The Educational Journal
- Date: 1984-11
- Subjects: Education –- South Africa , South Africa -- Politics and government , Government, Resistance to -- South Africa
- Language: English
- Type: text , Article
- Identifier: http://hdl.handle.net/10948/37093 , vital:34102 , Bulk File 7
- Description: The Educational Journal was the official organ of the Teachers' League of South Africa and focussed on education within the context of a racialized South Africa.
- Full Text: false
- Date Issued: 1984-11
- Date: 1984-11
- Subjects: Education –- South Africa , South Africa -- Politics and government , Government, Resistance to -- South Africa
- Language: English
- Type: text , Article
- Identifier: http://hdl.handle.net/10948/37093 , vital:34102 , Bulk File 7
- Description: The Educational Journal was the official organ of the Teachers' League of South Africa and focussed on education within the context of a racialized South Africa.
- Full Text: false
- Date Issued: 1984-11
Jesus, Che, Luaty: on the relationship between a digital picture and an iconic image in political iconography in Angola
- Authors: Siegert, Nadine
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/145919 , vital:38478 , DOI: 10.2979/africatoday.65.1.04
- Description: This essay makes a close examination of a selection of images of the Angolan rapper Luaty Beirão, who became internationally known as a political activist during his imprisonment in June 2015, accused of staging a coup d'état. By analyzing and interpreting images that were highly mediatized during that period, this article shows how political iconography can be traced back to Christian iconography and other images. Such filiations of images and their mediatization invoke a power that contributes to the formation of political and popular icons. This article analyzes this nexus by deconstructing the transmutation of a photograph into a popular icon.
- Full Text:
- Date Issued: 2018
- Authors: Siegert, Nadine
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/145919 , vital:38478 , DOI: 10.2979/africatoday.65.1.04
- Description: This essay makes a close examination of a selection of images of the Angolan rapper Luaty Beirão, who became internationally known as a political activist during his imprisonment in June 2015, accused of staging a coup d'état. By analyzing and interpreting images that were highly mediatized during that period, this article shows how political iconography can be traced back to Christian iconography and other images. Such filiations of images and their mediatization invoke a power that contributes to the formation of political and popular icons. This article analyzes this nexus by deconstructing the transmutation of a photograph into a popular icon.
- Full Text:
- Date Issued: 2018
Sequence and domain conservation of the coelacanth Hsp40 and Hsp90 chaperones suggests conservation of function
- Tastan Bishop, Özlem, Edkins, Adrienne L, Blatch, Gregory L
- Authors: Tastan Bishop, Özlem , Edkins, Adrienne L , Blatch, Gregory L
- Date: 2014
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/126932 , vital:35936 , https://doi.10.1002/jez.b.22541
- Description: Molecular chaperones and their associated co‐chaperones play an important role in preserving and regulating the active conformational state of cellular proteins. The chaperone complement of the Indonesian Coelacanth, Latimeria menadoensis, was elucidated using transcriptomic sequences. Heat shock protein 90 (Hsp90) and heat shock protein 40 (Hsp40) chaperones, and associated cochaperones were focused on, and homologous human sequences were used to search the sequence databases. Coelacanth homologs of the cytosolic, mitochondrial and endoplasmic reticulum (ER) homologs of human Hsp90 were identified, as well as all of the major co‐chaperones of the cytosolic isoform. Most of the human Hsp40s were found to have coelacanth homologs, and the data suggested that all of the chaperone machinery for protein folding at the ribosome, protein translocation to cellular compartments such as the ER and protein degradation were conserved. Some interesting similarities and differences were identified when interrogating human, mouse, and zebrafish homologs. For example, DnaJB13 is predicted to be a non‐functional Hsp40 in humans, mouse, and zebrafish due to a corrupted histidine‐proline‐aspartic acid (HPD) motif, while the coelacanth homolog has an intact HPD. These and other comparisons enabled important functional and evolutionary questions to be posed for future experimental studies.
- Full Text:
- Date Issued: 2014
- Authors: Tastan Bishop, Özlem , Edkins, Adrienne L , Blatch, Gregory L
- Date: 2014
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/126932 , vital:35936 , https://doi.10.1002/jez.b.22541
- Description: Molecular chaperones and their associated co‐chaperones play an important role in preserving and regulating the active conformational state of cellular proteins. The chaperone complement of the Indonesian Coelacanth, Latimeria menadoensis, was elucidated using transcriptomic sequences. Heat shock protein 90 (Hsp90) and heat shock protein 40 (Hsp40) chaperones, and associated cochaperones were focused on, and homologous human sequences were used to search the sequence databases. Coelacanth homologs of the cytosolic, mitochondrial and endoplasmic reticulum (ER) homologs of human Hsp90 were identified, as well as all of the major co‐chaperones of the cytosolic isoform. Most of the human Hsp40s were found to have coelacanth homologs, and the data suggested that all of the chaperone machinery for protein folding at the ribosome, protein translocation to cellular compartments such as the ER and protein degradation were conserved. Some interesting similarities and differences were identified when interrogating human, mouse, and zebrafish homologs. For example, DnaJB13 is predicted to be a non‐functional Hsp40 in humans, mouse, and zebrafish due to a corrupted histidine‐proline‐aspartic acid (HPD) motif, while the coelacanth homolog has an intact HPD. These and other comparisons enabled important functional and evolutionary questions to be posed for future experimental studies.
