Reorienting psychological science.

Psychological phenomena occur across a wide range of scales, ranging from small, quick events of neurology and biology, to broader, more prolonged unfoldings typical of extended cultural practices. Although theories deployed by psychologists of different stripes have tended to incorporate these different scales, this is typically done in a manner that is implicit, and often unsystematic. That is, typical psychological research is conducted in a manner that is 'scale-blind'. In this article, I explore some of the historical and more recent recognition of this scale-blindness and place it in the context of recent work on the concept and implications of scale. I conclude by elucidating some of the important ways in which behaviour settings theory, and the researchers who developed it, are explicit and disciplined in their approach to scale, and how such scale-aware work promises practical value in improving scientific practice. This article is part of the theme issue 'People, places, things, and communities: expanding behaviour settings theory in the 21st century'.

Exploring in the classroom the relationship between alcohol intake and behavioral disorders through an animal model.

Alcohol consumption has profound effects on behavior, such as impaired judgment, addiction or even death. It is estimated that alcohol contributes to around three million deaths worldwide, 13.5% of them in young people with ages between 20 and 39 years. Consequently, it is necessary to raise awareness among college and high school students of the risk related to alcohol drinking. The small nematode Caenorhabditis elegans is an animal widely used as a model organism to study nearly all aspects of Biochemistry. It is a powerful tool to test the potential bioactivity and molecular mechanisms of natural compounds and drugs in vivo. Therefore, it is an interesting topic to include in an undergraduate course of Biotechnology, Biochemistry or Biology students among other scientific vocations. C. elegans is also used as a neurobiological model to evaluate substances' neurotoxicity and behavioral effects. The proposed experiment introduces students to the handling of this preclinical model and to the evaluation of behavioral alterations induced by chemicals in scientific research. The effects of different doses of ethanol on C. elegans behavior are studied using a versatile chemotaxis assay. This laboratory experiment is suitable for an undergraduate course. The practical session can be used in the global strategies of information and awareness of educational centres to mitigate the impact of alcohol abuse among students, both in formal courses or in Science fairs or exhibitions.

Ottoman plants, nature studies, and the attentiveness of translational labor.

Translations, whether in the form of text, illustration, or interpretive analysis, served knowledge-making in multiple ways. It offered a refuge, severed contexts, and concealed the various workers that created it. Over the course of the seventeenth century, European naturalists in Istanbul, such as Luigi Ferdinando Marsigli (1658-1730), procured illustrations of Ottoman nature as fundamental resources to identify, collect, and compare indigenous plants and newly bred varieties. Despite maintaining an actual mediation for cross-cultural interactions, these sources of virtual communication remain largely forgotten in modern scholarship. This article argues that this curious yet invisible corpus was not a nonagentive medium in an alienated leisure of a gentleman-scholar; instead, these illustrations were designed to call upon the viewer's constant attention in self-motivated scientific labor. Such handy tools responded and contributed to early modern scholars' modes of working, and in exchange they determined these sources' own function, position, and visibility - either as a by-product or as a derivative. It is therefore only when integrated into the labor history of science that the degrees of invisibility pertaining to both Ottoman nature studies and self-directed labor can come into a granular view.

How molecular techniques are developed from natural systems.

A striking characteristic of the molecular techniques of genetics is that they are derived from natural occurring systems. RNA interference, for example, utilizes a mechanism that evolved in eukaryotes to destroy foreign nucleic acid. Other case studies I highlight are restriction enzymes, DNA sequencing, polymerase chain reaction, gene targeting, fluorescent proteins (such as, green fluorescent protein), induced pluripotent stem cells, and clustered regularly interspaced short palindromic repeats-CRISPR associated 9. The natural systems' strategy for technique development means that biologists utilize the activity of a mechanism's effector (protein or RNA) and exploit biological specificity (protein or nucleic acid can cause precise reactions). I also argue that the developmental trajectory of novel molecular techniques, such as RNA interference, has 4 characteristic phases. The first phase is discovery of a biological phenomenon. The second phase is identification of the biological mechanism's trigger(s): the effector and biological specificity. The third phase is the application of the trigger(s) as a technique. The final phase is the maturation and refinement of the technique. Developing new molecular techniques from nature is crucial for future genetic research.

On the pursuitworthiness of qualitative methods in empirical philosophy of science.

While the pursuitworthiness of philosophical ideas has changed over time, philosophical practice and methodology have not kept pace. The worthiness of a philosophical pursuit includes not only the ideas and objectives one pursues but also the methods with which one pursues them. In this paper, we articulate how empirical approaches benefit philosophy of science, particularly advocating for the use of qualitative methods for understanding the social and normative aspects of scientific inquiry. After situating qualitative methods within empirical philosophy of science, we discuss how to adapt these traditionally sociological methods to empirically inform philosophical questions. Our aim is to normalize and legitimize qualitative methods for philosophical purposes and discuss how they can elucidate descriptive and normative components of scientific practice in a more generalizable non-idealized manner. We contend that qualitative methods are particularly well suited to philosophical interest in the social norms of science, their achievability, and their mutability. Furthermore, unlike more historical case studies in philosophy, qualitative methods enable more confidence in generalizability, albeit limited, from a concrete sample to a larger class. We conclude by addressing anxieties about the distinctness of empirical philosophy of science from social epistemology and from sociology of science.

