Acute myocardial infarction (AMI) seriously threatens human life. In this study we aimed to systemically analyze the function of key gene modules in human platelets in AMI. We used weighted gene co-expression network analysis (WGCNA) to construct a co-expression module, and analyzed the relationship between potential modules and clinical characteristics based on platelet RNA-seq RPKM count reads of 16 ST-segment elevation myocardial infarction (STEMI) patients and 16 non-STEMI (NSTEMI) patients provided by the GEO database.

Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis were performed with the DAVID tool. Hub genes were calculated by the Cytohubba package. A total of 3653 genes was selected to construct the co-expression modules.

A significant correlation between BMI and the module with color of sky-blue in STEMI. In NSTEMI, there was a significant correlation between the sky blue module and CAD, the Salmon module and HT, and the Cyan module and HT. In STEMI, the Hub genes were mainly enriched in functions related to cell membrane signal transduction including Aqp1, Armcx1, Gsta4, Hist3h2a and Il17re.

In NSTEMI, the Hub genes are related mainly to energy metabolism in the sky-blue module including Olr1, Nap1l3, Gfer, Dohh, Crispld1 and Ccdc8b; they are mainly related to extracellular space and calcium binding in the Cyan module, including Clec12b, Chd4, Asgr1, Armcx4, Chid1 and Alkbh7.

The hub genes in the Salmon module include Ell3, Aldh1b1, Cavin4, Cabp4, Eif1ay and Dus3l. Our results provide a framework for co-expression gene modules in STEMI and NSTEMI patients, and identify key targets as biomarkers for patients with different subtypes of AMI.

Reproducibility and sensitivity of 36 methods to quantify the SARS-CoV-2 genetic signal in raw wastewater: findings from an interlaboratory methods evaluation in the U.S

In response to COVID-19, the international water community rapidly developed methods to quantify the SARS-CoV-2 genetic signal in untreated wastewater. Wastewater surveillance using such methods has the potential to complement clinical testing in assessing community health. This interlaboratory assessment evaluated the reproducibility and sensitivity of 36 standard operating procedures (SOPs), divided into eight method groups based on sample concentration approach and whether solids were removed.

Two raw wastewater samples were collected in August 2020, amended with a matrix spike (betacoronavirus OC43), and distributed to 32 laboratories across the U.S. Replicate samples analyzed in accordance with the project’s quality assurance plan showed high reproducibility across the 36 SOPs: 80% of the recovery-corrected results fell within a band of ±1.15 log₁₀ genome copies per L with higher reproducibility observed within a single SOP (standard deviation of 0.13 log₁₀).

The inclusion of a solids removal step and the selection of a concentration method did not show a clear, systematic impact on the recovery-corrected results. Other methodological variations (e.g., pasteurization, primer set selection, and use of RT-qPCR or RT-dPCR platforms) generally resulted in small differences compared to other sources of variability.

These findings suggest that a variety of methods are capable of producing reproducible results, though the same SOP or laboratory should be selected to track SARS-CoV-2 trends at a given facility. The methods showed a 7 log₁₀ range of recovery efficiency and limit of detection highlighting the importance of recovery correction and the need to consider method sensitivity when selecting methods for wastewater surveillance.

ExTraMapper: Exon- and Transcript-level mappings for orthologous gene pairs

Motivation: Access to large-scale genomics and transcriptomics data from various tissues and cell lines allowed the discovery of wide-spread alternative splicing events and alternative promoter usage in mammalians. Between human and mouse, gene-level orthology is currently present for nearly 16k protein-coding genes spanning a diverse repertoire of over 200k total transcript isoforms.

Results: Here, we describe a novel method, ExTraMapper, which leverages sequence conservation between exons of a pair of organisms and identifies a fine-scale orthology mapping at the exon and then transcript level. ExTraMapper identifies more than 350k exon mappings, as well as 30k transcript mappings between human and mouse using only sequence and gene annotation information.

We demonstrate that ExTraMapper identifies a larger number of exon and transcript mappings compared to previous methods. Further, it identifies exon fusions, splits, and losses due to splice site mutations, and finds mappings between microexons that are previously missed.

