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Additional file 7: of Ischaemic stroke and the recanalization drug tissue plasminogen activator interfere with antibacterial phagocyte function

Antje Vogelgesang, Claudia Lange, Lara Blümke, Georg Laage, Sarah Rümpel, Sönke Langner, Barbara Bröker, Alexander Dressel & Johanna Ruhnau
A: Influence of r-tPA on cytokine production with PHA stimulation. Production of INF-γ, IL-2, -4, -5, -6, -9, -13, -17A, -17 F, -21, -22 and TNF-α in the supernatants of PBMCs after 72 h of incubation with r-tPA. PBMCs were stimulated with PHA to induce cytokine production. IL-10 was not induced in any of the conditions and is not shown. As an example, the data from PBMCs isolated from venous blood of healthy donors anticoagulated with EDTA...

Additional file 6: of Ischaemic stroke and the recanalization drug tissue plasminogen activator interfere with antibacterial phagocyte function

Antje Vogelgesang, Claudia Lange, Lara Blümke, Georg Laage, Sarah Rümpel, Sönke Langner, Barbara Bröker, Alexander Dressel & Johanna Ruhnau
Influence of r-tPA on MPO and NE. PBMCs of healthy donors were incubated with 0.5 or 1 μg/ml r-tPA for 4 h at 37 °C in 5% CO2. Afterwards, MPO and NE were measured intracellularly in granulocytes by flow cytometry (A, C), expressed in MFI, and in the supernatant using ELISA (B, D), expressed in ng/ml (n = 10). *p 

Additional file 5: of Ischaemic stroke and the recanalization drug tissue plasminogen activator interfere with antibacterial phagocyte function

Antje Vogelgesang, Claudia Lange, Lara Blümke, Georg Laage, Sarah Rümpel, Sönke Langner, Barbara Bröker, Alexander Dressel & Johanna Ruhnau
Influence of adrenaline, noradrenaline, dexamethasone and acetylcholine on mean NET area. Effect of in vitro administration of 1 × 10−7 M or 1 × 10−5 M adrenaline (A) and noradrenaline (B); 2.5 × 10−7 M or 2.5 × 10−6 M dexamethasone (C); and 5.5 × 10−6 M or 5.5 × 10−4 M acetylcholine (D) on NET area was tested. After incubation of blood of healthy donors with hormones and acetylcholine for 4 h at room temperature, neutrophils were isolated, and NETs were induced using PMA or fMLP or...

Additional file 4: of Ischaemic stroke and the recanalization drug tissue plasminogen activator interfere with antibacterial phagocyte function

Antje Vogelgesang, Claudia Lange, Lara Blümke, Georg Laage, Sarah Rümpel, Sönke Langner, Barbara Bröker, Alexander Dressel & Johanna Ruhnau
Influence of adrenaline, noradrenaline, dexamethasone and acetylcholine on NE and MPO release in vitro. NE and MPO-ELISA of supernatants of PBMCs (of healthy donors) treated with 1 × 10−7 M (low) or 1 × 10−5 M (high) adrenaline and noradrenaline; 2.5 × 10−7 M (low) or 2.5 × 10−6 M (high) dexamethasone; and 5.5 × 10−6 M (low) or 5.5 × 10−4 M (high) acetylcholine. If the data failed a Gaussian distribution test by the D‘agostino & Pearson omnibus normality test, the data were analysed by the...

Additional file 3: of Ischaemic stroke and the recanalization drug tissue plasminogen activator interfere with antibacterial phagocyte function

Antje Vogelgesang, Claudia Lange, Lara Blümke, Georg Laage, Sarah Rümpel, Sönke Langner, Barbara Bröker, Alexander Dressel & Johanna Ruhnau
Influence of adrenaline, noradrenaline, dexamethasone and acetylcholine on intracellular NE and MPO in vitro. A: Intracellular MPO of granulocytes and monocytes of healthy donors treated with adrenaline, noradrenaline, dexamethasone or acetylcholine (n = 10). The mean and SD ranges are given. B: Intracellular NE of granulocytes and monocytes treated with adrenaline, noradrenaline, dexamethasone or acetylcholine (n = 10). The mean and SD ranges are given. (PDF 2057 kb)

Additional file 2: of Ischaemic stroke and the recanalization drug tissue plasminogen activator interfere with antibacterial phagocyte function

Antje Vogelgesang, Claudia Lange, Lara Blümke, Georg Laage, Sarah Rümpel, Sönke Langner, Barbara Bröker, Alexander Dressel & Johanna Ruhnau
Monocytic intracellular expression (MFI) of NE and MPO per cell in stroke patients versus controls. Stroke patients were analysed and compared to healthy controls. MPO (A) and NE (B) were measured intracellularly in monocytes using flow cytometry and are expressed in MFI. MPO was measured on the day of stroke admission (d0) and on days 1, 3 and 5 after stroke (d1, d3, d5) (A; ncrtl = 14, nd0 = 14, nd1 = 18, nd3 = 14, nd5 = 16). NE was measured on day...

