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Saurav Mallik, Ph.D.

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Biography
University of Texas Health Science Center at Houston, Houston, Texas, USAPostdoc07/2019Biomedical Informatics
University of Miami Miller School of Medicine, Miami, Florida, USAPostdoc03/2018Biostatistics
Jadavpur University, Kolkata, IndiaPhD01/2017Computer Science & Engineering
Indian Statistical Institute, Kolkata, IndiaResearch Fellow01/2016Bioinformatics and data mining

Overview

Bibliographic
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Mallick K, Mallik S, Bandyopadhyay S, Chakraborty S. A Novel Graph Topology-Based GO-Similarity Measure for Signature Detection From Multi-Omics Data and its Application to Other Problems. IEEE/ACM Trans Comput Biol Bioinform. 2022 Mar-Apr; 19(2):773-785. PMID: 32866101.
    Citations: 2     Fields:    
  2. Gaur L, Bhandari M, Razdan T, Mallik S, Zhao Z. Explanation-Driven Deep Learning Model for Prediction of Brain Tumour Status Using MRI Image Data. Front Genet. 2022; 13:822666. PMID: 35360838.
    Citations:    
  3. Seth S, Mallik S, Bhadra T, Zhao Z. Dimensionality Reduction and Louvain Agglomerative Hierarchical Clustering for Cluster-Specified Frequent Biomarker Discovery in Single-Cell Sequencing Data. Front Genet. 2022; 13:828479. PMID: 35198011.
    Citations:    
  4. Bhadra T, Mallik S, Sohel A, Zhao Z. Unsupervised Feature Selection Using an Integrated Strategy of Hierarchical Clustering with Singular Value Decomposition: An Integrative Biomarker Discovery Method with Application to Acute Myeloid Leukemia. IEEE/ACM Trans Comput Biol Bioinform. 2021 Sep 08; PP. PMID: 34495838.
    Citations:    Fields:    
  5. Bora K, Bhuyan MK, Kasugai K, Mallik S, Zhao Z. Computational learning of features for automated colonic polyp classification. Sci Rep. 2021 02 23; 11(1):4347. PMID: 33623086.
    Citations: 2     Fields:    Translation:Humans
  6. Mandal M, Sahoo SK, Patra P, Mallik S, Zhao Z. In silico ranking of phenolics for therapeutic effectiveness on cancer stem cells. BMC Bioinformatics. 2020 Dec 28; 21(Suppl 21):499. PMID: 33371879.
    Citations: 1     Fields:    Translation:HumansCells
  7. Mallik S, Zhao Z. Detecting methylation signatures in neurodegenerative disease by density-based clustering of applications with reducing noise. Sci Rep. 2020 12 17; 10(1):22164. PMID: 33335112.
    Citations: 1     Fields:    Translation:HumansCells
  8. Mallik S, Seth S, Bhadra T, Zhao Z. A Linear Regression and Deep Learning Approach for Detecting Reliable Genetic Alterations in Cancer Using DNA Methylation and Gene Expression Data. Genes (Basel). 2020 08 12; 11(8). PMID: 32806782.
    Citations: 4     Fields:    Translation:HumansCells
  9. Li A, Jia P, Mallik S, Fei R, Yoshioka H, Suzuki A, Iwata J, Zhao Z. Critical microRNAs and regulatory motifs in cleft palate identified by a conserved miRNA-TF-gene network approach in humans and mice. Brief Bioinform. 2020 07 15; 21(4):1465-1478. PMID: 31589286.
    Citations: 8     Fields:    Translation:HumansAnimalsCells
  10. Mallik S, Qin G, Jia P, Zhao Z. Molecular signatures identified by integrating gene expression and methylation in non-seminoma and seminoma of testicular germ cell tumours. Epigenetics. 2021 Jan-Feb; 16(2):162-176. PMID: 32615059.
