syedzayyan/paper_mill_benchmark huggingface dataset:
Implementing Process Analytical Technology for the Production of Recombinant Proteins in Escherichia coli Using an Advanced Controller Scheme.

The performance of a bioreactor in meeting process goals is affected by the microorganism used, medium composition, and operating conditions.A typical bioreactor uses a supervisory control and data acquisition (scada) system for control, and a combination of software and hardware tools for real-time data analysis.However, when the process is disrupted by utility or instrumentation failure, typical process controllers may be unable to reinstate normal operating conditions before the cells in the reactor shift to unfavorable metabolic regimes.The objective of this study is to examine how the response of a controller affects process recovery when disruptive incidences occur under a process analytical technology (pat) framework.The process used for this investigation is the production of lethal toxin-neutralizing factor (ltnf) by escherichia coli (e.Coli), which is controlled by a decoupled input-output-linearizing controller (diolc).The performance of the diolc is compared to a proportional integral derivative (pid) controller subjected to the same conditions.The disruptions are introduced manually and the effect of controller action on process recovery and ltnf synthesis is measured in terms of peak purity and concentration.It is observed that diolc performs better after reinstating operating conditions and results in a meaningful improvement in performance.

Journal: Biotechnology journal (2019)
Publication types: Journal Article
Primary total hip arthroplasty with a fully porous-coated uncemented stem: up to twenty-eight years. Retrospective cohort study.

The use of cementless prosthesis has increased in the last 30 years with the aim of improving the long-term results of total hip arthroplasties in young and active patients.Encouraging results have recently been reported for cementless titanium and cobalt chromium stems.However, there are few studies with long-term follow-up, and the majority have analysed several models of uncemented stems due to their modifications over the years.Therefore, the aim was to assess the long-term survival rate of the mittelmeier mark iii or autophor 900-s stem.Methods a retrospective cohort study of both gender patients under 70 years old with at least one implanted mittelmeier mark iii uncemented stem was performed.Survival rate was defined as the proportion of stems that did not need a surgical revision from any cause.Clinical status was evaluated using the merle d'aubigne scale modified by matta (excellent/good/fair/poor).Results between 1990 and 1999, 73 stems were implanted.The mean (sd) age at surgical time was 49.3 (9.9) years, and the median (range) of follow-up was 22 (1-28) years.The overall survival rate was 93% (68/73, 95%ci: 85-97%).The stem revisions were due to stem breakage (n = 2), to aseptic loosening (n = 2) and to septic loosening (n = 1).Clinical results were: excellent 84%, good 15% and fair 1.5%.Conclusions the mittelmeier mark iii stem had an excellent survival rate with a stable long-term fixation and excellent clinical outcomes.

Journal: European journal of orthopaedic surgery & traumatology : orthopedie traumatologie (2022)
Publication types: Journal Article
Novel CaM-binding motif in its NudT9H domain contributes to temperature sensitivity of TRPM2.

Trpm2 is a non-selective, ca2+-permeable cation channel, which plays a role in cell death but also contributes to diverse immune cell functions.In addition, trpm2 contributes to the control of body temperature and is involved in perception of non-noxious heat and thermotaxis.Trpm2 is regulated by many factors including ca2+, adpr, 2'-deoxy-adpr, ca2+-ca m, and temperature.However, the molecular basis for the temperature sensitivity of trpm2 as well as the interplay between the regulatory factors is still not understood.Here we identify a novel ca m-binding site in the unique nud t9h domain of trpm2.Using a multipronged biophysical approach we show that binding of ca2+-ca m to this site occurs upon partial unfolding at temperatures >35 °c and prevents further thermal destabilization.In combination with patch-clamp measurements of full-length trpm2 our results suggest a role of this ca m-binding site in the temperature sensitivity of trpm2.This article is part of a special issue entitled: ecs meeting edited by claus heizmann, joachim krebs and jacques haiech.