- Full Text:
- Date Issued: 2014
‘White excellence and black failure’: the reproduction of racialised higher education in everyday talk
- Robus, Donovan, Macleod, Catriona I
- Authors: Robus, Donovan , Macleod, Catriona I
- Date: 2006
- Language: English
- Type: Article
- Identifier: vital:6254 , http://hdl.handle.net/10962/d1007872
- Description: Since the advent of democracy in South Africa in 1994, much effort has been expended on overcoming the institutionalised racism that characterised apartheid. The transformation of higher education, particularly with regard to the merging and incorporation of institutions, is such an example. This article is an analysis of discourses on race emerging in the talk of students and staff during the incorporation of a historically white satellite campus (Rhodes University East London) into a historically black university (University of Fort Hare). The argument, which relies on Essed’s notion of everyday racism, infused with insights from discursive psychology, is that higher education institutions areracialised through the intricate interweaving of macro-level processes and discourses that recur in everyday talk and practices. In their talk, the participants in the study persistently assigned racialised identities to the institutions (Rhodes is white and Fort Hare is black) and invoked a ‘white excellence/black failure’ discourse. ‘White excellence’ folds in on, and is reproduced by, the desirable, modern, urban space and an appeal to Euro-American standards. Institutions and individuals are positioned as being able to overcome ‘black failure’ by moving into white space and through intense personal labour.
- Full Text:
- Date Issued: 2006
- Authors: Robus, Donovan , Macleod, Catriona I
- Date: 2006
- Language: English
- Type: Article
- Identifier: vital:6254 , http://hdl.handle.net/10962/d1007872
- Description: Since the advent of democracy in South Africa in 1994, much effort has been expended on overcoming the institutionalised racism that characterised apartheid. The transformation of higher education, particularly with regard to the merging and incorporation of institutions, is such an example. This article is an analysis of discourses on race emerging in the talk of students and staff during the incorporation of a historically white satellite campus (Rhodes University East London) into a historically black university (University of Fort Hare). The argument, which relies on Essed’s notion of everyday racism, infused with insights from discursive psychology, is that higher education institutions areracialised through the intricate interweaving of macro-level processes and discourses that recur in everyday talk and practices. In their talk, the participants in the study persistently assigned racialised identities to the institutions (Rhodes is white and Fort Hare is black) and invoked a ‘white excellence/black failure’ discourse. ‘White excellence’ folds in on, and is reproduced by, the desirable, modern, urban space and an appeal to Euro-American standards. Institutions and individuals are positioned as being able to overcome ‘black failure’ by moving into white space and through intense personal labour.
- Full Text:
- Date Issued: 2006
The Educational Journal
- Date: 1985-12
- Subjects: Education –- South Africa , South Africa -- Politics and government , Government, Resistance to -- South Africa
- Language: English
- Type: text , Article
- Identifier: http://hdl.handle.net/10948/36232 , vital:33909 , Bulk File 7
- Description: The Educational Journal was the official organ of the Teachers' League of South Africa and focussed on education within the context of a racialized South Africa.
- Full Text: false
- Date Issued: 1985-12
- Date: 1985-12
- Subjects: Education –- South Africa , South Africa -- Politics and government , Government, Resistance to -- South Africa
- Language: English
- Type: text , Article
- Identifier: http://hdl.handle.net/10948/36232 , vital:33909 , Bulk File 7
- Description: The Educational Journal was the official organ of the Teachers' League of South Africa and focussed on education within the context of a racialized South Africa.
- Full Text: false
- Date Issued: 1985-12
The geology and geochemistry of the Palaeoproterozoic Makganyene diamictite
- Polteau, S, Moore, John M, Tsikos, Harilaos
- Authors: Polteau, S , Moore, John M , Tsikos, Harilaos
- Date: 2006
- Language: English
- Type: Article
- Identifier: vital:6740 , http://hdl.handle.net/10962/d1007556
- Description: The Palaeoproterozoic Earth experienced a global glacial event at 2400 Ma that occurred during the transitional period from anoxic to aerobic conditions in the atmosphere and oceans. The Transvaal Supergroup in the Griqualand West Basin, South Africa, hosts glacial deposits and associated major iron and manganese deposits that are apparently related to these global changes. The focus of this study is to assess the stratigraphy and geochemistry of the glaciogenic Makganyene Formation, in order to constrain its palaeoenvironmental settings. The Makganyene Formation forms the base of the Postmasburg Group and has been regarded as resting on an erosive regional unconformity throughout the Northern Cape Province. Systematic regional field observations and regional mapping carried out during this study demonstrate that this stratigraphic relationship is not universal. The Makganyene Formation is, in fact, conformable with underlying formations of the Koegas Subgroup in the deep southern Prieska basin and rests on an unconformity only on the shallow Ghaap platform to the north-east. The Makganyene Formation displays lateral facies changes that reflect the palaeogeography of the study area, and the advance and retreat of ice sheets/shelves. Geochemical investigations of glacial strata of the Makganyene Formation demonstrate that underlying banded iron formations of the Transvaal Supergroup acted as the main clastic source for the diamictite detritus. Geographic variations in bulk composition of the diamictites correlate well with field observations, and show that sorting processes were controlled largely by the morphology of the palaeobasin. Carbon isotope results emphasize the transitional nature of the Makganyene Formation in terms of the environmental conditions that resulted in widespread global glaciation in the Palaeoproterozoic. On the basis of the above geological evidence, it is proposed that the Transvaal Supergroup in the Northern Cape Province represents a continuous depositional event that lasted approximately 250 Ma and hence provides a unique opportunity for assessing the transitional changes experienced by the Palaeoproterozoic Earth.
