte Carlo p-value functions: Application to the ontological analysis of microarray studies,
PRL(29), No. 6, 15 April 2008, pp. 768-772.
Elsevier DOI 0803
Biomedical pattern recognition; Bioinformatics; Microarrays; Ontological analysis; Data compression BibRef

Liu, E.T.,
Gene Array Technologies in Biological Investigations,
PIEEE(93), No. 4, April 2005, pp. 737-749.
IEEE DOI 0504
BibRef

Calhoun, V.D.[Vince D.],
Does the Brain Rest?: An Independent Component Analysis of Temporally Coherent Brain Networks at Rest and During a Cognitive Task,
Southwest08(201-204).
IEEE DOI 0803
BibRef

Zacharia, E., Maroulis, D.,
An Original Genetic Approach to the Fully Automatic Gridding of Microarray Images,
MedImg(27), No. 6, June 2008, pp. 805-813.
IEEE DOI 0711
BibRef

Ho, J.[Jinn], Hwang, W.L.[Wen-Liang], Lu, H.H.S., Lee, D.T.,
Gridding Spot Centers of Smoothly Distorted Microarray Images,
IP(15), No. 2, February 2006, pp. 342-353.
IEEE DOI 0602
BibRef

Ho, J.[Jinn], Hwang, W.L.[Wen-Liang],
Automatic Microarray Spot Segmentation Using a Snake-Fisher Model,
MedImg(27), No. 6, June 2008, pp. 847-857.
IEEE DOI 0711
BibRef
Earlier:
Segmenting Microarray Image Spots using an Active Contour Approach,
ICIP07(VI: 273-276).
IEEE DOI 0709
BibRef

Meyer, M.G.[Michael G.], Fauver, M.[Mark], Rahn, J.R.[J. Richard], Neumann, T.[Thomas], Patten, F.W.[Florence W.], Seibel, E.J.[Eric J.], Nelson, A.C.[Alan C.],
Automated cell analysis in 2D and 3D: A comparative study,
PR(42), No. 1, January 2009, pp. 141-146.
Elsevier DOI 0809
Automated classification; 3D; Cancer diagnosis; Tomography BibRef

Hua, J.P.[Jian-Ping], Tembe, W.D.[Waibhav D.], Dougherty, E.R.[Edward R.],
Performance of feature-selection methods in the classification of high-dimension data,
PR(42), No. 3, March 2009, pp. 409-424.
Elsevier DOI 0811
Classification; Feature selection; Microarray BibRef

Yin, Z.[Zheng], Zhou, X.B.[Xiao-Bo], Sun, Y.X.[You-Xian], Wong, S.T.C.[Stephen T.C.],
Online phenotype discovery based on minimum classification error model,
PR(42), No. 4, April 2009, pp. 509-522.
Elsevier DOI 0812
Online phenotype discovery; Minimum classification error; RNA interference; High content screen; Gap statistics BibRef

Pham, T.D.[Tuan D.], Beck, D.[Dominik], Brandl, M.[Miriam], Zhou, X.B.[Xiao-Bo],
Classification of Proteomic Signals by Block Kriging Error Matching,
ICISP08(281-288).
Springer DOI 0807
BibRef

Neves, A.J.R.[António J.R.], Pinho, A.J.[Armando J.],
Lossless Compression of Microarray Images Using Image-Dependent Finite-Context Models,
MedImg(28), No. 2, February 2009, pp. 194-201.
IEEE DOI 0902
BibRef
Earlier:
Lossless Compression of Microarray Images,
ICIP06(2505-2508).
IEEE DOI 0610

See also Lossy-to-Lossless Compression of Images Based on Binary Tree Decomposition. BibRef

Pinho, A.J.[Armando J.], Ferreira, P.J.S.G.[Paulo J.S.G.],
Image similarity using the normalized compression distance based on finite context models,
ICIP11(1993-1996).
IEEE DOI 1201
BibRef