Journal: Biochimica et biophysica acta. Molecular cell research (2019)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Shortened lifespan induced by a high-glucose diet is associated with intestinal immune dysfunction in Drosophila sechellia.

Organisms can generally be divided into two nutritional groups: generalists that consume various types of food and specialists that consume specific types of food.However, it remains unclear how specialists adapt to only limited nutritional conditions in nature.In this study, we addressed this question by focusing on drosophila fruit flies.The generalist drosophila melanogaster can consume a wide variety of foods that contain high glucose levels.In contrast, the specialist drosophila sechellia consumes only the indian mulberry, known as noni (morinda citrifolia), which contains relatively little glucose.We showed that the lifespan of d.Sechellia was significantly shortened under a high-glucose diet, but this effect was not observed for d.Melanogaster.In d.Sechellia, a high-glucose diet induced disorganization of the gut epithelia and visceral muscles, which was associated with abnormal digestion and constipation.Rna-sequencing analysis revealed that many immune-responsive genes were suppressed in the gut of d.Sechellia fed a high-glucose diet compared with those fed a control diet.Consistent with this difference in the expression of immune-responsive genes, high glucose-induced phenotypes were restored by the addition of tetracycline or scopoletin, a major nutritional component of noni, each of which suppresses gut bacterial growth.We propose that, in d.Sechellia, a high-glucose diet impairs gut immune function, which leads to a change in gut microbiota, disorganization of the gut epithelial structure and a shortened lifespan.

Journal: The Journal of experimental biology (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
"It is a different world in here": collective identification and shared experiential knowledge between psychiatric inpatients.

This paper explores the social relations between inpatients in psychiatric wards.Combining barker's (2002) concept of 'collective illness identity' with nelson's (1993) concept of 'epistemological communities', i draw attention to the inpatients' collective identification and experiential knowledge.Through the analysis, three aspects of the inpatients' relationships are unfolded.First, how the inpatients, through bodily expressions and narrative accounts, construct a collective illness identity based on shared experiences of symptoms and suffering.Second, the ways in which the inpatients use their shared experiential knowledge to support one another and challenge the mental health professionals.Third, how the inpatients' reflections on the long-term potential of their relationships reveal a number of concerns related to their continuation.Centrally, the paper points to the potential and challenges that arise from the inpatients' relations to one another and their embeddedness in a specific time and space.Empirically, the paper draws on five months of participant observation conducted in two psychiatric wards in denmark and interviews with 14 psychiatric patients.

Journal: Sociology of health & illness (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Interfaces between cellular responses to DNA damage and cancer immunotherapy.

The dna damage response (ddr) fulfils essential roles to preserve genome integrity.Targeting the ddr in tumors has had remarkable success over the last decade, exemplified by the licensing of parp inhibitors for cancer therapy.Recent studies suggest that the application of ddr inhibitors impacts on cellular innate and adaptive immune responses, wherein key dna repair factors have roles in limiting chronic inflammatory signaling.Antitumor immunity plays an emerging part in cancer therapy, and extensive efforts have led to the development of immune checkpoint inhibitors overcoming immune suppressive signals in tumors.Here, we review the current understanding of the molecular mechanisms underlying dna damage-triggered immune responses, including cytosolic dna sensing via the c gas/sting pathway.We highlight the implications of ddr components for therapeutic outcomes of immune checkpoint inhibitors or their use as biomarkers.Finally, we discuss the rationale for novel combinations of ddr inhibitors with antagonists of immune checkpoints and current hindrances limiting their broader therapeutic applications.

Journal: Genes & development (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't;Review
"Bi-cortical" periarticular K-wire fixation for displaced unstable transverse extra-articular fractures of the base of the proximal phalanx of the fingers.

