Discovering Motifs in Ranked Lists of DNA Sequences

Gene Ontology: tool for the unification of biology

Ashburner, M., Ball, C. A., Blake, J. A., Botstein, D., Butler, H., Cherry, J. M., Davis, A. P., Dolinski, K., Dwight, S. S., Eppig, J. T., et al. (2000) · Nature Genetics · doi:10.1038/75556 · Cited by 43,206

Fitting a mixture model by expectation maximization to discover motifs in biopolymers.

Bailey, T. L., & Elkan, C. (1994) · PubMed · Cited by 4,982

Transcriptional Regulatory Networks in Saccharomyces cerevisiae

Lee, T. I., Rinaldi, N. J., Robert, F., Odom, D. T., Bar-Joseph, Z., Gerber, G. K., Hannett, N. M., Harbison, C. T., Thompson, C. M., Simon, I., et al. (2002) · Science · doi:10.1126/science.1075090 · Cited by 2,956

Control of Developmental Regulators by Polycomb in Human Embryonic Stem Cells

Lee, T. I., Jenner, R. G., Boyer, L. A., Guenther, M. G., Levine, S. S., Kumar, R., Chevalier, B. S., Johnstone, S. E., Cole, M. F., Isono, K., et al. (2006) · Cell · doi:10.1016/j.cell.2006.02.043 · Cited by 2,296

The Polycomb group protein EZH2 directly controls DNA methylation

Viré, E., Brenner, C., Deplus, R., Blanchon, L., Fraga, M., Didelot, C., Morey, L., Van Eynde, A., Bernard, D., Vanderwinden, J.-M., et al. (2006) · Nature · doi:10.1038/nature04431 · Cited by 2,204

Transcriptional regulatory code of a eukaryotic genome

Harbison, C. T., Gordon, D. B., Lee, T. I., Rinaldi, N. J., MacIsaac, K. D., Danford, T., Hannett, N. M., Tagne, J., Reynolds, D. B., Yoo, J. Y., et al. (2004) · Nature · doi:10.1038/nature02800 · Cited by 2,135

GO::TermFinder–open source software for accessing gene ontology information and finding significantly enriched gene ontology terms associated with a list of genes

Boyle, E. I., Weng, S., Gollub, J., Jin, H., Botstein, D., Cherry, J. M., & Sherlock, G. (2004) · Bioinformatics · doi:10.1093/bioinformatics/bth456 · Cited by 2,067

Molecular classification of cutaneous malignant melanoma by gene expression profiling

Bittner, M. L., Meltzer, P. S., Chen, Y., Jiang, Y. Y., Seftor, E. A., Hendrix, M. J. C., Radmacher, M. D., Simon, R., Zohar Yakhini, B., Ben‐Dor, A., et al. (2000) · Nature · doi:10.1038/35020115 · Cited by 1,989

Genome-Wide Location and Function of DNA Binding Proteins

Ren, B., Robert, F., Wyrick, J. J., Aparicio, O. M., Jennings, E. G., Simon, I., Zeitlinger, J., Schreiber, J., Hannett, N. M., Kanin, E. I., et al. (2000) · Science · doi:10.1126/science.290.5500.2306 · Cited by 1,768

Control of Pancreas and Liver Gene Expression by HNF Transcription Factors

Odom, D. T., Zizlsperger, N., Gordon, D. B., Bell, G. W., Rinaldi, N. J., Murray, H. L., Volkert, T. L., Schreiber, J., Rolfe, A., Gifford, D. K., et al. (2004) · Science · doi:10.1126/science.1089769 · Cited by 1,348

Achilles -Mediated and Sex-Specific Regulation of Circadian mRNA Rhythms in Drosophila

Li, J., Yu, R. Y., Emran, F., Chen, B. E., & Hughes, M. E. (2019) · Journal of Biological Rhythms · doi:10.1177/0748730419830845 · Cited by 5

Coordination of the unfolded protein response during hepatic steatosis identifies CHOP as a specific regulator of hepatocyte ballooning