Ju, W.[Wen], Shan, J.[Juan], Yan, C.H.[Chang-Hui], Cheng, H.D.,
Discrimination of disease-related non-synonymous single nucleotide polymorphisms using multi-scale RBF kernel fuzzy support vector machine,
PRL(30), No. 4, 1 March 2009, pp. 391-396.
Elsevier DOI 0903
Multi-scale RBF kernel; Membership function; Fuzzy support vector machine (FSVM); Non-synonymous single nucleotide polymorphisms (nsSNPs) BibRef

Namati, E., Thiesse, J., de Ryk, J., McLennan, G.,
In vivo assessment of alveolar morphology using a flexible catheter-based confocal microscope,
IET-CV(2), No. 4, December 2008, pp. 228-235.
DOI Link 0905
BibRef

Kim, H.K.[Hyun-Ki], Chen, S.S.[Su-Shing],
Associative Naive Bayes classifier: Automated linking of gene ontology to medline documents,
PR(42), No. 9, September 2009, pp. 1777-1785.
Elsevier DOI 0905
Data mining; Knowledge discovery; Gene ontology; Document classification BibRef

Karimi, N., Samavi, S., Shirani, S., Behnamfar, P.,
Segmentation of DNA microarray images using an adaptive graph-based method,
IET-IPR(4), No. 1, February 2010, pp. 19-27.
DOI Link 1002
BibRef

Yoon, Y., Bien, S., Park, S.,
Microarray Data Classifier Consisting of k-Top-Scoring Rank-Comparison Decision Rules With a Variable Number of Genes,
SMC-C(40), No. 2, March 2010, pp. 216-226.
IEEE DOI 1003
BibRef

Liu, C.C.[Chao-Chun], Dai, D.Q.[Dao-Qing], Yan, H.[Hong],
The theoretic framework of local weighted approximation for microarray missing value estimation,
PR(43), No. 8, August 2010, pp. 2993-3002.
Elsevier DOI 1006
DNA microarray data analysis; Missing value estimation; Local weighted approximation BibRef

Zifan, A.[Ali], Moradi, M.H.[Mohammad Hassan], Gharibzadeh, S.[Shahriar],
Microarray image enhancement by denoising using decimated and undecimated multiwavelet transforms,
SIViP(4), No. 2, June 2010, pp. xx-yy.
Springer DOI 1006
BibRef

Howlader, T., Chaubey, Y.P.,
Noise Reduction of cDNA Microarray Images Using Complex Wavelets,
IP(19), No. 8, August 2010, pp. 1953-1967.
IEEE DOI 1008
BibRef

Hernandez-Lobato, D.[Daniel], Hernandez-Lobato, J.M.[Jose Miguel], Suarez, A.[Alberto],
Expectation Propagation for microarray data classification,
PRL(31), No. 12, 1 September 2010, pp. 1618-1626.
Elsevier DOI 1008
Microarray data; Bayesian inference; Expectation Propagation BibRef

Hernandez-Lobato, J.M.[Jose Miguel], Hernandez-Lobato, D.[Daniel], Suarez, A.[Alberto],
Network-based sparse Bayesian classification,
PR(44), No. 4, April 2011, pp. 886-900.
Elsevier DOI 1101
Network based classification; Expectation propagation; Spike and slab; Markov random field; Sparsity; Feature selection BibRef

Aygun, E., Oommen, B.J., Cataltepe, Z.,
Peptide classification using optimal and information theoretic syntactic modeling,
PR(43), No. 11, November 2010, pp. 3891-3899.
Elsevier DOI 1008
Biological sequence analysis; Optimal and information theoretic syntactic classification; Peptide classification; Sequence processing; Syntactic pattern recognition BibRef

Macintyre, G.[Geoff], Bailey, J.[James], Gustafsson, D.[Daniel], Haviv, I.[Izhak], Kowalczyk, A.[Adam],
Using Gene Ontology annotations in exploratory microarray clustering to understand cancer etiology,
PRL(31), No. 14, 15 October 2010, pp. 2138-2146.
Elsevier DOI 1003
Microarray; Gene Ontology; Clustering; Cancer BibRef