Affective geographies: Family and friendship in the production of scientific knowledge.

Through case studies of two early nineteenth-century French geologists, this article shows how relations of family and friendship were integral to determining where science took place. Digging up the traces of what I call the "affective geographies" of individual scientists that are entangled with their intellectual itineraries, I show how the practice of science is embedded in such affective relations and thus in everyday life.

Clarifying how social epidemiological research constructs the category of low socioeconomic status: A response to Kamphuis et al.

In our previous article, published in this journal, we argued that epidemiology has a constructive role with regard to socioeconomic health inequalities. We concluded that, as long as the construction of LSES remains unquestioned, social epidemiology might continue to (re)produce what it examines: LSES populations 'known to be unhealthy'. Recently, in this journal, Kamphuis et al. responded to our article. While they welcomed our reflections, the authors also posed critique to our arguments. In this paper, we respond to that critique and deepen the discussion on the use of (L)SES categories in social epidemiology. For this purpose, we further clarify our arguments and state that in health inequality research it is important to: 1) Pay attention to the unintended effects of research; 2) Consider the origin and effects of explanatory concepts; and 3) reflect on the norms of cultural capital.

Chore or desire? Students' response to online lessons in scientific integrity.

One of the main responsibilities of universities for their students, researchers, and society is to teach scientific integrity. Over the years, many universities-including RWTH Aachen University-have developed modules to impart the rules of good scientific practice. The current case study outlines the "Scientific Integrity" online course of RWTH Aachen University that has been offered to all master's students starting in October 2020; it explains to what extent the topic of scientific integrity meets genuine interest among students. Based on the online questionnaires that students were asked to fill out before starting the course (Q1) and after completing the course (Q2), it was verified that the implemented course achieved a satisfactory, but expandable acceptance. 57% of study participants initially (Q1) strongly affirmed to be interested in the topic; said percentage increased to 65.3% at the end of the course (Q2). While at the time of Q1 most students admitted that they would not take the course if it were voluntary, the majority of study participants came to the opposite conclusion after the course (Q2). The results suggest that the assessment of the relevance of the course may be dependent on familiarity with its contents.

The architecture of the hybrid lab: Spacing graphene research.

Building on and renewing a long line of STS research of lab materialities, this article sheds light on a type of architecture organized around the 'heroic agency' of a new nanomaterial, graphene. It examines how design responds to the dynamic and multi-applicational ambitions of contemporary science. An ethnographic study of the National Graphene Institute in Manchester allows us to see how the building's design has epistemic and social effects, how different spatial arrangements facilitate the shaping of research habits and mediate various rhythms of lab work. Key features of this hybrid lab are: first, a shifting balance between public and private places, with a prevalence of collective activities; second, its capacity to reinforce epistemically and socially the conditions of visibility, by emphasizing the work of making research practice visible; third, its distinctive way to speed up research, often by slowing down the circulation of people and things. All these features make the hybrid lab a unique spatial articulation of a new cultural order of innovation.

Cell line authentication: a necessity for reproducible biomedical research.

Immortalized or continuous cell lines are invaluable tools in basic and preclinical research. However, the widespread use of misidentified cell lines is a serious threat to scientific reproducibility. Based on the experiences of mandatory cell line authentication at the International Journal of Cancer (IJC), we provide an overview of the issues pertinent to misidentified cell lines and discuss available solutions. We also summarize the lessons learned, revealing that at least 5% of the human cell lines used in manuscripts considered for peer review are misidentified. About 4% of the considered manuscripts are rejected for severe cell line problems, and most are subsequently published in other journals. In order to diminish such malpractice and its consequences for the scientific record, we postulate that strict multi-layered quality control is essential. Besides journals and publishers, we encourage scientists, research institutions, and funders to take action on the matter and revise their respective policies. Hence, we provide concrete recommendations on introducing regular authentication schemes and staff training, and discuss future steps for enhancing good cell culture practices.

Good scientific practice in EEG and MEG research: Progress and perspectives.

