AZ2.0 Scripts & Code by Binay Panda (768771)

“…The updated genome assembly (v2.0) yielded 3- and 3.5-fold increase in N50 and N75, respectively; 2.6-fold decrease in the total number of scaffolds; 1.25-fold increase in the number of valid transcriptome alignments; 13.4-fold less mis-assembly and 1.85-fold increase in the percentage repeat, over the earlier assembly (v1.0). …”

Comparison of normalization methods. by Mikhail G. Dozmorov (242442)

“…The procedure was repeated three times (every time with different arbitrary split of 20 samples data into 10&10 samples subgroups) and the averages and SD of the estimations are shown. A) Sensitivity and B) Precision (Y axes) for symmetrical changes in gene expression (2-fold increase in 10% and 2-fold decrease in another 10% of data). …”

Reduced insulin/IGF-1-like signaling protects against age-dependent protein insolubility and aggregation. by Della C. David (244107)

“…<p>(A) Sypro Ruby staining revealed a decrease in overall age-dependent protein insolubility in <i>gon-2(−)</i>/gonad-less animals treated with <i>daf-2</i> RNAi compared to control RNAi (1.6-fold compared to a 3.6-fold increase with age, quantified in the red outlined areas). …”

GO_Underexpressed_t0 by Kenneth D. Belanger (773857)

“…Genes were determined to be underexpressed if they had a 1.5 fold or greater decrease in mutant cells as compared to wild-type cells (p<0.05 by unpaired t-test with Bonferonni correction).…”

Analysis of ERE mRNA expression in SIV-infected versus uninfected CD4+ T cells. by Neil C. Sheppard (539902)

“…<p>[<b>A</b>] Flow cytometry analysis staining for SIV Gag p27 and CD4 of uninfected or SIVsmE660-infected CD4+ T cells used for subsequent qPCR analysis [72 h time point is shown]. …”

Table_1_Proteomic and in silico analyses of dextran synthesis influence on Leuconostoc lactis AV1n adaptation to temperature change.docx by Norhane Besrour-Aouam (6668942)

“…In total, 337 proteins were found to be differentially expressed at the applied significance criteria (adjusted p-value ≤ 0.05, FDR 5%, and with a fold-change ≥ 1.5 or ≤ 0.67) with 204 proteins overexpressed, among which 13% were involved in protein as well as cell wall, and envelope component biosynthesis including DsrLL. …”

Comparison of total levels of intermediates in nucleotide and methionine metabolism from extracts of ¹³C labelled cells. by Gareth D. Westrop (488364)

“…Positive values represent a relative increase in <i>T</i>. <i>vaginalis</i>, negative values a relative decrease. …”

The function of EB1 and Tau is altered during ageing. by Pilar Okenve-Ramos (18150546)

“…In aged specimens, axons show a decrease in EB1 and GFP-Tau (dashed cyan boxes in A and E are shown as 2- and 2.3-fold magnified insets, respectively. …”

Effects of administration regimen on antitumor activity, TK activity and viral replication. by Daniel Abate-Daga (200715)

“…GCV treatment produced a significant decrease in the number of ICOVIR5-TK-L transducing units regardless of the protocol applied (A or B) (left panel). …”

Impact of Protein Stability, Cellular Localization, and Abundance on Proteomic Detection of Tumor-Derived Proteins in Plasma by Qiaojun Fang (211668)

“…Quantitative comparison of large versus small tumors revealed that the abundance of proteins in plasma as measured by spectral count was associated with the tumor size, but the relationship was not one-to-one; a 3-fold decrease in tumor size resulted in a 16-fold decrease in protein abundance in plasma. …”

Analysis of the relative expression of the PTEN pathway genes. by Edurne Novella-Maestre (746958)

“…<p>(A) fold change of the <i>PTEN</i> gene. Significant differences were obtained when ∆Ct were analyzed and showed the PTEN inhibition produced by bpv(pic) at 100 μM in fresh (G1 <i>vs</i>. …”

Reduction in DRG neuronal numbers following error correction. by Ayal Ben-Zvi (438134)

“…<p>Graph representing estimates of DRG neuronal total number. L5 DRG of P0 mice were used as an end point of the error correction period. …”