Bi, C.P.[Cheng-Peng],
Comparison of optimization techniques for sequence pattern discovery by maximum-likelihood,
PRL(31), No. 14, 15 October 2010, pp. 2147-2160.
Elsevier DOI 1003
Maximum-likelihood; Expectation maximization (EM); Markov chain Monte Carlo; Motif discovery; Multiple local alignment; Gene regulation BibRef

Ngom, A.[Alioune], Rueda, L.[Luis], Wang, L.[Lili], Gras, R.[Robin],
Selection based heuristics for the non-unique oligonucleotide probe selection problem in microarray design,
PRL(31), No. 14, 15 October 2010, pp. 2113-2125.
Elsevier DOI 1003
Microarray; Probe; Selection; Separation; Coverage; Heuristic BibRef

Twala, B.[Bhekisipho], Phorah, M.[Motee],
Predicting incomplete gene microarray data with the use of supervised learning algorithms,
PRL(31), No. 13, 1 October 2010, pp. 2061-2069.
Elsevier DOI 1003
Supervised learning; Microarray data; Incomplete data; Prediction BibRef

Chaturvedi, I.[Iti], Rajapakse, J.C.[Jagath C.],
Building gene networks with time-delayed regulations,
PRL(31), No. 14, 15 October 2010, pp. 2133-2137.
Elsevier DOI 1003
Dynamic Bayesian networks; Gene regulatory networks; Viterbi algorithm; Skip-chain model; Genetic algorithms BibRef

Maji, P.,
Fuzzy-Rough Supervised Attribute Clustering Algorithm and Classification of Microarray Data,
SMC-B(41), No. 1, February 2011, pp. 222-233.
IEEE DOI 1102
BibRef

Goswami, M.[Mausumi], Sarmah, R.[Rosy], Bhattacharyya, D.K.,
CNNC: a common nearest neighbour clustering approach for gene expression data,
IJCVR(2), No. 2, 2011, pp. 115-126.
DOI Link 1109
BibRef

Zineddin, B., Wang, Z., Liu, X.,
Cellular Neural Networks, the Navier-Stokes Equation, and Microarray Image Reconstruction,
IP(20), No. 11, November 2011, pp. 3296-3301.
IEEE DOI 1110
BibRef

Tapia, E., Bulacio, P., Angelone, L.,
Sparse and stable gene selection with consensus SVM-RFE,
PRL(33), No. 2, 15 January 2012, pp. 164-172.
Elsevier DOI 1112
SVM-RFE; Microarray; Sparse gene selection; Gene selection stability BibRef

Orsenigo, C., Vercellis, C.,
An effective double-bounded tree-connected Isomap algorithm for microarray data classification,
PRL(33), No. 1, 1 January 2012, pp. 9-16.
Elsevier DOI 1112
Nonlinear dimensionality reduction; Isomap; Microarray data; Support vector machines BibRef

Hanczar, B.[Blaise], Nadif, M.[Mohamed],
Ensemble methods for biclustering tasks,
PR(45), No. 11, November 2012, pp. 3938-3949.
Elsevier DOI 1206
Co-clustering; Ensemble methods; Microarray data BibRef

Wang, J.Z.[Jian-Zhong], Wu, L.[Lishan], Kong, J.[Jun], Li, Y.X.[Yu-Xin], Zhang, B.[Baoxue],
Maximum weight and minimum redundancy: A novel framework for feature subset selection,
PR(46), No. 6, June 2013, pp. 1616-1627.
Elsevier DOI 1302
Feature selection; Maximum weight and minimum redundancy; Face recognition; Microarray classification; Text categorization BibRef

Deng, H.[Houtao], Runger, G.[George],
Gene selection with guided regularized random forest,
PR(46), No. 12, 2013, pp. 3483-3489.
Elsevier DOI 1308
Classification BibRef

Havukkala, I.[Ilkka], Kuijper, A.[Arjan],
Comparing Bitmapped Microrna Structure Images Using Mutual Symmetry,
IJIG(13), No. 03, 2013, pp. 1350008.
DOI Link 1309
BibRef

