Hani Choudhry
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View article: Three-dimensional genome landscape of primary human cancers
Three-dimensional genome landscape of primary human cancers Open
Genome conformation underlies transcriptional regulation by distal enhancers, and genomic rearrangements in cancer can alter critical regulatory interactions. Here we profiled the three-dimensional genome architecture and enhancer connecto…
View article: Silaproline-bearing nirmatrelvir derivatives are potent inhibitors of the SARS-CoV-2 main protease highlighting the value of silicon-derivatives in structure-activity-relationship studies
Silaproline-bearing nirmatrelvir derivatives are potent inhibitors of the SARS-CoV-2 main protease highlighting the value of silicon-derivatives in structure-activity-relationship studies Open
Nirmatrelvir is a substrate-related inhibitor of the severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) main protease (Mpro) that is clinically used in combination with ritonavir to treat COVID-19. Derivatives of nirmatrelvir, mo…
View article: Factors and outcomes leading to postoperative emergency department visits after ureteroneocystostomy
Factors and outcomes leading to postoperative emergency department visits after ureteroneocystostomy Open
BACKGROUND Ureteroneocystostomy (UNC) is considered the gold standard for pediatric vesicoureteral reflux (VUR) treatment. While UNC lowers the likelihood of needing additional VUR procedures within 12 months, patients also have high 30-da…
View article: Conserved patterns of transcriptional dysregulation, heterogeneity, and cell states in clear cell kidney cancer
Conserved patterns of transcriptional dysregulation, heterogeneity, and cell states in clear cell kidney cancer Open
Clear cell kidney cancers are characterized both by conserved oncogenic driver events and by marked intratumor genetic and phenotypic heterogeneity, which help drive tumor progression, metastasis, and resistance to therapy. How these are r…
View article: C6-Alkoxy substituted penicillins are potent non-covalently binding inhibitors of the SARS-CoV-2 main protease
C6-Alkoxy substituted penicillins are potent non-covalently binding inhibitors of the SARS-CoV-2 main protease Open
Introduction of a C6-alkoxy group on the penicillin scaffold can alter the mechanism of SARS-CoV-2 main protease (M pro ) inhibition.
View article: Genome-wide association neural networks identify genes linked to family history of Alzheimer’s disease
Genome-wide association neural networks identify genes linked to family history of Alzheimer’s disease Open
Augmenting traditional genome-wide association studies (GWAS) with advanced machine learning algorithms can allow the detection of novel signals in available cohorts. We introduce “genome-wide association neural networks (GWANN)” a novel a…
View article: Single-cell chromatin accessibility reveals malignant regulatory programs in primary human cancers
Single-cell chromatin accessibility reveals malignant regulatory programs in primary human cancers Open
To identify cancer-associated gene regulatory changes, we generated single-cell chromatin accessibility landscapes across eight tumor types as part of The Cancer Genome Atlas. Tumor chromatin accessibility is strongly influenced by copy nu…
View article: 801 Simultaneous Resection for Metastatic Colorectal Cancer – What Should We Tell Our Patients to Expect?
801 Simultaneous Resection for Metastatic Colorectal Cancer – What Should We Tell Our Patients to Expect? Open
Aim Almost half of colorectal patients will advance to liver metastasis during the course of their disease. The aim of the present study was to evaluate outcomes across different treatment arms in patients undergoing synchronous resection …
View article: Virtual screening and site-directed mutagenesis-derived aptamers for precise <i>Salmonella typhimurium</i> prediction: emphasizing OmpD targeting and G-quadruplex stability
Virtual screening and site-directed mutagenesis-derived aptamers for precise <i>Salmonella typhimurium</i> prediction: emphasizing OmpD targeting and G-quadruplex stability Open
The efficient detection of the foodborne pathogen Salmonella typhimurium has historically been hampered by the constraints of traditional methods, characterized by protracted culture periods and intricate DNA extraction processes for PCR. …
View article: A highly sensitive and specific Gold Electrode-Based electrochemical immunosensor for rapid On-Site detection of Salmonella enterica
A highly sensitive and specific Gold Electrode-Based electrochemical immunosensor for rapid On-Site detection of Salmonella enterica Open
This study introduces an advanced electrochemical-based biosensor for detecting Salmonella enterica serovar typhimurium (S. typhimurium). The design involves immobilizing anti-Salmonella antibodies on a gold (Au) electrode using self-assem…
View article: Investigating <i>Sandoricum koetjape</i> leaf extracts for tyrosinase inhibition: Flavonoid profiles and mechanisms
Investigating <i>Sandoricum koetjape</i> leaf extracts for tyrosinase inhibition: Flavonoid profiles and mechanisms Open
This study investigates the potential of flavonoid compounds from Sandoricum koetjape leaf extracts as tyrosinase inhibitors, using in vitro and in silico methodologies. Tyrosinase is crucial for melanin synthesis, and its excessive activi…
View article: Thiophene-fused γ-lactams inhibit the SARS-CoV-2 main protease <i>via</i> reversible covalent acylation
Thiophene-fused γ-lactams inhibit the SARS-CoV-2 main protease <i>via</i> reversible covalent acylation Open
Thiophene-fused γ-lactams are reversible covalent inhibitors of the SARS-CoV-2 main protease, a nucleophilic cysteine enzyme. γ-Lactams can inhibit nucleophilic cysteine enzymes by S -acylation as well as nucleophilic serine enzymes by O -…
View article: NAT10, an RNA Cytidine Acetyltransferase, Regulates Ferroptosis in Cancer Cells
NAT10, an RNA Cytidine Acetyltransferase, Regulates Ferroptosis in Cancer Cells Open
Recently, we reported that N-acetyltransferase 10 (NAT10) regulates fatty acid metabolism through ac4C-dependent RNA modification of key genes in cancer cells. During this work, we noticed ferroptosis as one of the most negatively enriched…
View article: Anti sickling effect of Senna alexandrina, Aerva javanica , and Ficus palmata extracts on sickle cell disorder
Anti sickling effect of Senna alexandrina, Aerva javanica , and Ficus palmata extracts on sickle cell disorder Open
Purpose: To investigate the anti-sickling activity of Senna alexandrina, Aerva javanica, and Ficus palmate extracts. Methods: The leaves were extracted with water and methanol. The anti-sickling effect of extracts was determined using bloo…
View article: Data from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer
Data from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer Open
Hyperactivated AKT kinase due to loss of its negative regulator PTEN influences many aspects of cancer biology, including chromatin. AKT primarily regulates acetyl-CoA production and phosphorylates many histone-modulating enzymes, resultin…
View article: Figure S1 from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer
Figure S1 from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer Open
Supplementary Figure S1: showing H&E staining of PTEN wild type (A) and knock out mice treated with vehicle (B) and perifosine (C).