Zhang, Y., Chatzistamou, I., & Kiaris, H. (2020) · Cell Stress and Chaperones · doi:10.1007/s12192-020-01132-x · Cited by 5

Using a Solver Over the String Pattern Domain to Analyze Gene Promoter Sequences

Rigotti, C., Mitašiūnaitė, I., Besson, J., Meyniel‐Schicklin, L., Boulicaut, J., & Gandrillon, O. (2010) · Springer eBooks · doi:10.1007/978-1-4419-7738-0_17 · Cited by 5

UBiT2: a client-side web-application for gene expression data analysisPreprint

Fan, J., Fan, D., Slowikowski, K., Gehlenborg, N., & Kharchenko, P. V. (2017) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/118992 · Cited by 5

Genetic screens identify connections between ribosome recycling and nonsense mediated decayPreprint

D’Orazio, K. N., Lessen, L. N., Veltri, A. J., Neiman, Z. M., Pacheco, M., Loll‐Krippleber, R., Brown, G. W., & Green, R. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.08.03.454884 · Cited by 5

A comparative analysis of gene and protein expression in chronic and acute models of photoreceptor degeneration in adult zebrafish

Kramer, A. C., Carthage, J., Berry, Y., Gurdziel, K., Cook, T. A., & Thummel, R. (2023) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2023.1233269 · Cited by 4

Unraveling Transcriptome Profile, Epigenetic Dynamics, and Morphological Changes in Psoriasis-like Keratinocytes: “Insights into Similarity with Psoriatic Lesional Epidermis”

Ghaffarinia, A., Póliska, S., Ayaydin, F., Göblös, A., Parvaneh, S., Manczinger, M., Balogh, F., Erdei, L., Veréb, Z., Szabó, K., et al. (2023) · Cells · doi:10.3390/cells12242825 · Cited by 4

Adaptive gene expression parallelism in the male reproductive tract of two Drosophila species

Fan, T., Cridland, J. M., & Begun, D. J. (2025) · Genetics · doi:10.1093/genetics/iyaf113 · Cited by 4

Identification of long regulatory elements in the genome of Plasmodium falciparum and other eukaryotes

Menichelli, C., Guitard, V., Martins, R. M., Lèbre, S., Lopez-Rubio, J.-J., Lecellier, C., & Bréhélin, L. (2021) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1008909 · Cited by 5

Cat8 Response to Nutritional Changes and Interaction With Ehrlich Pathway Related Factors

Du, Z., Deng, H. X., Cheng, Y., Zhai, Z., Guo, X., Wang, Z., & He, X. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.898938 · Cited by 5

Myeloid/natural killer (NK) cell precursor acute leukemia as a distinct leukemia type

Nishimura, A., Yokoyama, K., Naruto, T., Yamagishi, C., Imamura, T., Nakazono, H., Kimura, S., Ito, M., Sagisaka, M., Tanaka, Y., et al. (2023) · Science Advances · doi:10.1126/sciadv.adj4407 · Cited by 4

Genome-wide analysis of fitness data and its application to improve metabolic models

Vitkin, E. I., Solomon, O., Sultan, S., & Yakhini, Z. (2018) · BMC Bioinformatics · doi:10.1186/s12859-018-2341-9 · Cited by 4

Efficient gene expression signature for a breast cancer immuno-subtype

Galili, B., Tekpli, X., Kristensen, V. N., & Zohar Yakhini, B. (2021) · PLoS ONE · doi:10.1371/journal.pone.0245215 · Cited by 4

Alternative splicing tends to avoid partial removals of protein-protein interaction sites

Colantoni, A., Bianchi, V., Gherardini, P. F., Tomba, G. S., Ausiello, G., Helmer‐Citterich, M., & Ferrè, F. (2013) · BMC Genomics · doi:10.1186/1471-2164-14-379 · Cited by 4

Identification of transcription factor binding sites based on the Chi-Square (x2) distance of a probabilistic vector model

Huang, L., Bataineh, M. A., Atkin, G. E., Mohammed, I., Zhang, W., Parra, M. C., & Perez, M. D. M. (2009) · International Conference on Future BioMedical Information Engineering · doi:10.1109/fbie.2009.5405793 · Cited by 4