Mirauta, B.[Bogdan], Nicolas, P.[Pierre], Richard, H.[Hugues],
Pardiff: Inference of Differential Expression at Base-Pair Level from RNA-Seq Experiments,
PR-PS-BB13(418-427).
Springer DOI 1309
BibRef

You, W.J.[Wen-Jie], Yang, Z.J.[Zi-Jiang], Yuan, M.S.[Ming-Shun], Ji, G.[Guoli],
TotalPLS: Local Dimension Reduction for Multicategory Microarray Data,
HMS(44), No. 1, February 2014, pp. 125-138.
IEEE DOI 1403
biology computing BibRef

Bolón-Canedo, V., Sánchez-Maroño, N., Alonso-Betanzos, A.,
An ensemble of filters and classifiers for microarray data classification,
PR(45), No. 1, 2012, pp. 531-539.
Elsevier DOI 1410
Feature selection BibRef

Maraziotis, I.A.[Ioannis A.],
A semi-supervised fuzzy clustering algorithm applied to gene expression data,
PR(45), No. 1, 2012, pp. 637-648.
Elsevier DOI 1410
Semi-supervised clustering BibRef

Gaffling, S., Daum, V., Steidl, S., Maier, A., Kostler, H., Hornegger, J.,
A Gauss-Seidel Iteration Scheme for Reference-Free 3-D Histological Image Reconstruction,
MedImg(34), No. 2, February 2015, pp. 514-530.
IEEE DOI 1502
Image reconstruction BibRef

Nguyen, T.[Thanh], Khosravi, A.[Abbas], Creighton, D.[Douglas], Nahavandi, S.[Saeid],
A novel aggregate gene selection method for microarray data classification,
PRL(60-61), No. 1, 2015, pp. 16-23.
Elsevier DOI 1506
Gene selection BibRef

Hernandez-Cabronero, M., Blanes, I., Pinho, A.J., Marcellin, M.W., Serra-Sagrista, J.,
Analysis-Driven Lossy Compression of DNA Microarray Images,
MedImg(35), No. 2, February 2016, pp. 654-664.
IEEE DOI 1602
Customer relationship management BibRef

Hernández-Cabronero, M., Sanchez, V., Aulí-Llinàs, F., Serra-Sagristà, J.,
Fast MCT optimization for the compression of whole-slide images,
ICIP16(2370-2374)
IEEE DOI 1610
Bit rate BibRef

Hernández-Cabronero, M., Blanes, I., Pinho, A.J., Marcellin, M.W., Serra-Sagristà, J.,
Progressive Lossy-to-Lossless Compression of DNA Microarray Images,
SPLetters(23), No. 5, May 2016, pp. 698-702.
IEEE DOI 1604
Context BibRef

Hernández-Cabronero, M., Marcellin, M.W., Blanes, I., Serra-Sagristà, J.,
Lossless Compression of Color Filter Array Mosaic Images With Visualization via JPEG 2000,
MultMed(20), No. 2, February 2018, pp. 257-270.
IEEE DOI 1801
Image coding, Image color analysis, Interpolation, Sensor arrays, Software, Transform coding, Visualization, image compression BibRef

Giannakeas, N.[Nikolaos], Kalatzis, F.[Fanis], Tsipouras, M.G.[Markos G.], Fotiadis, D.I.[Dimitrios I.],
A generalized methodology for the gridding of microarray images with rectangular or hexagonal grid,
SIViP(10), No. 4, April 2016, pp. 719-728.
Springer DOI 1604
BibRef

Vahadane, A., Peng, T., Sethi, A., Albarqouni, S., Wang, L., Baust, M., Steiger, K., Schlitter, A.M., Esposito, I., Navab, N.,
Structure-Preserving Color Normalization and Sparse Stain Separation for Histological Images,
MedImg(35), No. 8, August 2016, pp. 1962-1971.
IEEE DOI 1608
Biology BibRef