By reanalysis of RNA-seq data from 13 matched human and mouse tissues, we show that ExTraMapper improves the correlation of transcript-specific expression levels suggesting a more accurate mapping of human and mouse transcripts. We also applied the method to detect conserved exon and transcript pairs between human and rhesus macaque genomes to highlight the point that ExTraMapper is applicable to any pair of organisms that have orthologous gene pairs.

Availability: The source code and the results are available

Unconventional viral gene expression mechanisms as therapeutic targets

Unlike the human genome that comprises mostly noncoding and regulatory sequences, viruses have evolved under the constraints of maintaining a small genome size while expanding the efficiency of their coding and regulatory sequences.

As a result, viruses use strategies of transcription and translation in which one or more of the steps in the conventional gene-protein production line are altered. These alternative strategies of viral gene expression (also known as gene recoding) can be uniquely brought about by dedicated viral enzymes or by co-opting host factors (known as host dependencies).

Targeting these unique enzymatic activities and host factors exposes vulnerabilities of a virus and provides a paradigm for the design of novel antiviral therapies. In this Review, we describe the types and mechanisms of unconventional gene and protein expression in viruses, and provide a perspective on how future basic mechanistic work could inform translational efforts that are aimed at viral eradication.

 

GCNF Antibody
DF13790	Affbiotech	100ul	EUR 420

GCNF Antibody
DF13790-100ul	Affinity Biosciences	100ul	EUR 280

GCNF Antibody
DF13790-200ul	Affinity Biosciences	200ul	EUR 350

anti- GCNF antibody
FNab03390	FN Test	100µg	EUR 606.3
Description: Antibody raised against GCNF

GCNF Conjugated Antibody
C48479	SAB	100ul	EUR 476.4

Germ Cell Nuclear Factor (GCNF) Antibody
20-abx131389	Abbexa	Ask for price Ask for price Ask for price Ask for price Ask for price	100 ug 10 ug 1 mg 200 ug 50 ug

Germ Cell Nuclear Factor (GCNF) Antibody
abx131389-02mg	Abbexa	0.2 mg	EUR 337.5

Germ Cell Nuclear Factor (GCNF) Antibody
abx131389-05mg	Abbexa	0.5 mg	EUR 750

Germ Cell Nuclear Factor (GCNF) Antibody
abx131389-100g	Abbexa	100 µg	EUR 275

GCNF
E8EM1710-12	EnoGene	100ul	EUR 275
Description: Available in various conjugation types.

Polyclonal NR6A1 / GCNF Antibody (Ligand-binding Domain)
AMM06820G	Leading Biology	0.05mg	EUR 580.8
Description: A polyclonal antibody raised in Rabbit that recognizes and binds to Human NR6A1 / GCNF (Ligand-binding Domain). This antibody is tested and proven to work in the following applications:

GCNF (anti human nuclear recepter antibody, clone# H7921)
PP-H7921-00	Sceti	0.1mg/100uL	EUR 747.6
Description: The GCNF (anti human nuclear recepter antibody, clone# H7921) is available in Europe and for worldwide shipping via Gentaur.

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody
CAU24184-100ul	Biomatik Corporation	100ul	EUR 235.2

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody
CAU24184-200ul	Biomatik Corporation	200ul	EUR 294

Polyclonal Antibody to Germ Cell Nuclear Factor (GCNF)
PAC509Hu01	Cloud-Clone	100ul	EUR 245

GCNF Mouse mAb
E2220732	EnoGene	100ul	EUR 225
Description: Available in various conjugation types.

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human)
4-PAC509Hu01	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF)

NR6A1 / GCNF Rabbit Polyclonal (Ligand-binding Domain) Antibody
TA317092	Origene Technologies GmbH	50 µg	Ask for price

NR6A1 / GCNF Rabbit Polyclonal (Ligand-binding Domain) Antibody
TA317093	Origene Technologies GmbH	50 µg	Ask for price

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human), PE
4-PAC509Hu01-PE	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF). This antibody is labeled with PE.

GCNF (NR6A1) (N-term) rabbit polyclonal antibody, Aff - Purified
AP52935PU-N	Origene Technologies GmbH	400 µl	Ask for price

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human), APC
4-PAC509Hu01-APC	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF). This antibody is labeled with APC.