An exact test for comparing a fixed quantitative property between gene sets

Parks, M. (2017) · Bioinformatics · doi:10.1093/bioinformatics/btx693 · Cited by 4

Copper oxide nanoparticles promote the evolution of multicellularity in yeast

Tan, J., He, Q., Pentz, J. T., Peng, C., Yang, X., Tsai, M.-H., Chen, Y., Ratcliff, W. C., & Jiang, L. (2019) · Nanotoxicology · doi:10.1080/17435390.2018.1553253 · Cited by 4

Improved approach to atrial septum puncture: experience in 539 cases.

Yao, Y., Guo, J., Ding, L.-G., Bao, J., Huang, W., Shi, R., Wu, L., & Zhang, S. (2012) · PubMed · Cited by 4

Sex Differences in Functional Topography of Association Networks

Shanmugan, S., Seidlitz, J., Cui, Z., Adebimpe, A., Bassett, D. S., Bertolero, M. A., Davatzikos, C. A., Fair, D. A., Gur, R. E., Gur, R. C., et al. (2021) · Biological Psychiatry · doi:10.1016/j.biopsych.2021.02.453 · Cited by 4

Correction: miRNA-mRNA Integrated Analysis Reveals Roles for miRNAs in Primary Breast Tumors

Enerly, E., Steinfeld, I., Sahlberg, K. K., Leivonen, S., Aure, M. R. R., Russnes, H. G., Rønneberg, J. A., Johnsen, H., Navon, R., Rødland, E. A., et al. (2013) · PLoS ONE · doi:10.1371/annotation/a20454a7-ddc4-4657-b73c-185bd6ec6977 · Cited by 4

Influenza-Induced Activation of Recruited Alveolar Macrophages During the Early Inflammatory Phase Drives Lung Injury and LethalityPreprint

Koch, C. M., Anekalla, K. R., Hu, Y., Davis, J. M., Ciesielski, M., Gadhvi, G. T., Chen, S.-Y., Turner, M., Cheng, Y., Coates, B. M., et al. (2022) · SSRN Electronic Journal · doi:10.2139/ssrn.4012181 · Cited by 5

Impact of Pals1 on Expression and Localization of Transporters Belonging to the Solute Carrier Family

Berghaus, C., Groh, A.-C., Breljak, D., Ciarimboli, G., Sabolić, I., Pavenstädt, H., & Weide, T. (2022) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2022.792829 · Cited by 3

High throughput screen identifies lysosomal acid phosphatase 2 (ACP2) to regulate IFN-1 responses to potentiate oncolytic VSV∆51 activity

Wong, B., Birtch, R., Bergeron, A., Ng, K., Maznyi, G., Spinelli, M. M., Chen, A., Landry, A., Crupi, M. J. F., Arulanandam, R., et al. (2024) · Scientific Reports · doi:10.1038/s41598-024-76855-3 · Cited by 3

Engagement-based user attention distribution on web article pages

Rokhlenko, O., Golbandi, N., Lempel, R., & Leibovich, L. (2013) · ACM Conference on Hypertext and Social Media (HT) · doi:10.1145/2481492.2481516 · Cited by 3

An Integrative Study of Aortic mRNA/miRNA Longitudinal Changes in Long-Term LVAD Support

Dlouhá, D., Ivák, P., Netuka, I., Benesova, S., Tučanová, Z., & Hubacek, J. A. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms22147414 · Cited by 3

Identification of molecular signatures associated with early relapse after complete resection of lung adenocarcinomas

Pasternack, H., Kuempers, C., Deng, M. C.-H. K., Watermann, I., Olchers, T., Kühnel, M., Jonigk, D. D., Kügler, C., Stellmacher, F., Goldmann, T., et al. (2021) · Scientific Reports · doi:10.1038/s41598-021-89030-9 · Cited by 3

miRNA Profiling in Plants: Current Identification and Expression Approaches

Candar‐Cakir, B., & Çakır, Ö. (2016) · Springer eBooks · doi:10.1007/978-3-319-31703-8_8 · Cited by 3