- Full Text:
- Date Issued: 2006
- Authors: Polteau, S , Moore, John M , Tsikos, Harilaos
- Date: 2006
- Language: English
- Type: Article
- Identifier: vital:6740 , http://hdl.handle.net/10962/d1007556
- Description: The Palaeoproterozoic Earth experienced a global glacial event at 2400 Ma that occurred during the transitional period from anoxic to aerobic conditions in the atmosphere and oceans. The Transvaal Supergroup in the Griqualand West Basin, South Africa, hosts glacial deposits and associated major iron and manganese deposits that are apparently related to these global changes. The focus of this study is to assess the stratigraphy and geochemistry of the glaciogenic Makganyene Formation, in order to constrain its palaeoenvironmental settings. The Makganyene Formation forms the base of the Postmasburg Group and has been regarded as resting on an erosive regional unconformity throughout the Northern Cape Province. Systematic regional field observations and regional mapping carried out during this study demonstrate that this stratigraphic relationship is not universal. The Makganyene Formation is, in fact, conformable with underlying formations of the Koegas Subgroup in the deep southern Prieska basin and rests on an unconformity only on the shallow Ghaap platform to the north-east. The Makganyene Formation displays lateral facies changes that reflect the palaeogeography of the study area, and the advance and retreat of ice sheets/shelves. Geochemical investigations of glacial strata of the Makganyene Formation demonstrate that underlying banded iron formations of the Transvaal Supergroup acted as the main clastic source for the diamictite detritus. Geographic variations in bulk composition of the diamictites correlate well with field observations, and show that sorting processes were controlled largely by the morphology of the palaeobasin. Carbon isotope results emphasize the transitional nature of the Makganyene Formation in terms of the environmental conditions that resulted in widespread global glaciation in the Palaeoproterozoic. On the basis of the above geological evidence, it is proposed that the Transvaal Supergroup in the Northern Cape Province represents a continuous depositional event that lasted approximately 250 Ma and hence provides a unique opportunity for assessing the transitional changes experienced by the Palaeoproterozoic Earth.
- Full Text:
- Date Issued: 2006
Composite polyester membranes with embedded dendrimer hosts and bimetallic Fe/Ni nanoparticles: synthesis, characterisation and application to water treatment
- Malinga, S P, Arotiba, O A, Mapolie, S F, Krause, Rui W M, Diallo, M S, Mamba, Bhekie B
- Authors: Malinga, S P , Arotiba, O A , Mapolie, S F , Krause, Rui W M , Diallo, M S , Mamba, Bhekie B
- Date: 1968
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/123619 , vital:35465 , https://doi.org/10.1007/s11051-013-1698-y
- Description: This study describes the preparation, characterization and evaluation of new composite membranes with embedded dendrimer hosts and Fe/Ni nanoparticles. These new reactive membranes consist of films of cyclodextrin–poly(propyleneimine) dendrimers (β-CD–PPI) that are deposited onto commercial polysulfone microporous supports and crosslinked with trimesoyl chloride (TMC). The membranes were subsequently loaded with Fe/Ni nanoparticles and evaluated as separation/reactive media in aqueous solutions using 2,4,6-trichlorophenol as model pollutant. The morphology and physicochemical properties of the composite membranes were characterised using high-resolution transmission electron microscopy (HR-TEM), atomic force microscopy and measurements of contact angle, water intake, porosity and water permeability. The sorption capacity and catalytic activity of the membranes were evaluated using ion chromatography, atmospheric pressure chemical ionisation-mass spectrometry and UV–Vis spectroscopy (UV–Vis). The sizes of the embedded Fe/Ni nanoparticles in the membranes ranged from 40 to 66 nm as confirmed by HR-TEM. The reaction rates for the dechlorination of 2,4,6-trichlorophenol ranged from 0.00148 to 0.00250 min−1. In all cases, we found that the reaction by-products consisted of chloride ions and mixtures of compounds including phenol (m/z = 93), 2,4-dichlorophenol (m/z = 163) and 4-chlorophenol (m/z = 128). The overall results of this study suggest that β-CD–PPI dendrimers are promising building blocks for the synthesis of composite and reactive membranes for the efficient removal of chlorinated organic pollutants from water.
- Full Text:
- Date Issued: 1968
- Authors: Malinga, S P , Arotiba, O A , Mapolie, S F , Krause, Rui W M , Diallo, M S , Mamba, Bhekie B
- Date: 1968
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/123619 , vital:35465 , https://doi.org/10.1007/s11051-013-1698-y
- Description: This study describes the preparation, characterization and evaluation of new composite membranes with embedded dendrimer hosts and Fe/Ni nanoparticles. These new reactive membranes consist of films of cyclodextrin–poly(propyleneimine) dendrimers (β-CD–PPI) that are deposited onto commercial polysulfone microporous supports and crosslinked with trimesoyl chloride (TMC). The membranes were subsequently loaded with Fe/Ni nanoparticles and evaluated as separation/reactive media in aqueous solutions using 2,4,6-trichlorophenol as model pollutant. The morphology and physicochemical properties of the composite membranes were characterised using high-resolution transmission electron microscopy (HR-TEM), atomic force microscopy and measurements of contact angle, water intake, porosity and water permeability. The sorption capacity and catalytic activity of the membranes were evaluated using ion chromatography, atmospheric pressure chemical ionisation-mass spectrometry and UV–Vis spectroscopy (UV–Vis). The sizes of the embedded Fe/Ni nanoparticles in the membranes ranged from 40 to 66 nm as confirmed by HR-TEM. The reaction rates for the dechlorination of 2,4,6-trichlorophenol ranged from 0.00148 to 0.00250 min−1. In all cases, we found that the reaction by-products consisted of chloride ions and mixtures of compounds including phenol (m/z = 93), 2,4-dichlorophenol (m/z = 163) and 4-chlorophenol (m/z = 128). The overall results of this study suggest that β-CD–PPI dendrimers are promising building blocks for the synthesis of composite and reactive membranes for the efficient removal of chlorinated organic pollutants from water.