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human), Cy3
4-PAC509Hu01-Cy3	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF). This antibody is labeled with Cy3.

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human), HRP
4-PAC509Hu01-HRP	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF). This antibody is labeled with HRP.

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human), FITC
4-PAC509Hu01-FITC	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF). This antibody is labeled with FITC.

GCNF ELISA KIT|Human
EF009808	Lifescience Market	96 Tests	EUR 826.8

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human), Biotinylated
4-PAC509Hu01-Biotin	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF). This antibody is labeled with Biotin.

Germ Cell Nuclear Factor (GCNF) Polyclonal Antibody (Human), APC-Cy7
4-PAC509Hu01-APC-Cy7	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price	100ul 10ml 1ml 200ul 20ul
Description: A Rabbit polyclonal antibody against Human Germ Cell Nuclear Factor (GCNF). This antibody is labeled with APC-Cy7.

Recombinant Germ Cell Nuclear Factor (GCNF)
RPC509Hu01	Cloud-Clone	10ug	EUR 164

Recombinant Germ Cell Nuclear Factor (GCNF)
4-RPC509Hu01	Cloud-Clone	Ask for price Ask for price Ask for price Ask for price Ask for price Ask for price Ask for price	100 ug 10ug 1 mg 200 ug 500 ug 50ug 5 mg
Description: Recombinant Human Germ Cell Nuclear Factor expressed in: E.coli

Recombinant Germ Cell Nuclear Factor (GCNF)
RPU51805-100ug	Biomatik Corporation	100ug	EUR 504.9

Recombinant Germ Cell Nuclear Factor (GCNF)
RPU51805-1mg	Biomatik Corporation	1mg	EUR 2238.6

Recombinant Germ Cell Nuclear Factor (GCNF)
RPU51805-50ug	Biomatik Corporation	50ug	EUR 405.9

Anti-GCNF antibody
PAab03390	Lifescience Market	100 ug	EUR 426

Human Germ Cell Nuclear Factor (GCNF) Protein
20-abx650014	Abbexa	Ask for price Ask for price Ask for price Ask for price Ask for price	100 ug 10 ug 1 mg 200 ug 50 ug

Human Germ Cell Nuclear Factor (GCNF) Protein
abx650014-100g	Abbexa	100 µg	EUR 212.5

Human Germ Cell Nuclear Factor (GCNF) Protein
abx650014-200g	Abbexa	200 µg	EUR 375

anti-GCNF
YF-PA11986	Abfrontier	50 ul	EUR 435.6
Description: Mouse polyclonal to GCNF

anti-GCNF
YF-PA11987	Abfrontier	50 ug	EUR 435.6
Description: Mouse polyclonal to GCNF

anti-GCNF
YF-PA11988	Abfrontier	100 ul	EUR 483.6
Description: Rabbit polyclonal to GCNF

anti-GCNF
YF-PA11989	Abfrontier	100 ug	EUR 483.6
Description: Rabbit polyclonal to GCNF

anti-GCNF
YF-PA23769	Abfrontier	50 ul	EUR 400.8
Description: Mouse polyclonal to GCNF

Anti-KAT2A / GCN5 (3F8)
YF-MA10372	Abfrontier	100 ug	EUR 435.6
Description: Mouse monoclonal to KAT2A / GCN5

Anti-KAT2A / GCN5 (4F9)
YF-MA13213	Abfrontier	100 ug	EUR 435.6
Description: Mouse monoclonal to KAT2A / GCN5

pGL4.19-TA-GCNF response element Plasmid
PVTB00989-2a	Lifescience Market	2 ug	EUR 427.2

GCN5 (GCN5) Antibody
abx233389-100ug	Abbexa	100 ug	EUR 610.8

GCN5 (GCN5) Antibody
20-abx007509	Abbexa	Ask for price Ask for price Ask for price	100 ul 200 ul 30 ul

GCN5 Antibody
F40091-0.08ML	NSJ Bioreagents	0.08 ml	EUR 140.25
Description: GCN5 functions as a histone acetyltransferase (HAT) to promote transcriptional activation. Acetylation of histones gives a specific tag for epigenetic transcription activation. This protein has significant histone acetyltransferase activity with core histones, but not with nucleosome core particles.

