The complicated story of the Cetus Stream (CS) is recently revealed by its newly discovered similar to 150 members with 6D kinematics from the cross-matched catalog of the Large Sky Area Multi-Object Fiber Spectroscopic Telescope (LAMOST) DR5 K giants and Gaia DR2. It exhibits a very diffuse structure at heliocentric distances between 20 and 50 kpc, extending over at least 100 degrees, and crossing the Galactic plane. Interestingly, The CS is dynamically linked to a massive globular cluster, NGC 5824. A suggestive scenario is that NGC 5824 was the nuclear star cluster of the dwarf progenitor of the CS. We explore this scenario by modeling the disruption process of a dwarf galaxy in the Milky Way potential, on the orbit of NGC 5824, using a suite of N-body simulations. Our results show that the simulated stream can marginally recover the main component of the CS, which is the densest part of the observed stream. Inspired by this mismatch, we use a dwarf progenitor following the representative orbit of the main component members, and find it can reproduce the general morphology of the CS. This gives us a more favorable scenario of the CS progenitor, in which NGC 5824 was not the core, but located off-center. Our fiducial model also predicts a vast extension of the CS in the South, surprisingly coincident with a newly discovered wide southern stream "Palca." Another more diffuse substructure, the Eridanus-Phoenix overdensity is also likely to be related to the CS progenitor.

Gene function curation via Gene Ontology (GO) annotation is a common task among Model Organism Database groups. Owing to its manual nature, this task is considered one of the bottlenecks in literature curation. There have been many previous attempts at automatic identification of GO terms and supporting information from full text. However, few systems have delivered an accuracy that is comparable with humans. One recognized challenge in developing such systems is the lack of marked sentence-level evidence text that provides the basis for making GO annotations. We aim to create a corpus that includes the GO evidence text along with the three core elements of GO annotations: (i) a gene or gene product, (ii) a GO term and (iii) a GO evidence code. To ensure our results are consistent with real-life GO data, we recruited eight professional GO curators and asked them to follow their routine GO annotation protocols. Our annotators marked up more than 5000 text passages in 200 articles for 1356 distinct GO terms. For evidence sentence selection, the inter-annotator agreement (IAA) results are 9.3% (strict) and 42.7% (relaxed) in F-1-measures. For GO term selection, the IAAs are 47% (strict) and 62.9% (hierarchical). Our corpus analysis further shows that abstracts contain similar to 10% of relevant evidence sentences and 30% distinct GO terms, while the Results/Experiment section has nearly 60% relevant sentences and >70% GO terms. Further, of those evidence sentences found in abstracts, less than one-third contain enough experimental detail to fulfill the three core criteria of a GO annotation. This result demonstrates the need of using full-text articles for text mining GO annotations. Through its use at the BioCreative IV GO (BC4GO) task, we expect our corpus to become a valuable resource for the BioNLP research community.

Gene function curation via Gene Ontology (GO) annotation is a common task among Model Organism Database groups. Owing to its manual nature, this task is considered one of the bottlenecks in literature curation. There have been many previous attempts at automatic identification of GO terms and supporting information from full text. However, few systems have delivered an accuracy that is comparable with humans. One recognized challenge in developing such systems is the lack of marked sentence-level evidence text that provides the basis for making GO annotations. We aim to create a corpus that includes the GO evidence text along with the three core elements of GO annotations: (i) a gene or gene product, (ii) a GO term and (iii) a GO evidence code. To ensure our results are consistent with real-life GO data, we recruited eight professional GO curators and asked them to follow their routine GO annotation protocols. Our annotators marked up more than 5000 text passages in 200 articles for 1356 distinct GO terms. For evidence sentence selection, the inter-annotator agreement (IAA) results are 9.3% (strict) and 42.7% (relaxed) in F-1-measures. For GO term selection, the IAAs are 47% (strict) and 62.9% (hierarchical). Our corpus analysis further shows that abstracts contain similar to 10% of relevant evidence sentences and 30% distinct GO terms, while the Results/Experiment section has nearly 60% relevant sentences and >70% GO terms. Further, of those evidence sentences found in abstracts, less than one-third contain enough experimental detail to fulfill the three core criteria of a GO annotation. This result demonstrates the need of using full-text articles for text mining GO annotations. Through its use at the BioCreative IV GO (BC4GO) task, we expect our corpus to become a valuable resource for the BioNLP research community.

Gene Ontology (GO) annotation is a common task among model organism databases (MODs) for capturing gene function data from journal articles. It is a time-consuming and labor-intensive task, and is thus often considered as one of the bottlenecks in literature curation. There is a growing need for semiautomated or fully automated GO curation techniques that will help database curators to rapidly and accurately identify gene function information in full-length articles. Despite multiple attempts in the past, few studies have proven to be useful with regard to assisting real-world GO curation. The shortage of sentence-level training data and opportunities for interaction between text-mining developers and GO curators has limited the advances in algorithm development and corresponding use in practical circumstances. To this end, we organized a text-mining challenge task for literature-based GO annotation in BioCreative IV. More specifically, we developed two subtasks: (i) to automatically locate text passages that contain GO-relevant information (a text retrieval task) and (ii) to automatically identify relevant GO terms for the genes in a given article (a concept-recognition task). With the support from five MODs, we provided teams with >4000 unique text passages that served as the basis for each GO annotation in our task data. Such evidence text information has long been recognized as critical for text-mining algorithm development but was never made available because of the high cost of curation. In total, seven teams participated in the challenge task. From the team results, we conclude that the state of the art in automatically mining GO terms from literature has improved over the past decade while much progress is still needed for computer-assisted GO curation. Future work should focus on addressing remaining technical challenges for improved performance of automatic GO concept recognition and incorporating practical benefits of text-mining tools into real-world GO annotation.

