Cited references and Medical Subject Headings (MeSH) as two different knowledge representations: clustering and mappings at the paper level.

For the biomedical sciences, the Medical Subject Headings (MeSH) make available a rich feature which cannot currently be merged properly with widely used citing/cited data. Here, we provide methods and routines that make MeSH terms amenable to broader usage in the study of science indicators: using Web-of-Science (WoS) data, one can generate the matrix of citing versus cited documents; using PubMed/MEDLINE data, a matrix of the citing documents versus MeSH terms can be generated analogously. The two matrices can also be reorganized into a 2-mode matrix of MeSH terms versus cited references. Using the abbreviated journal names in the references, one can, for example, address the question whether MeSH terms can be used as an alternative to WoS Subject Categories for the purpose of normalizing citation data. We explore the applicability of the routines in the case of a research program about the amyloid cascade hypothesis in Alzheimer's disease. One conclusion is that referenced journals provide archival structures, whereas MeSH terms indicate mainly variation (including novelty) at the research front. Furthermore, we explore the option of using the citing/cited matrix for main-path analysis as a by-product of the software.

Pattern-Induced Covert Category Learning in Songbirds.

Language is uniquely human, but its acquisition may involve cognitive capacities shared with other species. During development, language experience alters speech sound (phoneme) categorization. Newborn infants distinguish the phonemes in all languages but by 10 months show adult-like greater sensitivity to native language phonemic contrasts than non-native contrasts. Distributional theories account for phonetic learning by positing that infants infer category boundaries from modal distributions of speech sounds along acoustic continua. For example, tokens of the sounds /b/ and /p/ cluster around different mean voice onset times. To disambiguate overlapping distributions, contextual theories propose that phonetic category learning is informed by higher-level patterns (e.g., words) in which phonemes normally occur. For example, the vowel sounds /Ι/ and /e/ can occupy similar perceptual spaces but can be distinguished in the context of "with" and "well." Both distributional and contextual cues appear to function in speech acquisition. Non-human species also benefit from distributional cues for category learning, but whether category learning benefits from contextual information in non-human animals is unknown. The use of higher-level patterns to guide lower-level category learning may reflect uniquely human capacities tied to language acquisition or more general learning abilities reflecting shared neurobiological mechanisms. Using songbirds, European starlings, we show that higher-level pattern learning covertly enhances categorization of the natural communication sounds. This observation mirrors the support for contextual theories of phonemic category learning in humans and demonstrates a general form of learning not unique to humans or language.

Temporal pattern processing in songbirds.

Understanding how the brain perceives, organizes and uses patterned information is directly related to the neurobiology of language. Given the present limitations, such knowledge at the scale of neurons, neural circuits and neural populations can only come from non-human models, focusing on shared capacities that are relevant to language processing. Here we review recent advances in the behavioral and neural basis of temporal pattern processing of natural auditory communication signals in songbirds, focusing on European starlings. We suggest a general inhibitory circuit for contextual modulation that can act to control sensory representations based on patterning rules.

Auditory temporal pattern learning by songbirds using maximal stimulus diversity and minimal repetition.

The sequential patterning of complex acoustic elements is a salient feature of bird song and other forms of vocal communication. For European starlings (Sturnus vulgaris), a songbird species, individual vocal recognition is improved when the temporal organization of song components (called motifs) follows the normal patterns of each singer. This sensitivity to natural motif sequences may underlie observations that starlings can also learn more complex, unnatural motif patterns. Alternatively, it has been proposed that the apparent acquisition of abstract motif patterning rules instead reflects idiosyncrasies of the training conditions used in prior experiments. That is, that motif patterns are learned not by recognizing differences in temporal structures between patterns, but by identifying serendipitous features (e.g., acoustical cues) in the small sets of training and testing stimuli used. Here, we investigate this possibility, by asking whether starlings can learn to discriminate between two arbitrary motif patterns, when unique examples of each pattern are presented on every trial. Our results demonstrate that abstract motif patterning rules can be acquired from trial-unique stimuli and suggest that such training leads to better pattern generalization compared with training with much smaller stimulus subsets.

Perceptual categories enable pattern generalization in songbirds.