Saberkari, H.[Hamidreza], Farsani, M.S.[Mahsa Saffari], Aminkar, S.[Sahar], Shamsi, M.[Mousa],
An Efficient Algorithm for Small Gene Prediction in DNA Sequences,
IJCVSP(6), No. 1, 2016, pp. 4.
HTML Version. 1609
BibRef

Kumar, K., Shrimankar, D.D.,
F-DES: Fast and Deep Event Summarization,
MultMed(20), No. 2, February 2018, pp. 323-334.
IEEE DOI 1801
Cameras, Correlation, DNA, Feature extraction, Multimedia communication, Streaming media, Visualization, nucleotide sequence BibRef

Rubio-Largo, Á.[Álvaro], Vanneschi, L.[Leonardo], Castelli, M.[Mauro], Vega-Rodríguez, M.A.[Miguel A.],
A Characteristic-Based Framework for Multiple Sequence Aligners,
Cyber(48), No. 1, January 2018, pp. 41-51.
IEEE DOI 1801
Benchmark testing, Cybernetics, Iterative methods, Muscles, Particle swarm optimization, Proteins, Characteristics-based, particle swarm optimization (PSO) BibRef

Chen, L.X.[Li-Xin], Liu, B.T.[Bing-Tao], Yan, C.G.[Cheng-Gang],
DPFMDA: Distributed and privatized framework for miRNA-Disease association prediction,
PRL(109), 2018, pp. 4-11.
Elsevier DOI 1806
miRNA-disease association prediction, Computational model, Distributed data processing BibRef

Li, T.J.[Tie-Jun], Shao, G.[Guifang], Sun, Y.[Yue], Shi, W.[Weiren],
Contrast enhancement for cDNA microarray image based on fourth-order moment,
SIViP(12), No. 6, September 2018, pp. 1069-1077.
WWW Link. 1808
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Sun, M.X.[Meng-Xin], Liu, K.H.[Kun-Hong], Wu, Q.Q.A.[Qing-Qi-Ang], Hong, Q.Q.[Qing-Qi], Wang, B.Z.[Bei-Zhan], Zhang, H.Y.[Hai-Ying],
A novel ECOC algorithm for multiclass microarray data classification based on data complexity analysis,
PR(90), 2019, pp. 346-362.
Elsevier DOI 1903
Error correcting output codes (ECOC), Data complexity, Microarray data, Multiclass BibRef

Grote, A., Schaadt, N.S., Forestier, G., Wemmert, C., Feuerhake, F.,
Crowdsourcing of Histological Image Labeling and Object Delineation by Medical Students,
MedImg(38), No. 5, May 2019, pp. 1284-1294.
IEEE DOI 1905
Task analysis, Labeling, Tools, Crowdsourcing, Pathology, Biomedical imaging, Training, Crowdsourcing, human decision making, majority vote BibRef

Maleki, E.[Ehsan], Babashah, H.[Hossein], Koohi, S.[Somayyeh], Kavehvash, Z.[Zahra],
All-optical DNA variant discovery utilizing extended DV-curve-based wavelength modulation,
JOSA-A(35), No. 11, November 2018, pp. 1929-1940.
DOI Link 1912
Image processing, Optical computers, Optical computing, Optical processing, Optical signals, Parallel processing BibRef

Wang, C.Y.[Chun-Yang], Wang, Y.P.[Yu-Ping], Cheung, Y.[Yiuming],
A branch and bound irredundant graph algorithm for large-scale MLCS problems,
PR(119), 2021, pp. 108059.
Elsevier DOI 2106
Multiple longest common subsequences, Small DAG, Branch and bound, Gene alignment BibRef

Lage, C.[Clara], Pustelnik, N.[Nelly], Arbona, J.M.[Jean Michel], Audit, B.[Benjamin],
Space-Scale Hybrid Continuous-Discrete Sliding Frank-Wolfe Method,
SPLetters(31), 2024, pp. 830-834.
IEEE DOI 2404
Signal processing algorithms, Dictionaries, Optimization, Encoding, DNA, Atomic measurements, Convolution, DNA replication, sparse coding BibRef