Additional file 1: of Ischaemic stroke and the recanalization drug tissue plasminogen activator interfere with antibacterial phagocyte function

Antje Vogelgesang, Claudia Lange, Lara Blümke, Georg Laage, Sarah Rümpel, Sönke Langner, Barbara Bröker, Alexander Dressel & Johanna Ruhnau
Netosis in an adult control. In vitro imaging of NETs forming neutrophils with representative images for one control subject. A brightfield image allowed quantification of total cells, SYTOX® Green allowed quantification of NETosis based on size of events and comparison of different stimuli. One representative example of the unstimulated and one PMA stimulated sample is shown. Fiji Software was used to measure NET area. Images of SYTOX® Green stained cells were taken with a Leica...

Additional file 4: Table S2. of Long noncoding RNA expression profiles in sub-lethal heat-treated hepatoma carcinoma cells

Qingsong Deng, Shihan Chen, Chunchuan Fu, Jiayun Jiang, Mengda Zou, Yunhua Tan, Xiaofei Wang, Feng Xia, Kai Feng, Kuansheng Ma & Ping Bie
mRNA qRT-PCR primers and product size. (DOCX 17 kb)

Additional file 3: Table S1. of Long noncoding RNA expression profiles in sub-lethal heat-treated hepatoma carcinoma cells

Qingsong Deng, Shihan Chen, Chunchuan Fu, Jiayun Jiang, Mengda Zou, Yunhua Tan, Xiaofei Wang, Feng Xia, Kai Feng, Kuansheng Ma & Ping Bie
lncRNA qRT-PCR primers and product size. (DOCX 18 kb)

Additional file 3: Figure S1. of Characterization of background noise in capture-based targeted sequencing data

Gahee Park, Joo Park, Seung-Ho Shin, Hyo-Jeong Jeon, Nayoung Kim, Yeon Kim, Hyun-Tae Shin, Eunjin Lee, Kwang Lee, Dae-Soon Son, Woong-Yang Park & Donghyun Park
Single nucleotide polymorphism concordance between plasma and PBL DNA samples. Figure S2. The distribution of base quality scores from generated sequencing data. Figure S3. The proportion of consistent/inconsistent errors between paired reads 1 and 2. Figure S4. Background allele frequencies of 12 substitution classes. Figure S5. Mutagenic DNA lesions are associated with high DNA-shearing conditions. Figure S6. Background allele frequencies around the DNA break point. Figure S7. Normalized mononucleotide frequencies around the DNA break point....

Additional file 1: Table S1. of Characterization of background noise in capture-based targeted sequencing data

Gahee Park, Joo Park, Seung-Ho Shin, Hyo-Jeong Jeon, Nayoung Kim, Yeon Kim, Hyun-Tae Shin, Eunjin Lee, Kwang Lee, Dae-Soon Son, Woong-Yang Park & Donghyun Park
Findings and methods from studies charactering artifactual substitutions in sequencing data. (DOCX 29 kb)

Additional file 3: of Exploring general-purpose protein features for distinguishing enzymes and non-enzymes within the twilight zone

Yasser Ruiz-Blanco, Guillermin Agüero-Chapin, Enrique García-Hernández, Orlando Álvarez, Agostinho Antunes & James Green
Experiments leading to the selection of the SVM and kernel parameters. (PDF 310 kb)

Additional file 1: Table S1. of Competing for space in an already crowded market: a mixed methods study of why an online community of practice (CoP) for alcohol harm reduction failed to generate interest amongst the group of public health professionals at which it was aimed

Ruth Ponsford, Jennifer Ford, Helena Korjonen, Emma Hughes, Asha Keswani, Triantafyllos Pliakas & Matt Egan
Combined findings from surveys of UK Health Forum alcohol group members who subscribed or did not subscribe to the Community of Practice (CoP). (DOCX 39 kb)

Additional file 2: of Exploring general-purpose protein features for distinguishing enzymes and non-enzymes within the twilight zone

Yasser Ruiz-Blanco, Guillermin Agüero-Chapin, Enrique García-Hernández, Orlando Álvarez, Agostinho Antunes & James Green
Supplementary figures (Figure SI-I and SI-2) and Tables (Table SI-1 to Table SI-13). Figure SI-1 Dot plot of the pairwise amino acid identity matrix expressed in percentage (colour bar) for the D&D dataset. (A) Global all-vs-all sequence alignments using the Needleman-Wunsch (NW) algorithm (B) Local all-vs-all sequence alignments using the Smith-Waterman (SW) algorithm. Figure SI-2 Structural diversity summary of the D&D dataset according to SCOP database. Table SI-1 Compendium of structural and chemical-physical amino acid...