Since Chomsky's pioneering work on syntactic structures, comparative psychologists interested in the study of language evolution have targeted pattern complexity, using formal mathematical grammars, as the key to organizing language-relevant cognitive processes across species. This focus on formal syntactic complexity, however, often disregards the close interaction in real-world signals between the structure of a pattern and its constituent elements. Whether such features of natural auditory signals shape pattern generalization is unknown. In the present paper, we train birds to recognize differently patterned strings of natural signals (song motifs). Instead of focusing on the complexity of the overtly reinforced patterns, we ask how the perceptual groupings of pattern elements influence the generalization pattern knowledge. We find that learning and perception of training patterns is agnostic to the perceptual features of underlying elements. Surprisingly, however, these same features constrain the generalization of pattern knowledge, and thus its broader use. Our results demonstrate that the restricted focus of comparative language research on formal models of syntactic complexity is, at best, insufficient to understand pattern use.

Targets for a comparative neurobiology of language.

One longstanding impediment to progress in understanding the neural basis of language is the development of model systems that retain language-relevant cognitive behaviors yet permit invasive cellular neuroscience methods. Recent experiments in songbirds suggest that this group may be developed into a powerful animal model, particularly for components of grammatical processing. It remains unknown, however, what a neuroscience of language perception may look like when instantiated at the cellular or network level. Here we deconstruct language perception into a minimal set of cognitive processes necessary to support grammatical processing. We then review the current state of our understanding about the neural mechanisms of these requisite cognitive processes in songbirds. We note where current knowledge is lacking, and suggest how these mechanisms may ultimately combine to support an emergent mechanism capable of processing grammatical structures of differing complexity.

What experimental experience affects dogs' comprehension of human communicative actions?

Studies of dogs report that individuals reliably respond to the goal-directed communicative actions (e.g., pointing) of human experimenters. All of these studies use some version of a multi-trial approach, thereby allowing for the possibility of rapid learning within an experimental session. The experiments reported here ask whether dogs can respond correctly to a communicative action based on only a single presentation, thereby eliminating the possibility of learning within the experimental context. We tested 173 dogs. For each dog reaching our test criteria, we used a single presentation of six different goal-directed actions within a session, asking whether they correctly follow to a target goal (container with concealed food) a (1) distal hand point, (2) step toward one container, (3) hand point to one container followed by step toward the other, (4) step toward one container and point to the other, (5) distal foot point with the experimenter's hands free, and (6) distal foot point with the experimenter's hands occupied. Given only a single presentation, dogs selected the correct container when the experimenter hand pointed, foot pointed with hands occupied, or stepped closer to the target container, but failed on the other actions, despite using the same method. The fact that dogs correctly followed foot pointing with hands occupied, but not hands free, suggests that they are sensitive to environmental constraints, and use this information to infer rational, goal-directed action. We discuss these results in light of the role of experience in recognizing communicative gestures, as well as the significance of coding criteria for studies of canine competence.

Innovative coconut-opening in a semi free-ranging rhesus monkey (Macaca mulatta): A case report on behavioral propensities.

The present case report provides a description of the emergence of an innovative, highly beneficial for- aging behavior in a single rhesus monkey (Macaca mulatta) on the island of Cayo Santiago, Puerto Rico. Selectively choosing the island's cement dock and nearby surrounding rocky terrain, our focal subject (ID: 84 J) opens coconuts using two types of underhand tosses: (1) a rolling motion to move it, and (2) a throwing motion up in the air to crack the shell. We discuss this innovative behavior in light of species-specific behavioral propensities.

Working memory for patterned sequences of auditory objects in a songbird.

The capacity to remember sequences is critical to many behaviors, such as navigation and communication. Adult humans readily recall the serial order of auditory items, and this ability is commonly understood to support, in part, the speech processing for language comprehension. Theories of short-term serial recall posit either use of absolute (hierarchically structured) or relative (associatively structured) position information. To date, neither of these classes of theories has been tested in a comparative auditory model. European starlings, a species of songbird, use temporally structured acoustic signals to communicate, and thus have the potential to serve as a model system for auditory working memory. Here, we explore the strategies that starlings use to detect the serial order of ecologically valid acoustic communication signals and the limits on their capacities to do so. Using a two-alternative choice operant procedure, we demonstrate that starlings can attend to the serial ordering of at least four song elements (motifs) and can use this information to classify differently ordered sequences of motifs. Removing absolute position cues from sequences while leaving relative position cues intact, causes recognition to fail. We then show that starlings can, however, recognize motif-sequences using only relative position cues, but only under rigid circumstances. The data are consistent with a strong learning bias against relative position information, and suggest that recognition of structured vocal signals in this species is inherently hierarchical.