Fang, Z.Y.[Zheng-Yang], Zhou, P.C.[Peng-Cheng], Xia, J.Y.[Jin-Yi], Huang, K.[Kaibo], Yang, Z.L.[Zhong-Liang],
Highly Efficient DNA Steganalysis Based on Contrastive Learning Framework,
SPLetters(31), 2024, pp. 2195-2199.
IEEE DOI 2409
DNA, Feature extraction, Steganography, Contrastive learning, Analytical models, Vectors, Transformers, Contrastive learning, DNA steganography BibRef

Imbert, A.[Arthur], Mueller, F.[Florian], Walter, T.[Thomas],
Pointfish: Learning Point Cloud Representations for RNA Localization Patterns,
BioImage22(487-502).
Springer DOI 2304
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Ho, M.Y.[Ming-Yang], Wu, M.S.[Min-Sheng], Wu, C.M.[Che-Ming],
Ultra-High-Resolution Unpaired Stain Transformation via Kernelized Instance Normalization,
ECCV22(XXI:490-505).
Springer DOI 2211
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Antonio, E.G.S.[Eva Gil San], Dimopoulou, M.[Melpomeni], Antonini, M.[Marc], Barbry, P.[Pascal], Appuswamy, R.[Raja],
Decoding of Nanopore-Sequenced Synthetic DNA Storing Digital Images,
ICIP21(1899-1903)
IEEE DOI 2201
Sequential analysis, Image coding, Error analysis, DNA, Media, Real-time systems, Decoding, DNA data storage, Nanopore sequencing, consensus finding BibRef

Miller, M.I.[Michael I.], Fan, J.[Jean], Tward, D.J.[Daniel J.],
Multi scale diffeomorphic metric mapping of spatial transcriptomics datasets,
CVSports21(4467-4475)
IEEE DOI 2109
Image color analysis, Shape, Feature extraction, Hilbert space, Entropy, Data models BibRef

Partel, G.[Gabriele], Wählby, C.[Carolina],
Graph-based image decoding for multiplexed in situ RNA detection,
ICPR21(3783-3790)
IEEE DOI 2105
Multiplexing, Sequential analysis, RNA, Pipelines, Imaging, Jitter BibRef

Antonio, E.G.S.[Eva Gil San], Piretti, M.[Mattia], Dimopoulou, M.[Melpomeni], Antonini, M.[Marc],
Robust image coding on synthetic DNA: Reducing sequencing noise with inpainting,
ICPR21(9859-9865)
IEEE DOI 2105
Sequential analysis, Visualization, Image coding, Redundancy, DNA, Decoding, Image coding, DNA, barcode, inpainting, sequencing BibRef

Zhang, W., Ezard, T., Searle-Barnes, A., Brombacher, A., Katsamenis, O., Nixon, M.,
Towards Understanding Speciation By Automated Extraction And Description Of 3d Foraminifera Stacks,
SSIAI20(30-33)
IEEE DOI 2009
biology computing, cellular biophysics, feature extraction, genetics, image reconstruction, foraminifera BibRef

Liu, Y.[Yi], Treible, W.[Wayne], Kolagunda, A.[Abhishek], Nedo, A.[Alex], Saponaro, P.[Philip], Caplan, J.[Jeffrey], Kambhamettu, C.[Chandra],
Densely Connected Stacked U-network for Filament Segmentation in Microscopy Images,
BioIm18(VI:403-411).
Springer DOI 1905
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Sun, M., Liu, K., Hong, Q., Wang, B.,
A New ECOC Algorithm for Multiclass Microarray Data Classification,
ICPR18(454-458)
IEEE DOI 1812
Complexity theory, Classification algorithms, Encoding, Indexes, Cancer, Mathematical model, Task analysis, ECOC, Multi-class, Microarray Data BibRef

Pham, T., Tran, T., Venkatesh, S.,
Graph Memory Networks for Molecular Activity Prediction,
ICPR18(639-644)
IEEE DOI 1812
Neural networks, Cognition, Task analysis, Process control, Drugs, Training, Machine learning BibRef