Additional file 1: of Exploring general-purpose protein features for distinguishing enzymes and non-enzymes within the twilight zone

Yasser Ruiz-Blanco, Guillermin Agüero-Chapin, Enrique García-Hernández, Orlando Álvarez, Agostinho Antunes & James Green
Different families of AF protein predictors implemented in ProtDCal and TI2BioP. (PDF 136 kb)

Additional file 5: Table S4. of Epidemiology of taeniosis/cysticercosis in Europe, a systematic review: Western Europe

Minerva Laranjo-González, Brecht Devleesschauwer, Chiara Trevisan, Alberto Allepuz, Smaragda Sotiraki, Annette Abraham, Mariana Afonso, Joachim Blocher, Luís Cardoso, José Correia Da Costa, Pierre Dorny, Sarah Gabriël, Jacinto Gomes, María Gómez-Morales, Pikka Jokelainen, Miriam Kaminski, Brane Krt, Pascal Magnussen, Lucy Robertson, Veronika Schmidt, Erich Schmutzhard, G. Smit, Barbara Šoba, Christen Stensvold, Jože Starič … & Veronique Dermauw
Identified taeniosis cases in case reports in western Europe (1990–2015). Table S5. Aggregated taeniosis cases reported in authorities’ reports, epidemiological bulletins, and national registries in western Europe (1990–2015). Table S6. Aggregated taeniosis cases reported at hospital/laboratory level in western Europe (1990–2015). Table S7. Taeniosis prevalence data reported in epidemiological studies (1990–2015). Table S8. Taeniosis estimates published in western Europe (1990–2015). Table S9. Identified human cysticercosis cases in case reports in western Europe (1990–2015). Table S10....

Additional file 6: Figure S2. of Phylogenetic classification of bony fishes

Ricardo Betancur-R, Edward Wiley, Gloria Arratia, Arturo Acero, Nicolas Bailly, Masaki Miya, Guillaume Lecointre & Guillermo OrtĂ­
High resolution image of Figure 2. (PDF 4040 kb)

Additional file 5: Figure S1. of Phylogenetic classification of bony fishes

Ricardo Betancur-R, Edward Wiley, Gloria Arratia, Arturo Acero, Nicolas Bailly, Masaki Miya, Guillaume Lecointre & Guillermo OrtĂ­
High resolution image of Figure 1. (PDF 1120 kb)

Additional file 1: Figure S1. of A deep convolutional neural network approach to single-particle recognition in cryo-electron microscopy

Yanan Zhu, Qi Ouyang & Youdong Mao
The feature maps of the convolutional and subsampling layers from a typical particle image of KLH learned by our CNN. Figure S2. (a) and (b) show a comparison of the results obtained before and after additional selection using standard deviation of the KLH dataset, respectively. (c) and (d) show a comparison of the results obtained before and after additional selection using standard deviation of the 19S, respectively. Figure S3. (a) and (b) show a comparison...

Additional file 1 of NoGOA: predicting noisy GO annotations using evidences and sparse representation

Guoxian Yu, Chang Lu & Jun Wang
Supplementary file of â NoGOA: predicting noisy GO annotations using evidences and sparse representationâ This PDF file includes additional experimental results mentioned in the main text. (PDF 1300 kb)

Additional file 1: Table S1. of Mental health differences between German gay and bisexual men and population-based controls

Frank Sattler, Gabriele Franke & Hanna Christiansen
Used mental health subscales. (DOCX 31 kb)

Additional file 6: Table S4. of An integrated computational-experimental approach reveals Yersinia pestis genes essential across a narrow or a broad range of environmental conditions

Nicola Senior, Kalesh Sasidharan, Richard Saint, Andrew Scott, Mitali Sarkar-Tyson, Philip Ireland, Helen Bullifent, Z. Rong Yang, Karen Moore, Petra Oyston, Timothy Atkins, Helen Atkins, Orkun Soyer & Richard Titball
Overlap between experimentally identified and computationally predicted essential genes. Lines 1â 54 details genes that are predicted to be essential in all computationally tested media (100% essentiality score) and are also experimentally identified to be an essential gene under the BAB broth medium. Lines 55â 78 details genes that are predicted to be essential in all computationally tested media (100% essentiality score) but not experimentally identified to be an essential gene under the BAB broth...

Additional file 2: of Epidemiology of taeniosis/cysticercosis in Europe, a systematic review: Western Europe

Minerva Laranjo-González, Brecht Devleesschauwer, Chiara Trevisan, Alberto Allepuz, Smaragda Sotiraki, Annette Abraham, Mariana Afonso, Joachim Blocher, Luís Cardoso, José Correia Da Costa, Pierre Dorny, Sarah Gabriël, Jacinto Gomes, María Gómez-Morales, Pikka Jokelainen, Miriam Kaminski, Brane Krt, Pascal Magnussen, Lucy Robertson, Veronika Schmidt, Erich Schmutzhard, G. Smit, Barbara Šoba, Christen Stensvold, Jože Starič … & Veronique Dermauw
Country sheets template. (DOCX 47 kb)

Additional file 5 of Gene expression patterns of chicken neuregulin 3 in association with copy number variation and frameshift deletion

Hideaki Abe, Daiki Aoya, Hiro-Aki Takeuchi & Miho Inoue-Murayama
: Figure S3. Example electrophoresis gel after qPCR using dup_Int2F and dup_Int2R. (PDF 382 kb)

Additional file 4 of Gene expression patterns of chicken neuregulin 3 in association with copy number variation and frameshift deletion

Hideaki Abe, Daiki Aoya, Hiro-Aki Takeuchi & Miho Inoue-Murayama
: Table S2. List of the oligonucleotide primers used in this study. (PDF 45 kb)

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