View article: Data from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer
Data from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer Open
Hyperactivated AKT kinase due to loss of its negative regulator PTEN influences many aspects of cancer biology, including chromatin. AKT primarily regulates acetyl-CoA production and phosphorylates many histone-modulating enzymes, resultin…
View article: Figure S1 from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer
Figure S1 from AKT Inhibition Modulates H3K4 Demethylase Levels in PTEN-Null Prostate Cancer Open
Supplementary Figure S1: showing H&E staining of PTEN wild type (A) and knock out mice treated with vehicle (B) and perifosine (C).
View article: Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer
Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer Open
Purpose: To analyze the role and translational potential for hypermethylation of CpG islands and shores in the regulation of small RNAs within urothelial cell carcinoma (UCC). To examine microRNAs (miR) and mirtrons, a new class of RNA loc…
View article: Supplementary Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer
Supplementary Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer Open
Supplementary Figures S1-S8.
View article: Supplementary Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer
Supplementary Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer Open
Supplementary Figures S1-S8.
View article: Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer
Data from Hypermethylation of CpG Islands and Shores around Specific MicroRNAs and Mirtrons Is Associated with the Phenotype and Presence of Bladder Cancer Open
Purpose: To analyze the role and translational potential for hypermethylation of CpG islands and shores in the regulation of small RNAs within urothelial cell carcinoma (UCC). To examine microRNAs (miR) and mirtrons, a new class of RNA loc…
View article: Reversal of Azole Resistance in Candida albicans by Human Neutrophil Peptide
Reversal of Azole Resistance in Candida albicans by Human Neutrophil Peptide Open
With the spread of AIDS and the increase in immunocompromised patients, multi-drug-resistant fungal infections have become a serious concern among clinicians, predominantly in the developing world. Therefore, developing novel strategies an…
View article: Multi-level interaction between HIF and AHR transcriptional pathways in kidney carcinoma
Multi-level interaction between HIF and AHR transcriptional pathways in kidney carcinoma Open
Hypoxia-inducible factor (HIF) and aryl hydrocarbon receptor (AHR) are members of the bHLH-PAS family of transcription factors that underpin cellular responses to oxygen and to endogenous and exogenous ligands, respectively, and have centr…
View article: BTYNB, an inhibitor of RNA binding protein IGF2BP1 reduces proliferation and induces differentiation of leukemic cancer cells
BTYNB, an inhibitor of RNA binding protein IGF2BP1 reduces proliferation and induces differentiation of leukemic cancer cells Open
Leukemia is a group of diseases characterized by altered growth and differentiation of lymphoid or myeloid progenitors of blood. The existence of specific clusters of cells with stemness-like characteristics like differentiation, self-rene…
View article: Direct Identification of Label-Free Gram-Negative Bacteria with Bioreceptor-Free Concentric Interdigitated Electrodes
Direct Identification of Label-Free Gram-Negative Bacteria with Bioreceptor-Free Concentric Interdigitated Electrodes Open
This investigation demonstrates an electrochemical method for directly identifying unlabeled Gram-negative bacteria without other additives or labeling agents. After incubation, the bacterial cell surface is linked to the interdigitated el…
View article: Metformin Anti-Tumor Effect and Metabolic Reprogramming in Breast Cancer Cells
Metformin Anti-Tumor Effect and Metabolic Reprogramming in Breast Cancer Cells Open
Evidence suggests that metformin, an antidiabetic drug, possesses antitumor effects in breast cancer.Although metformin is known to induce metabolic reprogramming, a detailed description of the metabolites altered by metformin in breast ca…
View article: Early and accurate detection of melanoma skin cancer using hybrid level set approach
Early and accurate detection of melanoma skin cancer using hybrid level set approach Open
Digital dermoscopy is used to identify cancer in skin lesions, and sun exposure is one of the leading causes of melanoma. It is crucial to distinguish between healthy skin and malignant lesions when using computerised lesion detection and …