Wilson, R.C.[Richard C.], Algul, E.[Enes],
Categorization of RNA Molecules Using Graph Methods,
SSSPR18(439-448).
Springer DOI 1810
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Reyes-Nava, A., Sánchez, J.S., Alejo, R., Flores-Fuentes, A.A., Rendón-Lara, E.,
Performance Analysis of Deep Neural Networks for Classification of Gene-Expression Microarrays,
MCPR18(105-115).
Springer DOI 1807
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Cicconet, M.[Marcelo], Hochbaum, D.R.[Daniel R.], Richmond, D.L.[David L.], Sabatin, B.L.[Bernardo L.],
Bots for Software-Assisted Analysis of Image-Based Transcriptomics,
BioIm17(134-142)
IEEE DOI 1802
RNA analysis. Biological system modeling, Image edge detection, Image segmentation, Mathematical model, Pipelines, Shape BibRef

Fatmi, A.E., Chentoufi, A., Bekri, M.A., Benhlima, S., Sabbane, M.,
A heuristic algorithm for RNA secondary structure based on genetic algorithm,
ISCV17(1-7)
IEEE DOI 1710
Genetic algorithms, Minimization, Prediction algorithms, RNA, Sociology, Statistics, Thermodynamics BibRef

Chentoufi, A., Fatmi, A.E., Bekri, A., Benhlima, S., Sabbane, M.,
Genetic algorithms and dynamic weighted sum method for RNA alignment,
ISCV17(1-5)
IEEE DOI 1710
Genetic algorithms, Heuristic algorithms, Linear programming, RNA, Sociology, Statistics, Bioinformatics, Intelligent system, Multiple sequence alignment, Weighted sum method, genetic, algorithm BibRef

García, V., Sánchez, J.S., Cleofas-Sánchez, L., Ochoa-Domínguez, H.J., López-Orozco, F.,
An Insight on the 'Large G, Small n' Problem in Gene-Expression Microarray Classification,
IbPRIA17(483-490).
Springer DOI 1706
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Pratas, D.[Diogo], Pinho, A.J.[Armando J.],
On the Approximation of the Kolmogorov Complexity for DNA Sequences,
IbPRIA17(259-266).
Springer DOI 1706
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Paul, A.K., Shill, P.C.,
Reconstruction of gene network through Backward Elimination based Information-Theoretic Inference with Maximal Information Coefficient,
IVPR17(1-5)
IEEE DOI 1704
Entropy BibRef

Dakhli, A.[Abdesselem], Bellil, W.[Wajdi], Ben Amar, C.[Chokri],
Wavelet Neural Network Initialization Using LTS for DNA Sequence Classification,
ACIVS16(661-673).
Springer DOI 1611
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Browet, A., de Vleeschouwer, C., Jacques, L., Mathiah, N., Saykali, B., Migeotte, I.,
Cell segmentation with random ferns and graph-cuts,
ICIP16(4145-4149)
IEEE DOI 1610
Embryo BibRef

Jeong, S.G.[Seong-Gyun], Tarabalka, Y.[Yuliya], Zerubia, J.B.[Josiane B.],
Stochastic model for curvilinear structure reconstruction using morphological profiles,
ICIP15(3575-3579)
IEEE DOI 1512
curvilinear structure modeling. E.g. DNA filaments. BibRef

Paul, S.[Sushmita], Vera, J.[Julio],
Supervised Cluster Analysis of miRNA Expression Data Using Rough Hypercuboid Partition Matrix,
PReMI15(482-494).
Springer DOI 1511
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Wiewiorka, M.S.[Marek S.], Szabelska, A.[Alicja], Okoniewski, M.J.[Michal J.],
Analysis of AmpliSeq RNA-Sequencing Enrichment Panels,
PReMI15(495-500).
Springer DOI 1511
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Masuda, A.[Atsuki], Raytchev, B.[Bisser], Kurita, T.[Takio], Imamura, T.[Toru], Suzuki, M.[Masashi], Tamaki, T.[Toru], Kaneda, K.[Kazufumi],
Automatic Detection of Good/Bad Colonies of iPS Cells Using Local Features,
MLMI15(153-160).
Springer DOI 1511
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Bouazza, S.H., Hamdi, N., Zeroual, A., Auhmani, K.,
Gene-expression-based cancer classification through feature selection with KNN and SVM classifiers,
ISCV15(1-6)
IEEE DOI 1506
cancer BibRef