Processing ChIP-Chip Data: From the Scanner to the Browser

Cauchy, P., Benoukraf, T., & Ferrier, P. (2011) · Methods in molecular biology · doi:10.1007/978-1-61779-027-0_12 · Cited by 3

Effects of Preserved and Preservative-Free Glaucoma Drugs on Proteomic Expression Levels in Corneal and Conjunctival Epithelial Cells in vitro

Nättinen, J. E. (2015) · Tampere University Institutional Repository (Tampere University) · Cited by 3

Proteome Expression Signatures: Differences between Orbital and Subcutaneous Abdominal Adipose Tissues

Castel, N., Vitkin, E. I., Shabo, S., Berl, A., Wise, J., Duenyas, A., Cohen, E. M. A., Golberg, A., & Shalom, A. (2024) · Life · doi:10.3390/life14101308 · Cited by 2

RNA-interactome capture identifies SRSF3 as a key protein for herpesviral gene expression

Vogt, C., van Ham, M., Bhowmik, R., Argoetti, A., Depledge, D. P., Steinbrück, L., Götting, J., Henkel, C., Granados, A. C., Mandel‐Gutfreund, Y., et al. (2025) · PNAS Nexus · doi:10.1093/pnasnexus/pgaf225 · Cited by 2

Investigations of potential therapeutic targets from high-throughput, label-free, quantitative proteomic studies in MDA-MB-468 cells treated with metformin and electrical pulses

Sahu, P., Camarillo, I. G., & Sundararajan, R. (2025) · Bioelectrochemistry · doi:10.1016/j.bioelechem.2025.109153 · Cited by 2

Transforming Growth Factor‐β‐Mediated Fibrotic Remodeling Drives Chronic Kidney Disease in Methylmalonic Aciduria and Propionic Aciduria—Identification of a New Therapeutic Target

Zeyer, K. A., Tholen, S., Schilling, O., Gerling, L., Morath, M., Kölker, S., Nyström, A., Spiekerkoetter, U., & Schumann, A. (2025) · Journal of Inherited Metabolic Disease · doi:10.1002/jimd.70111 · Cited by 2

Disordered DNA methylation leads to targetable transcriptional plasticity in ATRT

Tetens, A. R., Findlay, T., Craig-Schwartz, J., Liapodimitri, A., Camacho, O. M., Skalitzky, K. O., Idrizi, A., Tryggvadóttir, R., Lunsford, K., Raabe, E. H., et al. (2025) · Acta Neuropathologica Communications · doi:10.1186/s40478-025-02173-y · Cited by 2

Immune-microbiome coordination defines interferon setpoints in healthy humans

Babdor, J., Patel, R. K., Davidson, B. R., Koser, K. L., Noecker, C. A., Rahim, M. K., Bisanz, J. E., Tenvooren, I., Marquez, D., Calvo, M., et al. (2026) · Cell · doi:10.1016/j.cell.2026.02.003 · Cited by 4

In Depth Characterization of the Promoter Proximal Proteome of Single Copy Locus FOXP2

MacKenzie, T. M. G., Ramirez, L., Jian, R., Jiang, L., & Snyder, M. P. (2026) · Molecular & Cellular Proteomics · doi:10.1016/j.mcpro.2026.101570 · Cited by 2

S-adenosylmethionine as an epigenetic treatment of depression in adults with childhood trauma

Alkema, A., Schalkwijk, W., Bohte, E., Draisma, L. W. R., Hoppe, A., Koch, C., Refuge, V., Romberg, B., Luykx, J. J., Jans, J. J. M., et al. (2026) · Epigenomics · doi:10.1080/17501911.2026.2645001 · Cited by 2

The nutrigenomic-epigenetic axis in cancer: from dietary bioactives to precision oncology

Boroomand, F., Karimi, M. A., Karimzadeh‐Soureshjani, E., Kiani-Shamsabadi, D., Farhang, F., Mardani, H., & Jafari, A. (2026) · Nutrition & Metabolism · doi:10.1186/s12986-026-01147-8 · Cited by 2