- Full Text:
- Date Issued: 1968
New Unity Movement Bulletin
- Date: 1997-08
- Subjects: Government, Resistance to -- South Africa , South Africa -- History -- 20th century , South Africa -- Politics and government
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10948/31676 , vital:31708 , Bulk File 7
- Description: The Bulletin was the official newsletter of the New Unity Movement. It was published about twice a year and contained articles reflecting the organisation's views on resistance to the Apartheid government.
- Full Text: false
- Date Issued: 1997-08
- Date: 1997-08
- Subjects: Government, Resistance to -- South Africa , South Africa -- History -- 20th century , South Africa -- Politics and government
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10948/31676 , vital:31708 , Bulk File 7
- Description: The Bulletin was the official newsletter of the New Unity Movement. It was published about twice a year and contained articles reflecting the organisation's views on resistance to the Apartheid government.
- Full Text: false
- Date Issued: 1997-08
Exploring grade 3 teachers’ resistance to ‘take up’progressive mathematics teaching roles
- Graven, Mellony, Westaway, Lise
- Authors: Graven, Mellony , Westaway, Lise
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/69700 , vital:29568 , https://DOI: 10.1007/s13394-018-0237-7
- Description: This article addresses the question: Why teachers of mathematics have yet to ‘take up’ progressive roles? Drawing on the philosophy of critical realism and its methodological equivalent, social realism, we analyse interview and observation data of four grade 3 teachers, with the view to identifying the mechanisms conditioning the expression of teachers’ identities. In so doing, we show how post-apartheid changes in systemic roles of teachers create contradictory tensions for teachers as these bring their own mathematical learning and teaching experiences into contradiction with the new post-apartheid roles they are mandated to enact. We examine how this contradiction, together with beliefs about mathematics, pedagogy and learners, is expressed in the teaching of grade 3 mathematics. We maintain that the complementarity between teachers’ beliefs and old systemic roles provides an explanation for why teachers of grade 3 mathematics have yet to ‘take-up’ progressive roles. The implications point to the need for teacher development that creates enablers that lead to changes in classroom practices that align with policy-designated, progressive roles in teaching mathematics.
- Full Text:
- Date Issued: 2018
- Authors: Graven, Mellony , Westaway, Lise
- Date: 2018
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/69700 , vital:29568 , https://DOI: 10.1007/s13394-018-0237-7
- Description: This article addresses the question: Why teachers of mathematics have yet to ‘take up’ progressive roles? Drawing on the philosophy of critical realism and its methodological equivalent, social realism, we analyse interview and observation data of four grade 3 teachers, with the view to identifying the mechanisms conditioning the expression of teachers’ identities. In so doing, we show how post-apartheid changes in systemic roles of teachers create contradictory tensions for teachers as these bring their own mathematical learning and teaching experiences into contradiction with the new post-apartheid roles they are mandated to enact. We examine how this contradiction, together with beliefs about mathematics, pedagogy and learners, is expressed in the teaching of grade 3 mathematics. We maintain that the complementarity between teachers’ beliefs and old systemic roles provides an explanation for why teachers of grade 3 mathematics have yet to ‘take-up’ progressive roles. The implications point to the need for teacher development that creates enablers that lead to changes in classroom practices that align with policy-designated, progressive roles in teaching mathematics.
- Full Text:
- Date Issued: 2018
Visible Wars and Invisible Women: interrogating women's roles during wartime in Goretti Kyomuhendo's Waiting: a novel of Uganda at war
- Authors: Spencer, Lynda G
- Date: 2015
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/138880 , vital:37682 , https://0-hdl.handle.net.wam.seals.ac.za/10520/EJC177790
- Description: Goretti Kyomuhendo's Waiting: A Novel of Uganda at War explores the atrocities that ordinary people experience during wartime by placing emphasis on the private suffering and humiliation inflicted on women in the domestic space of the home. This article argues that even if women do not actively feature on the battleground, they are still inadvertently drawn into the war, which has an adverse impact on their lives. Kyomuhendo draws on the experiences of different female characters to problematize the inherently ambiguous symbolic image of the mother, and shows that the violence performed on women's bodies is a result of the interplay between two hegemonic forces, patriarchal authority and state power.
- Full Text:
- Date Issued: 2015
- Authors: Spencer, Lynda G
- Date: 2015
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/138880 , vital:37682 , https://0-hdl.handle.net.wam.seals.ac.za/10520/EJC177790
- Description: Goretti Kyomuhendo's Waiting: A Novel of Uganda at War explores the atrocities that ordinary people experience during wartime by placing emphasis on the private suffering and humiliation inflicted on women in the domestic space of the home. This article argues that even if women do not actively feature on the battleground, they are still inadvertently drawn into the war, which has an adverse impact on their lives. Kyomuhendo draws on the experiences of different female characters to problematize the inherently ambiguous symbolic image of the mother, and shows that the violence performed on women's bodies is a result of the interplay between two hegemonic forces, patriarchal authority and state power.
- Full Text:
- Date Issued: 2015
The Educational Journal
- Date: 1982-11
- Subjects: Education –- South Africa , South Africa -- Politics and government , Government, Resistance to -- South Africa
- Language: English
- Type: text , Article
- Identifier: http://hdl.handle.net/10948/38459 , vital:34817 , Bulk File 7
- Description: The Educational Journal was the official organ of the Teachers' League of South Africa and focussed on education within the context of a racialized South Africa.
- Full Text: false
- Date Issued: 1982-11
- Date: 1982-11
- Subjects: Education –- South Africa , South Africa -- Politics and government , Government, Resistance to -- South Africa
- Language: English
- Type: text , Article
- Identifier: http://hdl.handle.net/10948/38459 , vital:34817 , Bulk File 7
- Description: The Educational Journal was the official organ of the Teachers' League of South Africa and focussed on education within the context of a racialized South Africa.