GCN5 Antibody
F40091-0.4ML	NSJ Bioreagents	0.4 ml	EUR 322.15
Description: GCN5 functions as a histone acetyltransferase (HAT) to promote transcriptional activation. Acetylation of histones gives a specific tag for epigenetic transcription activation. This protein has significant histone acetyltransferase activity with core histones, but not with nucleosome core particles.

GCN5 Antibody
F41987-0.08ML	NSJ Bioreagents	0.08 ml	EUR 140.25
Description: KAT2A, or GCN5, is a histone acetyltransferase (HAT) that functions primarily as a transcriptional activator. It also functions as a repressor of NF-kappa-B by promoting ubiquitination of the NF-kappa-B subunit RELA in a HAT-independent manner.

GCN5 Antibody
F41987-0.4ML	NSJ Bioreagents	0.4 ml	EUR 322.15
Description: KAT2A, or GCN5, is a histone acetyltransferase (HAT) that functions primarily as a transcriptional activator. It also functions as a repressor of NF-kappa-B by promoting ubiquitination of the NF-kappa-B subunit RELA in a HAT-independent manner.

GCN2 Antibody
F50133-0.4ML	NSJ Bioreagents	0.4 ml	EUR 322.15
Description: GCN2 (EIF2AK4) belongs to a family of kinases that phosphorylate the alpha subunit of eukaryotic translation initiation factor-2 to downregulate protein synthesis in response to varied cellular stresses.

GCN2 Antibody
DF7801	Affbiotech	200ul	EUR 420

GCN2 Antibody
DF7801-100ul	Affinity Biosciences	100ul	EUR 280

GCN2 Antibody
DF7801-200ul	Affinity Biosciences	200ul	EUR 350

GCN1 Antibody
DF15941	Affbiotech	100ul	EUR 420

GCN1 Antibody
DF15941-100ul	Affinity Biosciences	100ul	EUR 280

GCN1 Antibody
DF15941-200ul	Affinity Biosciences	200ul	EUR 350

GCN2 Antibody
49575	SAB	100ul	EUR 499

GCN2 Antibody
49575-100ul	SAB	100ul	EUR 399.6

GCN2 Antibody
49575-50ul	SAB	50ul	EUR 286.8

GCN5 antibody
70R-51548	Fitzgerald	100 ul	EUR 242
Description: Purified Polyclonal GCN5 antibody

GCN2 Antibody
R31137	NSJ Bioreagents	100 ug	EUR 356.15
Description: Eukaryotic Translation Initiation Factor 2-Alpha Kinase 4, also called GCN2 (General control nonderepressible 2), is an enzyme that in humans is encoded by the EIF2AK4 gene. It belongs to a family of kinases that phosphorylate the alpha subunit of eukaryotic translation initiation factor-2 to downregulate protein synthesis in response to varied cellular stresses. Hartz(2005) mapped the gene to chromosome 15q15.1 based on an alignment of the protein sequence with the genomic sequence. Berlanga et al.(1999) demonstrated that GCN2 immunopurified from mouse liver extracts could phosphorylate rabbit Eif2 in vitro. Serum starvation increased the level of phosphorylated EIF2-alpha more than 2-fold in human embryonic kidney cells transfected with mouse Eif2ak4. Costa-Mattioli et al.(2005) reported a unique feature of hippocampal slices from GCN2-null mice: in CA1, a single 100-Hz train induced a strong and sustained long-term potentiation(late LTP or L-LTP), which was dependent on transcription and translation.

GCN5L2 antibody
10R-1171	Fitzgerald	100 ul	EUR 320
Description: Mouse monoclonal GCN5L2 antibody

GCN5L2 antibody
10R-1647	Fitzgerald	100 ug	EUR 614.4
Description: Mouse monoclonal GCN5L2 antibody

GCN5L2 Antibody
E19-3383	EnoGene	100μg/100μl	EUR 225
Description: Available in various conjugation types.

GCN5L2 Antibody
E11-11438C	EnoGene	100μg	EUR 225
Description: Available in various conjugation types.

GCN5L2 Antibody
E92224	EnoGene	100μg	EUR 255
Description: Available in various conjugation types.