Histological quantification of ribosomal S6 phosphorylation in gray matter. by Dominique F. Leitner (12568901)

“…<b>O)</b> Quantification of percent phospho-S6 (Ser240/244) relative to total S6 in the gray matter indicated an average 5.55-fold decrease when comparing all Active participants to Controls (p = 0.22). …”

Changes in phosphorylation of proteins associated with co-translation and ER-Golgi vesicle traffic. by Yashoda Kandel (6392810)

“…Green arrows represent an increase of at least 1.5-fold in phosphorylation at the specified residue between unfed and PBM mosquitoes, and red arrows represent a decrease of at least 1.5-fold in phosphorylation at the specified residue between unfed and PBM mosquitoes.…”

Y-box-binding protein 1 supports the early and late steps of HIV replication by Caroline Weydert (1316550)

“…Dissection of the replication defects revealed that knockdown of YB-1 is associated with a 2- to 5-fold decrease in virion production due to interference with the viral RNA metabolism. …”

Recovery of the fecal microbiota over time in clindamycin treated animals. by Robin L. P. Jump (591535)

“…The bacterial families with mouse fecal microbiota showed 4 distinct response patterns following clindamycin exposure: (A) decrease followed by a rapid normalization, (B) increase with slow normalization, (C) sustained decrease and (D) no difference compared to controls. …”

DataSheet3_Ultrasound-induced cavitation renders prostate cancer cells susceptible to hyperthermia: Analysis of potential cellular and molecular mechanisms.ZIP by Shaonan Hu (10728498)

“…Immunofluorescence microscopy and flow cytometry were performed to determine the distribution and expression of 5α-reductase (SRD5A).</p><p>Results: Short FUS shots with cavitation (FUS-Cav) in combination with HT resulted in, respectively, a 2.2, 2.3, and 2.8-fold decrease (LNCap) and a 2.0, 1.5, and 1.6-fold decrease (PC-3) in the clonogenic survival, cell invasiveness and metabolic activity of prostate cancer cells when compared to HT alone. …”

DataSheet6_Ultrasound-induced cavitation renders prostate cancer cells susceptible to hyperthermia: Analysis of potential cellular and molecular mechanisms.ZIP by Shaonan Hu (10728498)

“…Immunofluorescence microscopy and flow cytometry were performed to determine the distribution and expression of 5α-reductase (SRD5A).</p><p>Results: Short FUS shots with cavitation (FUS-Cav) in combination with HT resulted in, respectively, a 2.2, 2.3, and 2.8-fold decrease (LNCap) and a 2.0, 1.5, and 1.6-fold decrease (PC-3) in the clonogenic survival, cell invasiveness and metabolic activity of prostate cancer cells when compared to HT alone. …”

DataSheet2_Ultrasound-induced cavitation renders prostate cancer cells susceptible to hyperthermia: Analysis of potential cellular and molecular mechanisms.ZIP by Shaonan Hu (10728498)

“…Immunofluorescence microscopy and flow cytometry were performed to determine the distribution and expression of 5α-reductase (SRD5A).</p><p>Results: Short FUS shots with cavitation (FUS-Cav) in combination with HT resulted in, respectively, a 2.2, 2.3, and 2.8-fold decrease (LNCap) and a 2.0, 1.5, and 1.6-fold decrease (PC-3) in the clonogenic survival, cell invasiveness and metabolic activity of prostate cancer cells when compared to HT alone. …”

DataSheet4_Ultrasound-induced cavitation renders prostate cancer cells susceptible to hyperthermia: Analysis of potential cellular and molecular mechanisms.ZIP by Shaonan Hu (10728498)

“…Immunofluorescence microscopy and flow cytometry were performed to determine the distribution and expression of 5α-reductase (SRD5A).</p><p>Results: Short FUS shots with cavitation (FUS-Cav) in combination with HT resulted in, respectively, a 2.2, 2.3, and 2.8-fold decrease (LNCap) and a 2.0, 1.5, and 1.6-fold decrease (PC-3) in the clonogenic survival, cell invasiveness and metabolic activity of prostate cancer cells when compared to HT alone. …”