Han, Y.X.[Yue-Xing], Daisuke, I., Kakugo, A., Konagaya, A.,
Tracking single microtubules by using B-spline curves and Hausdorff distance,
IPTA14(1-6)
IEEE DOI 1503
image motion analysis BibRef

Singh, A.[Amarjot], Buonassisi, J.[John], Saeedi, P.[Parvaneh], Havelock, J.[Jon],
Automatic blastomere detection in day 1 to day 2 human embryo images using partitioned graphs and ellipsoids,
ICIP14(917-921)
IEEE DOI 1502
Embryo BibRef

Perina, A.[Alessandro], Kesa, M.[Maria], Bicego, M.[Manuele],
Expression Microarray Data Classification Using Counting Grids and Fisher Kernel,
ICPR14(1770-1775)
IEEE DOI 1412
Accuracy BibRef

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MCPR15(271-281).
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Pattern Analysis in DNA Microarray Data through PCA-Based Gene Selection,
CIARP14(532-539).
Springer DOI 1411
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Krishna, M.V.[Mahesh Venkata], Denzler, J.[Joachim],
A Hierarchical Bayesian Approach for Unsupervised Cell Phenotype Clustering,
GCPR14(69-80).
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Consylman, M., Mukherjee, S., Mukherjee, D.P., Condron, B., Acton, S.T.,
Social behavior analysis of Drosophila larvae via motion activity recognition,
Southwest14(161-164)
IEEE DOI 1406
Gabor filters BibRef

Shao, G.F.[Gui-Fang], Wang, T.[Tingna], Chen, Z.G.[Zhi-Gang], Huang, Y.S.[Yu-Shu], Wen, Y.H.[Yu-Hua],
An improved automatic gridding method for cDNA microarray images,
ICPR12(1615-1618).
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Kazmar, T.[Toma], Kvon, E.Z.[Evgeny Z.], Stark, A.[Alexander], Lampert, C.H.[Christoph H.],
Drosophila Embryo Stage Annotation Using Label Propagation,
ICCV13(1089-1096)
IEEE DOI 1403
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Localization of Drosophila embryos using connected components in scale space,
ICIP12(497-500).
IEEE DOI 1302
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Abe, T.[Toru], Hamada, C.[Chieko],
An effective method of searching for subregions in chromosome images,
ICIP11(1613-1616).
IEEE DOI 1201
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Efficient statistical/morphological cell texture characterization and classification,
ICPR12(2440-2443).
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ICIP11(53-56).
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Applications of Multilevel Thresholding Algorithms to Transcriptomics Data,
CIARP11(26-37).
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Zhang, W.F.[Wei-Feng], Yan, H.[Hong],
Exon prediction using empirical mode decomposition and Fourier transform of structural profiles of DNA sequences,
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Elsevier DOI 1111
DNA sequence analysis; Exon prediction; Discrete Fourier transform; Empirical mode decomposition; Structural features of DNA BibRef

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Processing of Microarray Images,
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Souvenir, R.[Richard], Kraftchick, J.P.[Jerrod P.], Shin, M.C.[Min C.],
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Rueda, L.[Luis],
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Rueda, L.[Luis], Qin, L.[Li],
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ICIAR05(886-893).
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Earlier:
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ICIAR04(II: 17-24).
Springer DOI 0409
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ISVC06(I: 813-821).
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Hua, D.[Dong], Chen, D.C.[De-Chang], Youssef, A.,
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IEEE DOI 0507
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ICIP05(III: 1240-1243).
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Towards automatic analysis of DNA microarrays,
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Chapter on Medical Applications, CAT, MRI, Ultrasound, Heart Models, Brain Models continues in
Mitochondria DNA Analysis and Extraction .