Gene Ontology (GO) annotation is a common task among model organism databases (MODs) for capturing gene function data from journal articles. It is a time-consuming and labor-intensive task, and is thus often considered as one of the bottlenecks in literature curation. There is a growing need for semiautomated or fully automated GO curation techniques that will help database curators to rapidly and accurately identify gene function information in full-length articles. Despite multiple attempts in the past, few studies have proven to be useful with regard to assisting real-world GO curation. The shortage of sentence-level training data and opportunities for interaction between text-mining developers and GO curators has limited the advances in algorithm development and corresponding use in practical circumstances. To this end, we organized a text-mining challenge task for literature-based GO annotation in BioCreative IV. More specifically, we developed two subtasks: (i) to automatically locate text passages that contain GO-relevant information (a text retrieval task) and (ii) to automatically identify relevant GO terms for the genes in a given article (a concept-recognition task). With the support from five MODs, we provided teams with >4000 unique text passages that served as the basis for each GO annotation in our task data. Such evidence text information has long been recognized as critical for text-mining algorithm development but was never made available because of the high cost of curation. In total, seven teams participated in the challenge task. From the team results, we conclude that the state of the art in automatically mining GO terms from literature has improved over the past decade while much progress is still needed for computer-assisted GO curation. Future work should focus on addressing remaining technical challenges for improved performance of automatic GO concept recognition and incorporating practical benefits of text-mining tools into real-world GO annotation.

We measure how the properties of star-forming central galaxies correlate with large-scale environment, delta, measured on 10 h(-1) Mpc scales. We use galaxy group catalogues to isolate a robust sample of central galaxies with high purity and completeness. The galaxy properties we investigate are star formation rate (SFR), exponential disc scale length R-exp, and Sersic index of the galaxy light profile, n(S). We find that, at all stellar masses, there is an inverse correlation between SFR and delta, meaning that above-average star-forming centrals live in underdense regions. For n(S) and R-exp, there is no correlation with delta at M-* less than or similar to 10(10.5) M-circle dot, but at higher masses there are positive correlations; a weak correlation with R-exp and a strong correlation with n(S). These data are evidence of assembly bias within the star-forming population. The results for SFR are consistent with a model in which SFR correlates with present-day halo accretion rate, (M) over dot(h). In this model, galaxies are assigned to haloes using the abundance-matching ansatz, which maps galaxy stellar mass onto halo mass. At fixed halo mass, SFR is then assigned to galaxies using the same approach, but. (M) over dot(h) is used to map onto SFR. The best-fitting model requires some scatter in the (M) over dot(h)-SFR relation. The R-exp and n(S) measurements are consistent with a model in which both of these quantities are correlated with the spin parameter of the halo, lambda. Halo spin does not correlate with delta at low halo masses, but for higher mass haloes, high-spin haloes live in higher density environments at fixed M-h. Put together with the earlier instalments of this series, these data demonstrate that quenching processes have limited correlation with halo formation history, but the growth of active galaxies, as well as other detailed galaxies properties, are influenced by the details of halo assembly.

We measure how the properties of star-forming central galaxies correlate with large-scale environment, delta, measured on 10 h(-1) Mpc scales. We use galaxy group catalogues to isolate a robust sample of central galaxies with high purity and completeness. The galaxy properties we investigate are star formation rate (SFR), exponential disc scale length R-exp, and Sersic index of the galaxy light profile, n(S). We find that, at all stellar masses, there is an inverse correlation between SFR and delta, meaning that above-average star-forming centrals live in underdense regions. For n(S) and R-exp, there is no correlation with delta at M-* less than or similar to 10(10.5) M-circle dot, but at higher masses there are positive correlations; a weak correlation with R-exp and a strong correlation with n(S). These data are evidence of assembly bias within the star-forming population. The results for SFR are consistent with a model in which SFR correlates with present-day halo accretion rate, (M) over dot(h). In this model, galaxies are assigned to haloes using the abundance-matching ansatz, which maps galaxy stellar mass onto halo mass. At fixed halo mass, SFR is then assigned to galaxies using the same approach, but. (M) over dot(h) is used to map onto SFR. The best-fitting model requires some scatter in the (M) over dot(h)-SFR relation. The R-exp and n(S) measurements are consistent with a model in which both of these quantities are correlated with the spin parameter of the halo, lambda. Halo spin does not correlate with delta at low halo masses, but for higher mass haloes, high-spin haloes live in higher density environments at fixed M-h. Put together with the earlier instalments of this series, these data demonstrate that quenching processes have limited correlation with halo formation history, but the growth of active galaxies, as well as other detailed galaxies properties, are influenced by the details of halo assembly.