- Full Text: false
- Date Issued: 1982-11
New Unity Movement Bulletin
- Date: 1988-07
- Subjects: Government, Resistance to -- South Africa , South Africa -- Politics and government
- Language: English
- Type: text , journal
- Identifier: http://hdl.handle.net/10948/30822 , vital:31169 , Bulk File 7
- Description: The New Unity Movement Bulletin was the mouthpiece of the New Unity Movement during the period of apartheid.
- Full Text: false
- Date Issued: 1988-07
- Date: 1988-07
- Subjects: Government, Resistance to -- South Africa , South Africa -- Politics and government
- Language: English
- Type: text , journal
- Identifier: http://hdl.handle.net/10948/30822 , vital:31169 , Bulk File 7
- Description: The New Unity Movement Bulletin was the mouthpiece of the New Unity Movement during the period of apartheid.
- Full Text: false
- Date Issued: 1988-07
MARS: Motif Assessment and Ranking Suite for transcription factor binding motifs
- Kibet, Caleb K, Machanick, Philip
- Authors: Kibet, Caleb K , Machanick, Philip
- Date: 2016
- Language: English
- Type: article , text
- Identifier: http://hdl.handle.net/10962/61155 , vital:27985 , http://dx.doi.org/10.1101/065615
- Description: We describe MARS (Motif Assessment and Ranking Suite), a web-based suite of tools used to evaluate and rank PWM-based motifs. The increased number of learned motif models that are spread across databases and in different PWM formats, leading to a choice dilemma among the users, is our motivation. This increase has been driven by the difficulty of modelling transcription factor binding sites and the advance in high-throughput sequencing technologies at a continually reducing cost. Therefore, several experimental techniques have been developed resulting in diverse motif-finding algorithms and databases. We collate a wide variety of available motifs into a benchmark database, including the corresponding experimental ChIP-seq and PBM data obtained from ENCODE and UniPROBE databases, respectively. The implemented tools include: a data-independent consistency-based motif assessment and ranking (CB-MAR), which is based on the idea that `correct motifs' are more similar to each other while incorrect motifs will differ from each other; and a scoring and classification-based algorithms, which rank binding models by their ability to discriminate sequences known to contain binding sites from those without. The CB-MAR and scoring techniques have a 0.86 and 0.73 median rank correlation using ChIP-seq and PBM respectively. Best motifs selected by CB-MAR achieve a mean AUC of 0.75, comparable to those ranked by held out data at 0.76 { this is based on ChIP-seq motif discovery using five algorithms on 110 transcription factors. We have demonstrated the benefit of this web server in motif choice and ranking, as well as in motif.
- Full Text:
- Date Issued: 2016
- Authors: Kibet, Caleb K , Machanick, Philip
- Date: 2016
- Language: English
- Type: article , text
- Identifier: http://hdl.handle.net/10962/61155 , vital:27985 , http://dx.doi.org/10.1101/065615
- Description: We describe MARS (Motif Assessment and Ranking Suite), a web-based suite of tools used to evaluate and rank PWM-based motifs. The increased number of learned motif models that are spread across databases and in different PWM formats, leading to a choice dilemma among the users, is our motivation. This increase has been driven by the difficulty of modelling transcription factor binding sites and the advance in high-throughput sequencing technologies at a continually reducing cost. Therefore, several experimental techniques have been developed resulting in diverse motif-finding algorithms and databases. We collate a wide variety of available motifs into a benchmark database, including the corresponding experimental ChIP-seq and PBM data obtained from ENCODE and UniPROBE databases, respectively. The implemented tools include: a data-independent consistency-based motif assessment and ranking (CB-MAR), which is based on the idea that `correct motifs' are more similar to each other while incorrect motifs will differ from each other; and a scoring and classification-based algorithms, which rank binding models by their ability to discriminate sequences known to contain binding sites from those without. The CB-MAR and scoring techniques have a 0.86 and 0.73 median rank correlation using ChIP-seq and PBM respectively. Best motifs selected by CB-MAR achieve a mean AUC of 0.75, comparable to those ranked by held out data at 0.76 { this is based on ChIP-seq motif discovery using five algorithms on 110 transcription factors. We have demonstrated the benefit of this web server in motif choice and ranking, as well as in motif.
- Full Text:
- Date Issued: 2016
Structural Characterization of Carbonic Anhydrase VIII and Effects of Missense Single Nucleotide Variations to Protein Structure and Function:
- Sanyanga, Taremekedzwa Allan, Tastan Bishop, Özlem
- Authors: Sanyanga, Taremekedzwa Allan , Tastan Bishop, Özlem
- Date: 2020
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/149670 , vital:38873 , https://doi.org/10.3390/ijms21082764
- Description: Human carbonic anhydrase 8 (CA-VIII) is an acatalytic isoform of the α -CA family. Though the protein cannot hydrate CO2, CA-VIII is essential for calcium (Ca2+) homeostasis within the body, and achieves this by allosterically inhibiting the binding of inositol 1,4,5-triphosphate (IP3) to the IP3 receptor type 1 (ITPR1) protein. However, the mechanism of interaction of CA-VIII to ITPR1 is not well understood. In addition, functional defects to CA-VIII due to non-synonymous single nucleotide polymorphisms (nsSNVs) result in Ca2+ dysregulation and the development of the phenotypes such as cerebellar ataxia, mental retardation and disequilibrium syndrome 3 (CAMRQ3). The pathogenesis of CAMRQ3 is also not well understood. The structure and function of CA-VIII was characterised, and pathogenesis of CAMRQ3 investigated. Structural and functional characterisation of CA-VIII was conducted through SiteMap and CPORT to identify potential binding site residues.
