Table1_Diverse responses of hypoxia-inducible factor alpha mRNA abundance in fish exposed to low oxygen: the importance of reporting methods.DOCX حسب Taylor E. Murphy (19800534)

"…<p>Low dissolved oxygen (hypoxia) poses significant challenges to aquatic ecosystems, affecting the behavior, reproduction, and survival of aquatic organisms. …"

DataSheet2_Diverse responses of hypoxia-inducible factor alpha mRNA abundance in fish exposed to low oxygen: the importance of reporting methods.CSV حسب Taylor E. Murphy (19800534)

"…<p>Low dissolved oxygen (hypoxia) poses significant challenges to aquatic ecosystems, affecting the behavior, reproduction, and survival of aquatic organisms. …"

Biochemical data. حسب Abdallah Tageldein Mansour (21158819)

"…The colitic group showed a significant increase (P < 0.05) in C-reactive protein (CRP) and myeloperoxidase (MPO) and nitric oxide (NO) (35.60, 163.30 and 280 nmol/g tissue respectively) and higher expression (P < 0.05) <i>IL-17</i>, <i>TNF-α</i>, and <i>IL-1β</i> (increased up to 2.99, 4.36 and 4.90 respectively unlike PPE-NPsIII that recorded reduced levels of CRP, MPO and NO (8,96, 78.30 and 123 nmol/g tissue respectively) and much lower (P < 0.05) levels of IL-17, TNF-α, and IL-1β expression (decreased to 1.23, 1.69 and 1.64, respectively). …"

Scoring of Disease Activity Index (DAI). حسب Abdallah Tageldein Mansour (21158819)

"…The colitic group showed a significant increase (P < 0.05) in C-reactive protein (CRP) and myeloperoxidase (MPO) and nitric oxide (NO) (35.60, 163.30 and 280 nmol/g tissue respectively) and higher expression (P < 0.05) <i>IL-17</i>, <i>TNF-α</i>, and <i>IL-1β</i> (increased up to 2.99, 4.36 and 4.90 respectively unlike PPE-NPsIII that recorded reduced levels of CRP, MPO and NO (8,96, 78.30 and 123 nmol/g tissue respectively) and much lower (P < 0.05) levels of IL-17, TNF-α, and IL-1β expression (decreased to 1.23, 1.69 and 1.64, respectively). …"

Primers sequences used in this study. حسب Abdallah Tageldein Mansour (21158819)

"…The colitic group showed a significant increase (P < 0.05) in C-reactive protein (CRP) and myeloperoxidase (MPO) and nitric oxide (NO) (35.60, 163.30 and 280 nmol/g tissue respectively) and higher expression (P < 0.05) <i>IL-17</i>, <i>TNF-α</i>, and <i>IL-1β</i> (increased up to 2.99, 4.36 and 4.90 respectively unlike PPE-NPsIII that recorded reduced levels of CRP, MPO and NO (8,96, 78.30 and 123 nmol/g tissue respectively) and much lower (P < 0.05) levels of IL-17, TNF-α, and IL-1β expression (decreased to 1.23, 1.69 and 1.64, respectively). …"

DataSheet1_Identification of osmotic stress resistance mediated by MdKAI2 in apple.docx حسب Hongyang Guo (9466516)

"…Differentially expressed genes (DEGs), including multiple transcription factors (TFs), such as MYB, bHLH and AP2‒EREBP, are significantly regulated by MdKAI2, and genes involved in the mitogen‒activated protein kinase (MAPK) signaling pathway play crucial roles in the regulation of plant resistance. …"

DataSheet2_Identification of osmotic stress resistance mediated by MdKAI2 in apple.docx حسب Hongyang Guo (9466516)

"…Differentially expressed genes (DEGs), including multiple transcription factors (TFs), such as MYB, bHLH and AP2‒EREBP, are significantly regulated by MdKAI2, and genes involved in the mitogen‒activated protein kinase (MAPK) signaling pathway play crucial roles in the regulation of plant resistance. …"

Glucose-6-phosphatase catalytic subunit 3 enhances host resistance to porcine epidemic diarrhea virus through regulating glycolysis/gluconeogenesis حسب Huihui Li (227521)

"…Knockdown of <i>G6PC3</i> in the intestinal porcine epithelial cell line J2 (IPEC-J2) resulted in increased PEDV replication and decreased expression of immune-related genes involved in the glycolysis/gluconeogenesis metabolism pathway. …"