Good scientific practice (GSP) refers to both explicit and implicit rules, recommendations, and guidelines that help scientists to produce work that is of the highest quality at any given time, and to efficiently share that work with the community for further scrutiny or utilization. For experimental research using magneto- and electroencephalography (MEEG), GSP includes specific standards and guidelines for technical competence, which are periodically updated and adapted to new findings. However, GSP also needs to be regularly revisited in a broader light. At the LiveMEEG 2020 conference, a reflection on GSP was fostered that included explicitly documented guidelines and technical advances, but also emphasized intangible GSP: a general awareness of personal, organizational, and societal realities and how they can influence MEEG research. This article provides an extensive report on most of the LiveMEEG contributions and new literature, with the additional aim to synthesize ongoing cultural changes in GSP. It first covers GSP with respect to cognitive biases and logical fallacies, pre-registration as a tool to avoid those and other early pitfalls, and a number of resources to enable collaborative and reproducible research as a general approach to minimize misconceptions. Second, it covers GSP with respect to data acquisition, analysis, reporting, and sharing, including new tools and frameworks to support collaborative work. Finally, GSP is considered in light of ethical implications of MEEG research and the resulting responsibility that scientists have to engage with societal challenges. Considering among other things the benefits of peer review and open access at all stages, the need to coordinate larger international projects, the complexity of MEEG subject matter, and today's prioritization of fairness, privacy, and the environment, we find that current GSP tends to favor collective and cooperative work, for both scientific and for societal reasons.

Process epistemology in the COVID-19 era: rethinking the research process to avoid dangerous forms of reification.

Whether we live in a world of autonomous things, or a world of interconnected processes in constant flux, is an ancient philosophical debate. Modern biology provides decisive reasons for embracing the latter view. How does one understand the practices and outputs of science in such a dynamic, ever-changing world - and particularly in an emergency situation such as the COVID-19 pandemic, where scientific knowledge has been regarded as bedrock for decisive social interventions? We argue that key to answering this question is to consider the role of the activity of reification within the research process. Reification consists in the identification of more or less stable features of the flux, and treating these as constituting stable things. As we illustrate with reference to biological and biomedical research on COVID-19, reification is a necessary component of any process of inquiry and comes in at least two forms: (1) means reification (phenomena-to-object), when researchers create objects meant to capture features of the world, or phenomena, in order to be able to study them; and (2) target reification (object-to-phenomena), when researchers infer an understanding of phenomena from an investigation of the epistemic objects created to study them. We note that both objects and phenomena are dynamic processes and argue that have no reason to assume that changes in objects and phenomena track one another. We conclude that failure to acknowledge these forms of reification and their epistemic role in scientific inquiry can have dire consequences for how the resulting knowledge is interpreted and used.

RESPONSE_ABILITY A Card-Based Engagement Method to Support Researchers' Ability to Respond to Integrity Issues.

Issues related to research integrity receive increasing attention in policy discourse and beyond with most universities having introduced by now courses addressing issues of good scientific practice. While communicating expectations and regulations related to good scientific practice is essential, criticism has been raised that integrity courses do not sufficiently address discipline and career-stage specific dimensions, and often do not open up spaces for in-depth engagement. In this article, we present the card-based engagement method RESPONSE_ABILITY, which aims at supporting researchers in developing their ability to respond to challenges of good scientific practice. The method acknowledges that what counts and what does not count as acceptable practice may not be as clear-cut as imagined and that research environments matter when it comes to integrity issues. Using four sets of cards as stimulus material, participants are invited to reflect individually and collectively about questions of research integrity from different perspectives. This approach is meant to train them to negotiate in which contexts certain practices can still be regarded as acceptable and where possible transgressions might begin. RESPONSE_ABILITY can be seen as fostering the creation of an integrity culture as it invites a more reflexive engagement with ideals and realities of good practice and opens a space to address underlying value conflicts researchers may be confronted with. Concluding the article, we call for caution that addressing issues of integrity meaningfully requires striking a delicate balance between raising researchers' awareness of individual responsibilities and creating institutional environments that allow them to be response-able.

Climate crisis and ecological emergency: Why they concern (neuro)scientists, and what we can do.

Our planet is experiencing severe and accelerating climate and ecological breakdown caused by human activity. As professional scientists, we are better placed than most to understand the data that evidence this fact. However, like most other people, we ignore this inconvenient truth and lead our daily lives, at home and at work, as if these facts weren't true. In particular, we overlook that our own neuroscientific research practices, from our laboratory experiments to our often global travel, help drive climate change and ecosystem damage. We also hold privileged positions of authority in our societies but rarely speak out. Here, we argue that to help society create a survivable future, we neuroscientists can and must play our part. In April 2021, we delivered a symposium at the British Neuroscience Association meeting outlining what we think neuroscientists can and should do to help stop climate breakdown. Building on our talks (Box 1), we here outline what the climate and ecological emergencies mean for us as neuroscientists. We highlight the psychological mechanisms that block us from taking action, and then outline what practical steps we can take to overcome these blocks and work towards sustainability. In particular, we review environmental issues in neuroscience research, scientific computing, and conferences. We also highlight the key advocacy roles we can all play in our institutions and in society more broadly. The need for sustainable change has never been more urgent, and we call on all (neuro)scientists to act with the utmost urgency.