- Full Text:
- Date Issued: 2020
- Authors: Sanyanga, Taremekedzwa Allan , Tastan Bishop, Özlem
- Date: 2020
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/149670 , vital:38873 , https://doi.org/10.3390/ijms21082764
- Description: Human carbonic anhydrase 8 (CA-VIII) is an acatalytic isoform of the α -CA family. Though the protein cannot hydrate CO2, CA-VIII is essential for calcium (Ca2+) homeostasis within the body, and achieves this by allosterically inhibiting the binding of inositol 1,4,5-triphosphate (IP3) to the IP3 receptor type 1 (ITPR1) protein. However, the mechanism of interaction of CA-VIII to ITPR1 is not well understood. In addition, functional defects to CA-VIII due to non-synonymous single nucleotide polymorphisms (nsSNVs) result in Ca2+ dysregulation and the development of the phenotypes such as cerebellar ataxia, mental retardation and disequilibrium syndrome 3 (CAMRQ3). The pathogenesis of CAMRQ3 is also not well understood. The structure and function of CA-VIII was characterised, and pathogenesis of CAMRQ3 investigated. Structural and functional characterisation of CA-VIII was conducted through SiteMap and CPORT to identify potential binding site residues.
- Full Text:
- Date Issued: 2020
Spatio-temporal patterns in maturation of the chokka squid (Loligo vulgaris reynaudii) off the coast of South Africa
- Olyott, L J H, Sauer, Warwick H H, Booth, Anthony J
- Authors: Olyott, L J H , Sauer, Warwick H H , Booth, Anthony J
- Date: 2006
- Language: English
- Type: Article
- Identifier: vital:6763 , http://hdl.handle.net/10962/d1007930
- Description: Knowledge of the temporal and spatial characteristics of chokka squid (Loligo vulgaris reynaudii) biology in South African waters is limited, so the possibility of there being a geographically fragmented stock was examined by investigating the distribution of maturity patterns for the species, covering all known spawning areas and using both historical and recent data. Gonadosomatic indices (GSI) varied between year-round consistency and apparent seasonal peaks in both summer and winter; there was no clear spatial pattern. Monthly percentage maturity provided further evidence for two peak reproductive periods each year, although mature squid were present throughout. Sex ratios demonstrated great variability between different areas and life history stages. Male-biased sex ratios were only apparent on the inshore spawning grounds and ranged between 1.118:1 and 4.267:1. Size at sexual maturity was also seasonal, squid maturing smaller in winter/spring than in summer/autumn. Also, squid in the east matured smaller than squid in the west. Although the results from the present study do not provide conclusive evidence of distinct geographic populations, squid likely spawn over a significantly larger area of the Agulhas Bank than previously estimated, and squid on the west coast of South Africa may return to spawn on the western portion of the Agulhas Bank. It remains likely, however, that the east and west coast populations are a single stock and that migration of juveniles to the west coast and their subsequent return as sub-adults is an integral but non-essential and variable part of the life history.
- Full Text:
- Date Issued: 2006
- Authors: Olyott, L J H , Sauer, Warwick H H , Booth, Anthony J
- Date: 2006
- Language: English
- Type: Article
- Identifier: vital:6763 , http://hdl.handle.net/10962/d1007930
- Description: Knowledge of the temporal and spatial characteristics of chokka squid (Loligo vulgaris reynaudii) biology in South African waters is limited, so the possibility of there being a geographically fragmented stock was examined by investigating the distribution of maturity patterns for the species, covering all known spawning areas and using both historical and recent data. Gonadosomatic indices (GSI) varied between year-round consistency and apparent seasonal peaks in both summer and winter; there was no clear spatial pattern. Monthly percentage maturity provided further evidence for two peak reproductive periods each year, although mature squid were present throughout. Sex ratios demonstrated great variability between different areas and life history stages. Male-biased sex ratios were only apparent on the inshore spawning grounds and ranged between 1.118:1 and 4.267:1. Size at sexual maturity was also seasonal, squid maturing smaller in winter/spring than in summer/autumn. Also, squid in the east matured smaller than squid in the west. Although the results from the present study do not provide conclusive evidence of distinct geographic populations, squid likely spawn over a significantly larger area of the Agulhas Bank than previously estimated, and squid on the west coast of South Africa may return to spawn on the western portion of the Agulhas Bank. It remains likely, however, that the east and west coast populations are a single stock and that migration of juveniles to the west coast and their subsequent return as sub-adults is an integral but non-essential and variable part of the life history.
- Full Text:
- Date Issued: 2006
MAWU and the industrial council
- Authors: MAWU, FOSATU
- Date: Feb 1993
- Subjects: FOSATU, MAWU
- Language: English
- Type: text
- Identifier: http://hdl.handle.net/10962/110364 , vital:33272
- Description: This is a booklet to explain why M A W U has decided to join the Industrial Council for the Iron, Steel Engineering and Metallurgical Industry. In South Africa at present there are 104 Industrial Councils. However, the one for the Iron, Steel, Engineering and Metallurgical Industries is the largest and most important covering nearly 500 000 workers. But only about 100 000 of these workers belong to trade unions. At the Industrial Council the employers and trade unions negotiate an agreement that covers all 500 000 workers. At present on the union side there are 14 trade unions - M A W U will make it 15. But most of these unions are racial unions and what are called craft unions - that is their members only do certain kinds of jobs e.g. boilermakers or electricians etc. On the employer side nearly all the 8400 factories in the industry are members of the employer association SEIFSA. It is SEIFSA - which is the largest and most powerful employer association in South Africa - that negotiates for employers on the Industrial Council.