Chromatin accessibility analysis reveals distinct functions for HDAC and EZH2 activities in early appendage regeneration

Arbach, H. E., Harland‐Dunaway, M., Braden, C. R., Chitsazan, A. D., Pickering, E. I., Patel, J. H., & Wills, A. E. (2022) · Wound Repair and Regeneration · doi:10.1111/wrr.13057 · Cited by 2

Detecting significant expression patterns in single-cell and spatial transcriptomics with a flexible computational approach

Biran, H., Hashimshony, T., Lahav, T., Efrat, O., Mandel‐Gutfreund, Y., & Yakhini, Z. (2024) · Scientific Reports · doi:10.1038/s41598-024-75314-3 · Cited by 3

Chronic CRYPTOCHROME deficiency enhances cell-intrinsic antiviral defences

Styles, C. T., Munns, J., Zeng, A., Oever, M. V., O'Neill, J. S., & Edgar, R. S. (2025) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2023.0344 · Cited by 2

Laryngeal squamous cell carcinoma cell lines show high tolerance for siRNA-mediated CDK1 knockdown.

Bednarek, K., Kostrzewska‐Poczekaj, M., Ustaszewski, A., Janiszewska, J., Kiwerska, K., Paczkowska, J., Grenman, R. A., Giefing, M., & Jarmuż‐Szymczak, M. (2021) · PubMed Central · Cited by 2

Clustering sequence sets for motif discovery

Kim, J. K., & Choi, S. (2009) · Cited by 2

Mutual Enrichment in Ranked Lists and the Statistical Assessment of Position Weight Matrix Motifs

Leibovich, L., & Yakhini, Z. (2013) · Lecture notes in computer science · doi:10.1007/978-3-642-40453-5_21 · Cited by 2

in vivo airway epithelia of are important to recapitulate the transcriptional profile The air-liquid interface and use of primary cell cultures

Harvey, B., Crystal, R. G., Zabner, J., Pezzulo, A. A., Starner, T. D., Scheetz, T. E., & Traver, G. L. (2013) · Cited by 2

A mean-field approach for modeling the propagation of perturbations in biochemical reaction networks

Przedborski, M., Sharon, D. M., Chan, S. M., & Kohandel, M. (2021) · European Journal of Pharmaceutical Sciences · doi:10.1016/j.ejps.2021.105919 · Cited by 2

Generation of a CHIP isogenic human iPSC-derived cortical neuron model for functional proteomics

Dias, C., Nita, E., Faktor, J., Hernychová, L., Kunath, T., & Ball, K. L. (2022) · STAR Protocols · doi:10.1016/j.xpro.2022.101247 · Cited by 2

Optimization of calmodulin-affinity chromatography for brain and organelles

Kulej, K., Sidoli, S., Palmisano, G., Edwards, A. V. G., Robinson, P. J., & Larsen, M. R. (2015) · EuPA Open Proteomics · doi:10.1016/j.euprot.2015.05.004 · Cited by 2

The XL-mHG test for enrichment: Algorithms, bounds, and powerPreprint

Wagner, F. (2016) · doi:10.7287/peerj.preprints.1962v2 · Cited by 2

Computational Aspects of DNA Copy Number Measurement

Lipson, D., & Zohar Yakhini, B. (2007) · Cited by 2

Molecular Harvesting of Proteins with Electroporation In Vivo Facilitates the Profiling of Spatial Differential Protein Expression in TumorsPreprint

Vitkin, E. I., Singh, A., Wise, J., Ben‐Elazar, S., Zohar Yakhini, B., & Golberg, A. (2022) · Research Square · doi:10.21203/rs.3.rs-1242718/v1 · Cited by 2

The Functional 3D Organization of Unicellular Genomes

Ben‐Elazar, S., Chor, B., & Yakhini, Z. (2019) · Scientific Reports · doi:10.1038/s41598-019-48798-7 · Cited by 1

Cytotoxic T-Lymphocyte–Associated Protein 4 Fused to a Modified Fragment of IgG1 Reduces Muscle Fiber Damage in a Model of Duchenne Muscular Dystrophy by Attenuating Proinflammatory Gene Expression in Myeloid Lineage Cells

