Hirak Sarkar
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Explore the profile of Hirak Sarkar including associated specialties, affiliations and a list of published articles.
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20
Citations
360
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Recent Articles
1.
Zheng H, Sarkar H, Raphael B
bioRxiv
. 2025 Mar;
PMID: 40027720
Spatially resolved transcriptomics (SRT) technologies measure gene expression across thousands of spatial locations within a tissue slice. Multiple SRT technologies are currently available and others are in active development with...
2.
Chitra U, Arnold B, Sarkar H, Sanno K, Ma C, Lopez-Darwin S, et al.
Nat Methods
. 2025 Jan;
22(2):298-309.
PMID: 39849132
Spatially resolved transcriptomics technologies provide high-throughput measurements of gene expression in a tissue slice, but the sparsity of these data complicates analysis of spatial gene expression patterns. We address this...
3.
Embaie B, Sarkar H, Alchahin A, Alchahin A, Otte J, Olsen T, et al.
Cancer Res
. 2025 Jan;
85(6):1015-1034.
PMID: 39808065
Transgenic mice and organoid models, such as three-dimensional tumoroid cultures, have emerged as powerful tools for investigating cancer development and targeted therapies. Yet, the extent to which these preclinical models...
4.
Sarkar H, Lee E, Lopez-Darwin S, Kang Y
Genes Dev
. 2024 Nov;
39(1-2):64-85.
PMID: 39496456
Cancer stem cells (CSCs) often exhibit stem-like attributes that depend on an intricate stemness-promoting cellular ecosystem within their niche. The interplay between CSCs and their niche has been implicated in...
5.
Sarkar H, Chitra U, Gold J, Raphael B
Bioinformatics
. 2024 Jun;
40(Suppl 1):i481-i489.
PMID: 38940134
Motivation: Cell-cell interactions (CCIs) consist of cells exchanging signals with themselves and neighboring cells by expressing ligand and receptor molecules and play a key role in cellular development, tissue homeostasis,...
6.
Tiberi S, Meili J, Cai P, Soneson C, He D, Sarkar H, et al.
Biostatistics
. 2024 Jun;
25(4):1079-1093.
PMID: 38887902
Although transcriptomics data is typically used to analyze mature spliced mRNA, recent attention has focused on jointly investigating spliced and unspliced (or precursor-) mRNA, which can be used to study...
7.
Mei S, Alchahin A, Embaie B, Gavriliuc I, Verhoeven B, Zhao T, et al.
JCI Insight
. 2024 Feb;
9(6).
PMID: 38358826
Neuroblastoma is an aggressive pediatric cancer with a high rate of metastasis to the BM. Despite intensive treatments including high-dose chemotherapy, the overall survival rate for children with metastatic neuroblastoma...
8.
Mei S, Alchahin A, Tsea I, Kfoury Y, Hirz T, Jeffries N, et al.
Genome Med
. 2024 Jan;
16(1):1.
PMID: 38281962
Background: Despite therapeutic advances, once a cancer has metastasized to the bone, it represents a highly morbid and lethal disease. One third of patients with advanced clear cell renal cell...
9.
Terekhanova N, Karpova A, Liang W, Strzalkowski A, Chen S, Li Y, et al.
Nature
. 2023 Nov;
623(7986):432-441.
PMID: 37914932
Chromatin accessibility is essential in regulating gene expression and cellular identity, and alterations in accessibility have been implicated in driving cancer initiation, progression and metastasis. Although the genetic contributions to...
10.
Chitra U, Arnold B, Sarkar H, Ma C, Lopez-Darwin S, Sanno K, et al.
bioRxiv
. 2023 Oct;
PMID: 37873258
Spatially resolved transcriptomics technologies provide high-throughput measurements of gene expression in a tissue slice, but the sparsity of this data complicates the analysis of spatial gene expression patterns such as...