- Full Text:
- Date Issued: Feb 1993
- Authors: MAWU, FOSATU
- Date: Feb 1993
- Subjects: FOSATU, MAWU
- Language: English
- Type: text
- Identifier: http://hdl.handle.net/10962/110364 , vital:33272
- Description: This is a booklet to explain why M A W U has decided to join the Industrial Council for the Iron, Steel Engineering and Metallurgical Industry. In South Africa at present there are 104 Industrial Councils. However, the one for the Iron, Steel, Engineering and Metallurgical Industries is the largest and most important covering nearly 500 000 workers. But only about 100 000 of these workers belong to trade unions. At the Industrial Council the employers and trade unions negotiate an agreement that covers all 500 000 workers. At present on the union side there are 14 trade unions - M A W U will make it 15. But most of these unions are racial unions and what are called craft unions - that is their members only do certain kinds of jobs e.g. boilermakers or electricians etc. On the employer side nearly all the 8400 factories in the industry are members of the employer association SEIFSA. It is SEIFSA - which is the largest and most powerful employer association in South Africa - that negotiates for employers on the Industrial Council.
- Full Text:
- Date Issued: Feb 1993
New Unity Movement Bulletin
- Date: 2005-05
- Subjects: Government, Resistance to -- South Africa , South Africa -- History -- 20th century , South Africa -- Politics and government
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10948/31756 , vital:31743 , Bulk File 7
- Description: The Bulletin was the official newsletter of the New Unity Movement. It was published about twice a year and contained articles reflecting the organisation's views on resistance to the Apartheid government.
- Full Text: false
- Date Issued: 2005-05
- Date: 2005-05
- Subjects: Government, Resistance to -- South Africa , South Africa -- History -- 20th century , South Africa -- Politics and government
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10948/31756 , vital:31743 , Bulk File 7
- Description: The Bulletin was the official newsletter of the New Unity Movement. It was published about twice a year and contained articles reflecting the organisation's views on resistance to the Apartheid government.
- Full Text: false
- Date Issued: 2005-05
Himantura draco, a new species of stingray (Myliobatiformes: Dasyatidae) from South Africa: with a key to the Dasyatidae and the first record of Dasyatis kuhlii (Müller & Henle, 1841) from southern Africa
- Compagno, Leonard J V, Heemstra, Phillip C, J.L.B. Smith Institute of Ichthyology
- Authors: Compagno, Leonard J V , Heemstra, Phillip C , J.L.B. Smith Institute of Ichthyology
- Date: 1984-01
- Subjects: Fishes -- South Africa -- Classification , Stingrays -- Africa, Southern
- Language: English
- Type: text , book
- Identifier: http://hdl.handle.net/10962/70050 , vital:29610 , Margaret Smith Library (South African Institute for Aquatic Biodiversity (SAIAB)) Periodicals Margaret Smith Library (South African Institute for Aquatic Biodiversity (SAIAB))
- Description: Online version of original print edition of the Special Publication of the J.L.B. Smith Institute of Ichthyology; No. 33 , Himantura draco sp.n is described from an immature male specimen of 56 cm disc width collected at Durban. Dasyatis kuhlii is reported from southern Africa based on three specimens from Natal. Records of H. fava, H. imbricata and H. jenkinsii from southern Africa appear to be erroneous, the latter two being misidentifications of H. gerrardi, and the first a misidentified specimen of H. uarnak. Records of H. purpurea are apparently based on Dasyatis violacea and Himantura sp. (possibly H. fai). A key to the 13 species of dasyatids known from southern Africa is presented.
- Full Text:
- Date Issued: 1984-01
- Authors: Compagno, Leonard J V , Heemstra, Phillip C , J.L.B. Smith Institute of Ichthyology
- Date: 1984-01
- Subjects: Fishes -- South Africa -- Classification , Stingrays -- Africa, Southern
- Language: English
- Type: text , book
- Identifier: http://hdl.handle.net/10962/70050 , vital:29610 , Margaret Smith Library (South African Institute for Aquatic Biodiversity (SAIAB)) Periodicals Margaret Smith Library (South African Institute for Aquatic Biodiversity (SAIAB))
- Description: Online version of original print edition of the Special Publication of the J.L.B. Smith Institute of Ichthyology; No. 33 , Himantura draco sp.n is described from an immature male specimen of 56 cm disc width collected at Durban. Dasyatis kuhlii is reported from southern Africa based on three specimens from Natal. Records of H. fava, H. imbricata and H. jenkinsii from southern Africa appear to be erroneous, the latter two being misidentifications of H. gerrardi, and the first a misidentified specimen of H. uarnak. Records of H. purpurea are apparently based on Dasyatis violacea and Himantura sp. (possibly H. fai). A key to the 13 species of dasyatids known from southern Africa is presented.
- Full Text:
- Date Issued: 1984-01
Looking underneath: deconstruction in Hogarth's Industry and Idleness
- Authors: Herbst, Michael
- Date: 2017
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/147803 , vital:38674 , https://doi.org/10.1080/00043389.2003.11877010
- Description: In Hogarth's engraved series Industry and Idleness two young men from lower-class backgrounds are apprenticed to Mr West, a weaver. The first plate (1) lays bare the two apprentices' marked difference in temperament: Francis Goodchild works contentedly at his well-lit loom with his 'Prentice's Guide- a standard manual of instruction and advice for London apprentices in various trades - open on the floor below him. In the gloomy foreground Thomas Idle snores crassly at his loom, oblivious of his 'Prentice's Guide, which has apparently been reduced to tatters by the cat that now toys with the abandoned shuttle.