Introduction management of unstable fractures of the proximal phalanx is a challenge.Objective the purpose of this study is to introduce to the literature the use of "bi-cortical" periarticular k-wire fixation for displaced unstable transverse extra-articular fractures of the base of the proximal phalanx of the fingers.Patients and methods this is a retrospective study of 30 patients with such fractures treated by the author over the last 10 years.Demographic data were collected and surgical complications were documented.The outcome was considered excellent, good, fair and poor if the total active motion of the finger was >260o, 250o-259o, 210o- 249o, and <210o; respectively.Results the worst outcome was seen in an elderly patient who sustained multiple fractures and concurrent flexor tendon injury.The remaining 29 patients were relatively young (mean age of 29 years, range = 19 - 42 years) and sustained an isolated single fracture from a fall or a fight.Out of these 29 patients, the outcome was excellent in 27 patients and good in the remaining 2 patients.Conclusions the "bi-cortical" periarticular k-wire fixation is best suited for transverse extra-articular fractures of the base of the proximal phalanx.The wire avoids all joints and hence, early post-operative mobilization is feasible.The technique is simple and obtains a favorable outcome in most patients.Type of study/level of evidence therapeutic iv.

Journal: Injury (2021)
Publication types: Journal Article
E6/E7 proteins are potential markers for the screening and diagnosis of cervical pre-cancerous lesions and cervical cancer in a Chinese population.

The present prospective study aimed to evaluate the effects of e6/e7 protein detection by western blotting on cervical cancer (cc) early screening compared with detection by hybrid capture 2 (hc2) test and thin prep cytological test (tct) in a chinese population.A total of 450 cases of cervical intraepithelial neoplasia (cin) suspected samples (positive in ≥1 indicator of tct and hc2 test) were recruited from women who were treated at the international peace maternity and child health hospital (shanghai, china) from march 2014 to february 2015.Each sample was analyzed by cytological test.In addition, human papillomavirus (hpv) dna examination by hybrid capture tube test and e6/e7 protein expression detection by western blotting were performed in all samples, as well as histologic diagnosis to determine the stage of cin.The results revealed that, for the diagnosis of cin2+, although the sensitivity of e6/e7 protein detection was lower than that of hc2 test (71.3 vs.96.6%, respectively), the specificity was markedly improved (67.6 vs.5.9%, respectively).Compared with that of tct, the sensitivity of e6/e7 protein detection was much higher (36.2 vs.71.3%, respectively), but the specificity was lower (88.2 vs.67.6%, respectively).In the present study, hpv e6/e7 protein expression was evaluated as a potential new biomarker for cc, with satisfactory diagnostic values for hpv types 16 and 18.The relative diagnostic value may be further improved by combination of e6/e7 messenger rna detection.

Journal: Oncology letters (2017)
Publication types: Journal Article
Angled ball and locator attachments for immediate loaded inclined implants used to retain maxillary overdentures: A cross over study of patient satisfaction and oral health related quality of life.

S the aim of this was to compare the influence of two different angulated abutment designs on patient satisfaction, oral health-related quality of life, and prosthetic aspects of implant-supported maxillary overdentures.Materials and methods for this cross-over study, 18 patients with completely edentulous maxillary ridges opposing implant-retained mandibular overdentures received 4 implants between the maxillary sinuses using computer-guided surgery.The anterior implants were installed at canine/lateral incisor areas and inclined 15° labially.The posterior implants were inserted just anterior to the maxillary sinuses and inclined 15o distally.Eight patients received maxillary overdentures retained by angled ball attachment (ball overdenture [bod]) and angled locator attachment in random order.After 6 months, patients indicated satisfaction with their prosthesis using a visual analog scale (vas), and oral health impact profile (ohip-14).Moreover, postinsertion prosthodontic maintenance and complications were recorded for both attachments.Comparisons of patient satisfaction and prosthetic complications between groups were performed using the wilcoxon matched-pairs test and the mc nemar test, respectively.Results locator overdenture (lod) recorded significantly higher scores than the bod group regarding all the vas questions except for ease of cleaning (p < 0.007).Lod recorded significantly higher patient satisfaction regarding the pronunciation of sounds (p = 0.009), painful aching (p = 0.018), feeling tense (p = 0.011), unsatisfactory diet (p = 0.013), irritability with people (p = 0.005), and life in general (p = 0.004).The most common complications were matrix activation/renewal (n = 34).Bod showed a significantly higher incidence of attachment loosening (p = 0.002), and teeth fracture (p = 0.049) than lod.Lod showed a significantly higher incidence of attachment wear and replacement than bod (p <0.001).There was no difference between groups regarding soft tissue complications.Conclusion within the limitations of this study, and in terms of improved patient-centered outcomes, angled locator attachments are recommended to retain maxillary implant overdentures opposed by implant retained mandibular overdentures at it was associated with increased patient satisfaction and oral health-related quality of life than angled ball attachments.However, locator attachment was associated with more postinsertion prosthodontic maintenance than ball attachment.