Wehling‐Henricks, M., Kok, S.-Y., Gamboa, H., Kannan, P., Thomas, C., Flores, I., Welc, S. S., & Tidball, J. G. (2025) · American Journal Of Pathology · doi:10.1016/j.ajpath.2024.12.012 · Cited by 2

Curated and Structure-Based Drug–Target Interactions Improve Underprediction of Drug Side Effects in Network Models

Alidoost, M., Le, A., & Wilson, J. L. (2026) · Journal of Chemical Information and Modeling · doi:10.1021/acs.jcim.5c01822 · Cited by 1

Multiparametric MRI and imaging transcriptomics reveal molecular and cellular correlates of neurodegeneration in experimental Parkinsonism

Kim, E., Cash, D., Martins, D., Simmons, C., Heras‐Garvin, A., Klippel, E., Krismer, F., Ritter, L. M., & Stefanova, N. (2026) · npj Parkinson s Disease · doi:10.1038/s41531-026-01393-w · Cited by 3

Detecting MicroRNA Signatures Using Gene Expression Analysis

van Dongen, S., & Enright, A. J. (2013) · Springer eBooks · doi:10.1007/978-3-642-30574-0_9 · Cited by 1

Correlation of disorder between S. cerevisiae interacting proteins

Rue-Albrecht, K., Shields, D. C., & Khaldi, N. (2011) · Molecular BioSystems · doi:10.1039/c1mb05214d · Cited by 1

Searching for protein signatures using a multilevel alphabet

Hod, R., Kohen, R., & Mandel‐Gutfreund, Y. (2013) · Proteins Structure Function and Bioinformatics · doi:10.1002/prot.24261 · Cited by 1

Systematic Identification of TOR Downstream Effectors Using Random-Walks on the Yeast Interactome

Mohammadi, S., Grama, A. Y., & Subramaniam, S. (2013) · Purdue e-Pubs (Purdue University System) · Cited by 1

The multiplicity of alternative splicing decisions in Caenorhabditis elegans is linked to specific intronic regulatory motifs and minisatellites

Glauser, D. A. (2014) · BMC Genomics · doi:10.1186/1471-2164-15-364 · Cited by 1

Active motif finder – a bio-tool based on mutational structures in DNA sequences

Udayakumar, M., Shanmuga-priya, P., Hemavathi, K., & Seenivasagam, R. (2011) · Journal of Biomedical Research · doi:10.1016/s1674-8301(11)60059-6 · Cited by 1

De novo identification of cell type hierarchy with application to compound marker detection

Mohammadi, S., & Grama, A. Y. (2016) · ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM-BCB) · doi:10.1145/2975167.2975193 · Cited by 1

Inaccessible LCG Promoters Act as Safeguards to Restrict T Cell Development to Appropriate Notch Signaling Environments

Furuyama, S., Wu, Q. V., Varnum‐Finney, B., Sandstrom, R. S., Meuleman, W. R. A., Stamatoyannopoulos, J. A., & Bernstein, I. D. (2021) · Stem Cell Reports · doi:10.1016/j.stemcr.2021.02.017 · Cited by 1

Proteomic and transcriptomic characterisation of FIA10, a novel murine leukemic cell line that metastasizes into the brain

Just, U., BURTSCHER, H. J., Jeratsch, S., Fischer, M., Stocking, C., Preussner, J., Looso, M., Schwanbeck, R., Günther, S., Huss, R., et al. (2024) · PLoS ONE · doi:10.1371/journal.pone.0295641 · Cited by 1

A Cyclic Permutation Approach to Removing Spatial Dependency between Clustered Gene Ontology Terms

Rapoport, R., Greenberg, A., Zohar Yakhini, B., & Simon, I. (2024) · Biology · doi:10.3390/biology13030175 · Cited by 1

A universal system for boosting gene expression in eukaryotic cell-lines

Vaknin, I., Willinger, O., Mandl, J., Heuberger, H., Ben-Ami, D., Zeng, Y., Goldberg, S., Orenstein, Y., & Amit, R. (2024) · Nature Communications · doi:10.1038/s41467-024-46573-5 · Cited by 1