- Full Text:
- Date Issued: 2017
- Authors: Herbst, Michael
- Date: 2017
- Language: English
- Type: text , article
- Identifier: http://hdl.handle.net/10962/147803 , vital:38674 , https://doi.org/10.1080/00043389.2003.11877010
- Description: In Hogarth's engraved series Industry and Idleness two young men from lower-class backgrounds are apprenticed to Mr West, a weaver. The first plate (1) lays bare the two apprentices' marked difference in temperament: Francis Goodchild works contentedly at his well-lit loom with his 'Prentice's Guide- a standard manual of instruction and advice for London apprentices in various trades - open on the floor below him. In the gloomy foreground Thomas Idle snores crassly at his loom, oblivious of his 'Prentice's Guide, which has apparently been reduced to tatters by the cat that now toys with the abandoned shuttle.
- Full Text:
- Date Issued: 2017
M 87 at metre wavelengths: the LOFAR picture
- Smirnov, Oleg M, De Gasperin, F, Orrú, E, Murgia, M, Merloni, A, Falcke, H, Beck, R, Beswick, R, Bîrzan, L, Bonafede, A, Brüggen, M
- Authors: Smirnov, Oleg M , De Gasperin, F , Orrú, E , Murgia, M , Merloni, A , Falcke, H , Beck, R , Beswick, R , Bîrzan, L , Bonafede, A , Brüggen, M
- Date: 2012
- Subjects: radiation mechanisms: non-thermal, galaxies: active, galaxies: individual: M 87, galaxies: clusters: individual: Virgo, galaxies: jets, radio continuum: galaxies
- Language: English
- Type: Article
- Identifier: vital:6821 , http://hdl.handle.net/10962/d1004434
- Description: Context.M 87 is a giant elliptical galaxy located in the centre of the Virgo cluster, which harbours a supermassive black hole of mass 6.4 × 109 M⊙, whose activity is responsible for the extended (80 kpc) radio lobes that surround the galaxy. The energy generated by matter falling onto the central black hole is ejected and transferred to the intra-cluster medium via a relativistic jet and morphologically complex systems of buoyant bubbles, which rise towards the edges of the extended halo. Aims. To place constraints on past activity cycles of the active nucleus, images of M 87 were produced at low radio frequencies never explored before at these high spatial resolution and dynamic range. To disentangle different synchrotron models and place constraints on source magnetic field, age and energetics, we also performed a detailed spectral analysis of M 87 extended radio-halo. Methods. We present the first observations made with the new Low-Frequency Array (LOFAR) of M 87 at frequencies down to 20 MHz. Three observations were conducted, at 15−30 MHz, 30−77 MHz and 116−162 MHz. We used these observations together with archival data to produce a low-frequency spectral index map and to perform a spectral analysis in the wide frequency range 30 MHz–10 GHz. Results. We do not find any sign of new extended emissions; on the contrary the source appears well confined by the high pressure of the intra-cluster medium. A continuous injection of relativistic electrons is the model that best fits our data, and provides a scenario in which the lobes are still supplied by fresh relativistic particles from the active galactic nuclei. We suggest that the discrepancy between the low-frequency radio-spectral slope in the core and in the halo implies a strong adiabatic expansion of the plasma as soon as it leaves the core area. The extended halo has an equipartition magnetic field strength of ≃10 μG, which increases to ≃13 μG in the zones where the particle flows are more active. The continuous injection model for synchrotron ageing provides an age for the halo of ≃40 Myr, which in turn provides a jet kinetic power of 6−10 × 1044 erg s-1.
- Full Text:
- Date Issued: 2012
- Authors: Smirnov, Oleg M , De Gasperin, F , Orrú, E , Murgia, M , Merloni, A , Falcke, H , Beck, R , Beswick, R , Bîrzan, L , Bonafede, A , Brüggen, M
- Date: 2012
- Subjects: radiation mechanisms: non-thermal, galaxies: active, galaxies: individual: M 87, galaxies: clusters: individual: Virgo, galaxies: jets, radio continuum: galaxies
- Language: English
- Type: Article
- Identifier: vital:6821 , http://hdl.handle.net/10962/d1004434
- Description: Context.M 87 is a giant elliptical galaxy located in the centre of the Virgo cluster, which harbours a supermassive black hole of mass 6.4 × 109 M⊙, whose activity is responsible for the extended (80 kpc) radio lobes that surround the galaxy. The energy generated by matter falling onto the central black hole is ejected and transferred to the intra-cluster medium via a relativistic jet and morphologically complex systems of buoyant bubbles, which rise towards the edges of the extended halo. Aims. To place constraints on past activity cycles of the active nucleus, images of M 87 were produced at low radio frequencies never explored before at these high spatial resolution and dynamic range. To disentangle different synchrotron models and place constraints on source magnetic field, age and energetics, we also performed a detailed spectral analysis of M 87 extended radio-halo. Methods. We present the first observations made with the new Low-Frequency Array (LOFAR) of M 87 at frequencies down to 20 MHz. Three observations were conducted, at 15−30 MHz, 30−77 MHz and 116−162 MHz. We used these observations together with archival data to produce a low-frequency spectral index map and to perform a spectral analysis in the wide frequency range 30 MHz–10 GHz. Results. We do not find any sign of new extended emissions; on the contrary the source appears well confined by the high pressure of the intra-cluster medium. A continuous injection of relativistic electrons is the model that best fits our data, and provides a scenario in which the lobes are still supplied by fresh relativistic particles from the active galactic nuclei. We suggest that the discrepancy between the low-frequency radio-spectral slope in the core and in the halo implies a strong adiabatic expansion of the plasma as soon as it leaves the core area. The extended halo has an equipartition magnetic field strength of ≃10 μG, which increases to ≃13 μG in the zones where the particle flows are more active. The continuous injection model for synchrotron ageing provides an age for the halo of ≃40 Myr, which in turn provides a jet kinetic power of 6−10 × 1044 erg s-1.
- Full Text:
- Date Issued: 2012