Journal: Clinical implant dentistry and related research (2022)
Publication types: Journal Article
Enantioselective acyl-transfer catalysis by fluoride ions.

The asymmetric nucleophilic catalysis by fluoride ions at a carbon-based electrophile has been demonstrated for the first time.Using a library of ad hoc designed bifunctional phase-transfer catalysts in which both the anion and the cation are directly involved in the reaction, the desymmetrisation of meso-succinic and -glutaric anhydrides is possible.19f nmr spectroscopic studies support the intermediacy of an acyl fluoride intermediate.

Journal: Chemical communications (Cambridge, England) (2018)
Publication types: Journal Article
Segmental comparison between a dedicated bifurcation stent and balloon angioplasty using intravascular ultrasound and three-dimensional quantitative coronary angiography: A subgroup analysis of the Tryton IDE randomized trial.

Randomized comparison between the tryton side branch stent (tryton medical, durham, nc), used in combination with a main branch drug-eluting stent (des), and side branch balloon angioplasty (sbba, in combination with a main branch des) using intravascular ultrasound (ivus), and three-dimensional quantitative coronary angiography (3d-qca).Background the tryton stent has been developed to improve clinical outcomes after percutaneous coronary intervention (pci) of bifurcation lesions.Methods we present the pre-specified ivus (n = 159) and 3d-qca (n = 190) sub-group analyses of the tryton coronary bifurcation trial (randomizing tryton vs.Sbba).Results there were no differences in the main branch with regard to minimal lumen area (mla) (5.33 ± 1.37 in tryton vs.5.69 ± 1.72 mm2in sbba, p = 0.235) with low neo-intima area in both groups.In the side branch, there were also no statistical significant differences between both groups (3.04 ± 1.02 in tryton vs.3.46 ± 1.15 mm2in sbba, p = 0.072).On 3d-qca, no differences in minimal lumen diameter (mld) and percentage diameter stenosis (%ds) were observed in the proximal and distal main branches.In the side branch, there were also no differences found in %ds and mld (mld: 1.34 ± 0.043 mm [tryton] vs.1.45 ± 0.31 mm [sbba], p = 0.090).Conclusions there were no differences in 9-month luminal dimensions of the side branch between the tryton stent and side branch balloon angioplasty, as assessed with ivus (mla) and 3d qca (mld).Angiographic and ultrasound results of the main branch were not negatively influenced by the tryton stent.© 2016 wiley periodicals, inc.

Journal: Catheterization and cardiovascular interventions : official journal of the Society for Cardiac Angiography & Interventions (2017)
Publication types: Comparative Study;Journal Article;Multicenter Study;Randomized Controlled Trial
Translating Multisectoral Nutrition Policy into Community Practice: Participation of Nutrition Officers in Tanzania Fosters Effective Collaborative Strategies to Improve Child Nutrition.