A transformation of Bayesian statistics:Computation, prediction, and rationality.

Bayesian approaches have long been a small minority group in scientific practice, but quickly acquired a high level of popularity since the 1990s. This paper shall describe and analyze this turn. I argue that the success of Bayesian approaches hinges on computational methods that make a class of models predictive that would otherwise lack practical relevance. Philosophically, however, this orientation toward prediction comes at a price. The new computational approaches change Bayesian rationality in an important way. Namely, they undercut the interpretation of priors, turning them from an expression of beliefs held prior to new evidence into an adjustable parameter that can be manipulated flexibly by computational machinery. Thus, in the case of Bayes, one can see a coevolution of computing technology, an exploratory-iterative mode of prediction, and the conception of rationality.

The curse of the uncultured fungus.

The international DNA sequence databases abound in fungal sequences not annotated beyond the kingdom level, typically bearing names such as "uncultured fungus". These sequences beget low-resolution mycological results and invite further deposition of similarly poorly annotated entries. What do these sequences represent? This study uses a 767,918-sequence corpus of public full-length fungal ITS sequences to estimate what proportion of the 95,055 "uncultured fungus" sequences that represent truly unidentifiable fungal taxa - and what proportion of them that would have been straightforward to annotate to some more meaningful taxonomic level at the time of sequence deposition. Our results suggest that more than 70% of these sequences would have been trivial to identify to at least the order/family level at the time of sequence deposition, hinting that factors other than poor availability of relevant reference sequences explain the low-resolution names. We speculate that researchers' perceived lack of time and lack of insight into the ramifications of this problem are the main explanations for the low-resolution names. We were surprised to find that more than a fifth of these sequences seem to have been deposited by mycologists rather than researchers unfamiliar with the consequences of poorly annotated fungal sequences in molecular repositories. The proportion of these needlessly poorly annotated sequences does not decline over time, suggesting that this problem must not be left unchecked.

Forgotten rhythms? Revisiting the first evidence for rhythms in cognition.

Practically every neuroscientist knows that human brain rhythms were first recorded in the 1920s by Hans Berger, who coined the term 'alpha waves' for the regular activity of around 10 cycles per second that was clearly visible in many of his recordings. Almost 100 years later, alpha rhythms are still the subject of active investigation and continue to intrigue researchers. What we have perhaps forgotten though, is the clever experimentation that was carried out during the first decades of electroencephalogram (EEG) research, often using sophisticated, custom-made analysis and stimulation devices. Here, I review selected findings from the early EEG literature regarding the character, origin, and meaning of human brain rhythms, beginning with Berger's publications and then focusing on the use of regular visual stimulation as a tool to understand intrinsic brain rhythms. It is clear that many of these findings are still relevant to open questions about the role of rhythmic brain activity. In addition, they also contain some general lessons for contemporary neuroscientists, meaning that there is great value in looking back at these forgotten publications.

Results dissemination from completed clinical trials conducted at German university medical centers remained delayed and incomplete. The 2014 -2017 cohort.

OBJECTIVE: Timely publication of clinical trial results is central for evidence-based medicine. In this follow-up study we benchmark the performance of German university medical centers (UMCs) regarding timely dissemination of clinical trial results in recent years. METHODS: Following the same search and tracking methods used in our previous study for the years 2009 - 2013, we identified trials led by German UMCs completed between 2014 and 2017 and tracked results dissemination for the identified trials. RESULTS: We identified 1,658 trials in the 2014 -2017 cohort. Of these trials, 43% published results as either journal publication or summary results within 24 months after completion date, which is an improvement of 3.8% percentage points compared to the previous study. At the UMC level, the proportion published after 24 months ranged from 14% to 71%. Five years after completion, 30% of the trials still remained unpublished. CONCLUSION: Despite minor improvements compared to the previously investigated cohort, the proportion of timely reported trials led by German UMCs remains low. German UMCs should take further steps to improve the proportion of timely reported trials.

Common Pitfalls and Recommendations for Grand Challenges in Medical Artificial Intelligence.

With the impact of artificial intelligence (AI) algorithms on medical research on the rise, the importance of competitions for comparative validation of algorithms, so-called challenges, has been steadily increasing, to a point at which challenges can be considered major drivers of research, particularly in the biomedical image analysis domain. Given their importance, high quality, transparency, and interpretability of challenges is essential for good scientific practice and meaningful validation of AI algorithms, for instance towards clinical translation. This mini-review presents several issues related to the design, execution, and interpretation of challenges in the biomedical domain and provides best-practice recommendations. PATIENT SUMMARY: This paper presents recommendations on how to reliably compare the usefulness of new artificial intelligence methods for analysis of medical images.