Zobrazeno 1 - 10
of 232
pro vyhledávání: '"Sridhar Hannenhalli"'
Autor:
Manoj Kumar Kashyap, Hiren Karathia, Deepak Kumar, Roberto Vera Alvarez, Jose Vicente Forero-Forero, Eider Moreno, Juliana Velez Lujan, Carlos Ivan Amaya-Chanaga, Newton Medeiros Vidal, Zhe Yu, Emanuela M. Ghia, Paula A. Lengerke-Diaz, Daniel Achinko, Michael Y. Choi, Laura Z. Rassenti, Leonardo Mariño-Ramírez, Stephen M. Mount, Sridhar Hannenhalli, Thomas J. Kipps, Januario E. Castro
Publikováno v:
Molecular Therapy: Nucleic Acids, Vol 35, Iss 2, Pp 102202- (2024)
Splicing factor 3b subunit 1 (SF3B1) is the largest subunit and core component of the spliceosome. Inhibition of SF3B1 was associated with an increase in broad intron retention (IR) on most transcripts, suggesting that IR can be used as a marker of s
Externí odkaz:
https://doaj.org/article/adf59c81f6f94126a63b606708311ab5
Autor:
Piyush Agrawal, Navami Jain, Vishaka Gopalan, Annan Timon, Arashdeep Singh, Padma S. Rajagopal, Sridhar Hannenhalli
Publikováno v:
iScience, Vol 27, Iss 5, Pp 109752- (2024)
Summary: Breast cancers (BRCA) exhibit substantial transcriptional heterogeneity, posing a significant clinical challenge. The global transcriptional changes in a disease context, however, are likely mediated by few key genes which reflect disease et
Externí odkaz:
https://doaj.org/article/bc76f4e91ec44d41abab0ce488f6be49
Autor:
Jinho Kim, Hyunjung Kim, Min-Seok Lee, Heetak Lee, Yeon Jeong Kim, Woo Yong Lee, Seong Hyeon Yun, Hee Cheol Kim, Hye Kyung Hong, Sridhar Hannenhalli, Yong Beom Cho, Donghyun Park, Sun Shim Choi
Publikováno v:
Journal of Translational Medicine, Vol 21, Iss 1, Pp 1-15 (2023)
Abstract Background Previous investigations of transcriptomic signatures of cancer patient survival and post-therapy relapse have focused on tumor tissue. In contrast, here we show that in colorectal cancer (CRC) transcriptomes derived from normal ti
Externí odkaz:
https://doaj.org/article/8e84462bd82d4cb0b0c61ffa12e5ebda
Publikováno v:
Heliyon, Vol 9, Iss 8, Pp e18211- (2023)
Transcription factors (TFs) and their binding sites have evolved to interact cooperatively or competitively with each other. Here we examine in detail, across multiple cell lines, such cooperation or competition among TFs both in sequential and spati
Externí odkaz:
https://doaj.org/article/25837509f2ca413ab5edea66ed705e52
Autor:
Arashdeep Singh, Arati Rajeevan, Vishaka Gopalan, Piyush Agrawal, Chi-Ping Day, Sridhar Hannenhalli
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-18 (2022)
The molecular mechanisms underlying the overlap between oncogenic and embryonic development remain to be explored. Here, the authors use temporal transcriptomic data during development in multiple human organs and suggest the involvement of alternati
Externí odkaz:
https://doaj.org/article/200a32203bd7440fb9799425cc49aa44
Publikováno v:
STAR Protocols, Vol 4, Iss 2, Pp 102297- (2023)
Summary: Single-cell sequencing is a powerful technology to understand the heterogeneity of clinical biospecimens. Here, we present a protocol for obtaining single-cell suspension from neurofibromatosis type 1-associated nerve sheath tumors for trans
Externí odkaz:
https://doaj.org/article/c5a0401d492e45cfb046197bdd174375
Autor:
Bharati Mehani, Saleembhasha Asanigari, Hye-Jung Chung, Karen Dazelle, Arashdeep Singh, Sridhar Hannenhalli, Kenneth Aldape
Publikováno v:
Acta Neuropathologica Communications, Vol 10, Iss 1, Pp 1-18 (2022)
Abstract The tumor micro-environment (TME) plays an important role in various cancers, including gliomas. We estimated immune cell type-specific gene expression profiles in 3 large clinically annotated glioma datasets using CIBERSORTx and LM22/LM10 b
Externí odkaz:
https://doaj.org/article/bf7c9a29502f42cb8f495ae1d1b9ea52
Publikováno v:
iScience, Vol 25, Iss 9, Pp 104962- (2022)
Summary: Our understanding of miRNA activity at cellular resolution is thwarted by the inability of standard scRNA-seq protocols to capture miRNAs. We introduce a novel tool, miRSCAPE, to infer miRNA expression in a sample from its RNA-seq profile. W
Externí odkaz:
https://doaj.org/article/6ef80d46915747b89f0a09407a398b1b
Autor:
Jinho Kim, Hyunjung Kim, Min‑Seok Lee, Heetak Lee, Yeon Jeong Kim, Woo Yong Lee, Seong Hyeon Yun, Hee Cheol Kim, Hye Kyung Hong, Sridhar Hannenhalli, Yong Beom Cho, Donghyun Park, Sun Shim Choi
Publikováno v:
Journal of Translational Medicine, Vol 21, Iss 1, Pp 1-1 (2023)
Externí odkaz:
https://doaj.org/article/4d58f45497cf4e3a9c10e3fff4c2719e
Publikováno v:
Frontiers in Immunology, Vol 13 (2022)
Most transcriptomic studies of SARS-CoV-2 infection have focused on differentially expressed genes, which do not necessarily reveal the genes mediating the transcriptomic changes. In contrast, exploiting curated biological network, our PathExt tool i
Externí odkaz:
https://doaj.org/article/a4dcfde205cd496da9aa054e8034ae34