Globally, multisectoral coordination for nutrition is needed to tackle multiple determinants of undernutrition and address unacceptably high rates of stunting in young children.Tanzania has strong national policies and implementation plans to strengthen multisectoral nutrition (msn) governance, yet local actors must transcend sector silos to fully implement msn actions in communities.Objectives we engaged with nutrition officers in regional secretariats and district councils to explore strategies, barriers, and facilitators for creating novel "msn action teams." methods an initial "learning exchange" workshop gathered input from nutrition staff in 5 regions and invited their participation in mentoring and supporting msn collaboration.Regional nutrition officers piloted action teams in their districts, supporting district nutrition officers to create teams of 3-4 officers from relevant sectors (agriculture, community development, health, education) to plan and implement community-based activities consistent with sector priorities and national policy.To learn from stakeholder experiences, longitudinal data were collected through individual semistructured interviews and documentation of activities; 27 officers were interviewed 1-4 times over 14 mo.Results four districts successfully created action teams that bridged communication gaps between administrators and implementors; made progress on advocacy, collaboration, and budgeting for nutrition; and initiated msn implementation in communities.Participants identified strategies to overcome challenges to cross-sector collaboration including heavy workloads and limited resources and supervisor buy-in.Based on their experiences and innovations in creating msn action teams, stakeholders shared valuable recommendations for peer learning across sectors to scale up msn collaboration.Officers' presentation of insights to regional and district leaders buoyed interest in msn action teams as a feasible and acceptable approach to strengthen local governance and implementation to improve child nutrition.Conclusions experience-based input from government officers engaged in novel community and intersectoral collaborations provided actionable guidance for putting national msn policy into practice and leveraging the capacity of implementation staff.

Journal: Current developments in nutrition (2022)
Publication types: Journal Article
Aerial course stabilization is impaired in motion-blind flies.

Visual motion detection is among the best understood neuronal computations.As extensively investigated in tethered flies, visual motion signals are assumed to be crucial to detect and counteract involuntary course deviations.During free flight, however, course changes are also signalled by other sensory systems.Therefore, it is as yet unclear to what extent motion vision contributes to course control.To address this question, we genetically rendered flies motion-blind by blocking their primary motion-sensitive neurons and quantified their free-flight performance.We found that such flies have difficulty maintaining a straight flight trajectory, much like unimpaired flies in the dark.By unilateral wing clipping, we generated an asymmetry in propulsive force and tested the ability of flies to compensate for this perturbation.While wild-type flies showed a remarkable level of compensation, motion-blind animals exhibited pronounced circling behaviour.Our results therefore directly confirm that motion vision is necessary to fly straight under realistic conditions.

Journal: The Journal of experimental biology (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Extramedullary Tibial Bone Cutting Using Medial Cortical Line in Total Knee Arthroplasty.

This study aims to identify the effectiveness of the medial cortical line for attaining a more accurate tibial component alignment in proximal tibial resection using an extramedullary alignment rod.Materials and methods the study examined 100 cases of total knee arthroplasty performed from december 2013 to february 2014 in a retrospective manner.On a preoperative anteroposterior (ap) radiograph of the entire tibia, we identified the medial cortical line that runs parallel to the tibial anatomical axis and passes the medial tibial spine, and measured the point where the medial cortical line crosses between the medial malleolus and the lateral malleolus in the ankle joint.Results the preoperative ap radiograph of the tibia showed the medial cortical line passing the point 40.4%±0.8% medial to the distance from the medial malleolus to the lateral malleolus including the skin thickness in the ankle joint.When the proximal tibial resection was performed with the extramedullary tibial cutting guide aligned with the medial cortical line, the tibial component angle averaged 0.7°±0.3° varus and the alignment accuracy of the tibial component within 0°±3° varus amounted to 97.0%.Conclusions the use of the medial cortical line in proximal tibial resection with an extramedullary tibial cutting guide allowed for relatively accurate alignment of the tibial component.

Journal: Knee surgery & related research (2017)
Publication types: Journal Article