Himel Mallick
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Explore the profile of Himel Mallick including associated specialties, affiliations and a list of published articles.
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3789
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Recent Articles
1.
Nickols W, Kuntz T, Shen J, Maharjan S, Mallick H, Franzosa E, et al.
bioRxiv
. 2024 Dec;
PMID: 39713460
A key question in microbial community analysis is determining which microbial features are associated with community properties such as environmental or health phenotypes. This statistical task is impeded by characteristics...
2.
Mallick H, Porwal A, Saha S, Basak P, Svetnik V, Paul E
Stat Med
. 2023 Dec;
43(5):983-1002.
PMID: 38146838
With the growing commonality of multi-omics datasets, there is now increasing evidence that integrated omics profiles lead to more efficient discovery of clinically actionable biomarkers that enable better disease outcome...
3.
Ma S, Shungin D, Mallick H, Schirmer M, Nguyen L, Kolde R, et al.
Genome Biol
. 2022 Oct;
23(1):208.
PMID: 36192803
Microbiome studies of inflammatory bowel diseases (IBD) have achieved a scale for meta-analysis of dysbioses among populations. To enable microbial community meta-analyses generally, we develop MMUPHin for normalization, statistical meta-analysis,...
4.
Mallick H, An L, Chen M, Wang P, Zhao N
Front Genet
. 2022 Jun;
13:920191.
PMID: 35734426
No abstract available.
5.
Mallick H, Chatterjee S, Chowdhury S, Chatterjee S, Rahnavard A, Hicks S
Stat Med
. 2022 Jun;
41(18):3492-3510.
PMID: 35656596
The performance of computational methods and software to identify differentially expressed features in single-cell RNA-sequencing (scRNA-seq) has been shown to be influenced by several factors, including the choice of the...
6.
Mallick H, Rahnavard A, McIver L, Ma S, Zhang Y, Nguyen L, et al.
PLoS Comput Biol
. 2021 Nov;
17(11):e1009442.
PMID: 34784344
It is challenging to associate features such as human health outcomes, diet, environmental conditions, or other metadata to microbial community measurements, due in part to their quantitative properties. Microbiome multi-omics...
7.
Ma S, Ren B, Mallick H, Moon Y, Schwager E, Maharjan S, et al.
PLoS Comput Biol
. 2021 Sep;
17(9):e1008913.
PMID: 34516542
Many methods have been developed for statistical analysis of microbial community profiles, but due to the complex nature of typical microbiome measurements (e.g. sparsity, zero-inflation, non-independence, and compositionality) and of...
8.
Mallick H, Alhamzawi R, Paul E, Svetnik V
Stat Med
. 2021 Jun;
40(22):4830-4849.
PMID: 34126655
A reciprocal LASSO (rLASSO) regularization employs a decreasing penalty function as opposed to conventional penalization approaches that use increasing penalties on the coefficients, leading to stronger parsimony and superior model...
9.
Rahnavard A, Chatterjee S, Sayoldin B, Crandall K, Tekola-Ayele F, Mallick H
Bioinformatics
. 2021 May;
37(20):3588-3594.
PMID: 33974004
Motivation: The discovery of biologically interpretable and clinically actionable communities in heterogeneous omics data is a necessary first step toward deriving mechanistic insights into complex biological phenomena. Here, we present...
10.