    Citations: 4     Fields:    Translation:HumansCells
  11. Li A, Mallik S, Luo H, Jia P, Lee DF, Zhao Z. H19, a Long Non-coding RNA, Mediates Transcription Factors and Target Genes through Interference of MicroRNAs in Pan-Cancer. Mol Ther Nucleic Acids. 2020 Sep 04; 21:180-191. PMID: 32585626.
    Citations: 8     
  12. Mallik S, Zhao Z. Graph- and rule-based learning algorithms: a comprehensive review of their applications for cancer type classification and prognosis using genomic data. Brief Bioinform. 2020 03 23; 21(2):368-394. PMID: 30649169.
    Citations: 8     Fields:    Translation:Humans
  13. Qin G, Mallik S, Mitra R, Li A, Jia P, Eischen CM, Zhao Z. MicroRNA and transcription factor co-regulatory networks and subtype classification of seminoma and non-seminoma in testicular germ cell tumors. Sci Rep. 2020 01 21; 10(1):852. PMID: 31965022.
    Citations: 10     Fields:    Translation:Humans
  14. Hait S, Mallik S, Basu S, Kundu S. Finding the generalized molecular principles of protein thermal stability. Proteins. 2020 06; 88(6):788-808. PMID: 31872464.
    Citations: 9     Fields:    Translation:Cells
  15. Mallik S, Odom GJ, Gao Z, Gomez L, Chen X, Wang L. An evaluation of supervised methods for identifying differentially methylated regions in Illumina methylation arrays. Brief Bioinform. 2019 11 27; 20(6):2224-2235. PMID: 30239597.
    Citations: 24     Fields:    Translation:HumansCells
  16. Mallik S, Zhao Z. Multi-Objective Optimized Fuzzy Clustering for Detecting Cell Clusters from Single-Cell Expression Profiles. Genes (Basel). 2019 08 13; 10(8). PMID: 31412637.
    Citations: 5     Fields:    Translation:Animals
  17. Saurav Mallik and Zhongming Zhao. Distance Based Knowledge Retrieval through Rule Mining for Complex Biomarker Recognition from Tri-Omics Profiles. International Journal of Computational Biology and Drug Design (ISSN online: 1756-0764). 2018; 2(12):105. View Publication.
  18. Saurav Mallik and Zhongming Zhao. Distance Based Knowledge Retrieval through Rule Mining for Complex Biomarker Recognition from Tri-Omics Profiles. International Journal of Computational Biology and Drug Design. 2018; 2(12):105. View Publication.
  19. Mallik S, Zhao Z. Identification of gene signatures from RNA-seq data using Pareto-optimal cluster algorithm. BMC Syst Biol. 2018 12 21; 12(Suppl 8):126. PMID: 30577846.
    Citations: 6     Fields:    
  20. Mallik S, Bandyopadhyay S. WeCoMXP: Weighted Connectivity Measure Integrating Co-Methylation, Co-Expression and Protein-Protein Interactions for Gene-Module Detection. IEEE/ACM Trans Comput Biol Bioinform. 2020 Mar-Apr; 17(2):690-703. PMID: 30183644.
    Citations: 1     Fields:    Translation:HumansCells
  21. Mallik S, Bhadra T, Mukherji A, Mallik S, Bhadra T, Mukherji A, Mallik S, Bhadra T, Mukherji A. DTFP-Growth: Dynamic Threshold-Based FP-Growth Rule Mining Algorithm Through Integrating Gene Expression, Methylation, and Protein-Protein Interaction Profiles. IEEE Trans Nanobioscience. 2018 04; 17(2):117-125. PMID: 29870335.
    Citations:    Fields:    Translation:HumansCells
  22. Maulik U, Sen S, Mallik S, Bandyopadhyay S. Detecting TF-miRNA-gene network based modules for 5hmC and 5mC brain samples: a intra- and inter-species case-study between human and rhesus. BMC Genet. 2018 01 22; 19(1):9. PMID: 29357837.