S2 File - حسب Jinfeng Zhao (142391)

"…The roles of Klotho were further confirmed through knockdown of Klotho by small interfering RNA (siRNA) in C57BL/6J mice.Q-PCR and Western blot were performed to quantify determine the expression of relevant genes and proteins in the kidney. Results: Aging decreased Klotho expression via activated the upstream TGF-β1/p53/miR34a signaling pathway and affected its downstream signaling pathways, ultimately leading to renal fibrosis. …"

Effect of purple potato extract (<i>Solanum tuberosum L</i>.) on hepatic Trichrome positive area in HF diet-fed rats. حسب Ishrat Jahan (5782163)

Effect of overexpressing <i>CEBPB</i> and <i>GFI-1</i> on <i>SOST</i> expression. حسب Avneesh Chopra (20927514)

Bacterium-Phage Symbiosis Facilitates the Enrichment of Bacterial Pathogens and Antibiotic-Resistant Bacteria in the Plastisphere حسب Rong Xia (30438)

"…Phages also carried transcriptionally active virulence factor genes (VFGs) and antibiotic resistance genes (ARGs), and could mediate their horizontal transfer in microbial communities. …"

PTEN KD increases chromatin accessibility. حسب Ahmed H. Ghobashi (12705573)

"…Red dots indicate peaks with significantly increased or decreased accessibility with Log2 FC > |0.5|. …"

Structural analysis of wild type and mutated variants of CXCR4. حسب Bonoshree Sarkar (20469331)

FLEXI interactions with RNA-binding proteins. حسب Jun Yao (9646)

"…RNA-binding sites: I, within introns corresponding to FLEXIs; SS-I and SS-E, bimodally enriched across the 5’- and 3’ splice sites in unspliced pre-mRNAs with the midpoints in the intron or flanking exon (SS-I and SS-E, respectively; Figs <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1011416#pgen.1011416.g004" target="_blank">4A</a> and <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1011416#pgen.1011416.s011" target="_blank">S11</a>). mRNA levels, RBPs whose knockdown resulted in significant difference in mRNA levels (increased or decreased, DESeq2 |LFC|≥1, adjusted p≤0.05) from host gene of FLEXIs with a binding site for that RBP compared to those genes whose transcripts lacked a binding site for the same RBPs based on ENCODE RBP-knockdown datasets (p≤0.05 calculated by Fisher’s exact test; <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1011416#pgen.1011416.s013" target="_blank">S13 Fig</a>). …"

PTEN KD induces EMT in epithelial CRC cells. حسب Ahmed H. Ghobashi (12705573)

"…<b>(D)</b> Gene expression of the indicated genes by RT-qPCR in HT29 and LS174T cells treated as in (A). …"

Figure 5 from KDM6 Demethylases Contribute to EWSR1::FLI1-Driven Oncogenic Reprogramming in Ewing Sarcoma حسب Elisabet Figuerola-Bou (22618659)

"…<p>KDM6A KO decreases Ewing sarcoma tumor growth. <b>A,</b> Colony formation assay of KDM6A KO cells (sgRNA#1 and sgRNA#2) compared with parental cells and sgCTRL in A-673. …"

SAF-A depletion leads to widespread changes in mRNA splicing. حسب Judith A. Sharp (21519973)

"…MISO plot showing an example altered exon. D. GO analysis of genes with altered splicing. E. CDF plot showing enrichment of all mRNAs, mRNAs with increased exon inclusion, and mRNAs with decreased exon inclusion in SAF-A RIP-seq libraries from interphase cells.…"

Negative regulation of reassortant canine influenza virus replication and key site identification in porcine and ferret bronchial epithelial cell lines حسب Jingjing Guo (393650)

"…The viral titer of rKR/07-PB2/NP was significantly lower than those of the parental viruses KR/07 and CA/09. …"

Figure 7 from KDM6 Demethylases Contribute to EWSR1::FLI1-Driven Oncogenic Reprogramming in Ewing Sarcoma حسب Elisabet Figuerola-Bou (22618659)

"…<p>KDM6B KO decreases tumor growth. <b>A,</b> Colony formation assay of KDM6B KO cells (sgRNA#1 and sgRNA#2) compared with parental and sgCTRL A-673 cells. …"