Genomic Anomaly Detection with Functional Data Analysis

Kanjilal, R., dos Santos, A. L. C., Arnab, S. P., DeGiorgio, M., & Assis, R. (2025) · Genes · doi:10.3390/genes16060710 · Cited by 1

Classification and Regression Analysis of Lung Tumors from Multi-level Gene Expression Data

Jeyananthan, P., & Niranjan, M. (2019) · International Joint Conference on Neural Networks (IJCNN) · doi:10.1109/ijcnn.2019.8852282 · Cited by 1

Computational Aspects of Metabolic Processes: Modeling, Analysis and Applications

Vitkin, E. I., & Yakhini, Z. (2018) · Cited by 1

Automated Hypothesis Generation to Identify Signals Relevant in the Development of Mammalian Cell and Tissue Bioprocesses, With Validation in a Retinal Culture System

Toms, D., Al-Ani, A., Sunba, S., Tong, Q. Y. (., Workentine, M. L., & Ungrin, M. (2020) · Frontiers in Bioengineering and Biotechnology · doi:10.3389/fbioe.2020.00534 · Cited by 1

resnetCox: A Residual Neural Network Method for High-throughput Survival Analysis

Zhang, W., Zhang, Y., & Huang, X. (2021) · International Conference on Bioinformatics and Biomedical Technology (ICBBT) · doi:10.1145/3473258.3473277 · Cited by 1

The complex role of transcription factor GAGA in germline death during Drosophila spermatogenesis: transcriptomic and bioinformatic analyses

Fedorova, S. A., Dorogova, N. V., Karagodin, D. A., Oshchepkov, D. Y., Brusentsov, I. I., Klimova, N. V., & Baricheva, E. M. (2023) · PeerJ · doi:10.7717/peerj.14063 · Cited by 1

Meta-Analysis of Genome-Wide Association Studies to Understand Disease Relatedness

Stephanie, N., Elaine, O., Weeks, C., Qiao, D., & Zhang, L. (2011) · InTech eBooks · doi:10.5772/24539 · Cited by 1

Large-scale Discovery of Regulatory Motifs Involved in Alternative Splicing

Zhao, S., Kim, J., & Heber, S. (2007) · IEEE International Conference on Bioinformatics and Bioengineering (BIBE) · doi:10.1109/bibe.2007.4375755 · Cited by 1

Modeling gene regulation and spatial organization of sequence based motifs

Supper, J., Kampe, C. A., Wanke, D., Berendzen, K. W., Harter, K., Bonneau, R., & Zell, A. (2008) · IEEE International Conference on Bioinformatics and Bioengineering (BIBE) · doi:10.1109/bibe.2008.4696696 · Cited by 1

Anthropogenic pollution effects on mitochondrial energy metabolism, gene expression, and genotypes of natural Fundulus heteroclitus populations

Du, X. (2016) · Cited by 1

BAX requires VDAC2 to mediate apoptosis and to limit tumor developmentPreprint

Chin, H. S., van Delft, M. F., Ninnis, R. L., Li, X., Tan, I. K. L., Reljić, B., Scicluna, K., Dagley, L. F., Sandow, J. J., Kelly, G. L., et al. (2018) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/266668 · Cited by 1

Desiccation sensitive seeds: understanding their evolution, genetics and physiology

Marques, A. C. S. S. (2018) · doi:10.18174/446523 · Cited by 1

Transcriptional Signatures of the Hierarchical Chronnectome Organization in the Human BrainPreprint

Liu, J., Xia, M., Wang, X., Liao, X., & Yong He, A. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/637942 · Cited by 1

Mutual Enrichment in Ranked Lists and the Statistical Assessment of Position Weight Matrix MotifsPreprint

Leibovich, L., & Zohar Yakhini, B. (2013) · arXiv (Cornell University) · doi:10.48550/arxiv.1307.7847 · Cited by 1

Secondary motifs enable concentration-dependent regulation by Rbfox family proteinsPreprint

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