    Citations: 8     Fields:    Translation:HumansAnimalsCells
  23. Mallik S, Zhao Z. ConGEMs: Condensed Gene Co-Expression Module Discovery Through Rule-Based Clustering and Its Application to Carcinogenesis. Genes (Basel). 2017 Dec 28; 9(1). PMID: 29283433.
    Citations: 6     Fields:    
  24. Mallik S, Zhao Z. Towards integrated oncogenic marker recognition through mutual information-based statistically significant feature extraction: an association rule mining based study on cancer expression and methylation profiles. Quant Biol. 2017 Dec; 5(4):302-327. PMID: 30221015.
    Citations: 7     
  25. Tapas Bhadra*, Saurav Mallik*, and Sanghamitra Bandyopadhyay. Identification of Multi-View Gene Modules using Mutual Information Based Hypograph Mining. IEEE Transactions on Systems, Man, and Cybernetics: Systems. 2017; 6(49):1119-1130. View Publication.
  26. Mallik S, Bhadra T, Maulik U. Identifying Epigenetic Biomarkers using Maximal Relevance and Minimal Redundancy Based Feature Selection for Multi-Omics Data. IEEE Trans Nanobioscience. 2017 01; 16(1):3-10. PMID: 28092570.
    Citations: 12     Fields:    Translation:HumansCells
  27. Bandyopadhyay S, Mallik S. Integrating Multiple Data Sources for Combinatorial Marker Discovery: A Study in Tumorigenesis. IEEE/ACM Trans Comput Biol Bioinform. 2018 Mar-Apr; 15(2):673-687. PMID: 28114033.
    Citations: 9     Fields:    Translation:HumansCells
  28. Mallik S, Sen S, Maulik U. IDPT: Insights into potential intrinsically disordered proteins through transcriptomic analysis of genes for prostate carcinoma epigenetic data. Gene. 2016 Jul 15; 586(1):87-96. PMID: 27060408.
    Citations: 5     Fields:    Translation:HumansCells
  29. Mallik S, Maulik U. MiRNA-TF-gene network analysis through ranking of biomolecules for multi-informative uterine leiomyoma dataset. J Biomed Inform. 2015 Oct; 57:308-19. PMID: 26297985.
    Citations: 6     Fields:    Translation:Animals
  30. Aqil M, Mallik S, Bandyopadhyay S, Maulik U, Jameel S. Transcriptomic Analysis of mRNAs in Human Monocytic Cells Expressing the HIV-1 Nef Protein and Their Exosomes. Biomed Res Int. 2015; 2015:492395. PMID: 25961023.
    Citations: 15     Fields:    Translation:HumansCells
  31. Maulik U, Mallik S, Mukhopadhyay A, Bandyopadhyay S. Analyzing large gene expression and methylation data profiles using StatBicRM: statistical biclustering-based rule mining. PLoS One. 2015; 10(4):e0119448. PMID: 25830807.
    Citations: 12     Fields:    Translation:Cells
  32. Mallik S, Mukhopadhyay A, Maulik U. RANWAR: rank-based weighted association rule mining from gene expression and methylation data. IEEE Trans Nanobioscience. 2015 Jan; 14(1):59-66. PMID: 25265613.
    Citations: 9     Fields:    Translation:HumansCells
  33. Aqil M, Naqvi AR, Mallik S, Bandyopadhyay S, Maulik U, Jameel S. The HIV Nef protein modulates cellular and exosomal miRNA profiles in human monocytic cells. J Extracell Vesicles. 2014; 3. PMID: 24678387.
    Citations: 43     Fields:    
  34. Bandyopadhyay S, Mallik S, Mukhopadhyay A. A Survey and Comparative Study of Statistical Tests for Identifying Differential Expression from Microarray Data. IEEE/ACM Trans Comput Biol Bioinform. 2014 Jan-Feb; 11(1):95-115. PMID: 26355511.
    Citations: 28     Fields:    
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Funded by the NIH National Center for Advancing Translational Sciences through its Clinical and Translational Science Awards Program, grant number UL1TR002541.