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Insertion-Deletion Transformer [article]

Laura Ruis, Mitchell Stern, Julia Proskurnia, William Chan
2020 arXiv   pre-print
We propose the Insertion-Deletion Transformer, a novel transformer-based neural architecture and training method for sequence generation.  ...  We demonstrate the effectiveness of our Insertion-Deletion Transformer on synthetic translation tasks, obtaining significant BLEU score improvement over an insertion-only model.  ...  We see our Insertion-Deletion Transformer model outperforms the Insertion Transformer significantly on this task.  ... 
arXiv:2001.05540v1 fatcat:tweqdinwavan5ma5x5uhh7723m

v-Ha-Ras insertion/deletion mutants with reduced protease-inhibitory activity have no transforming activity

Toshie Sawada, Shigeru Sakiyama, Takaki Hiwasa
1993 FEBS Letters  
We have purified 26 insertion/deletion mutants of v-Ha-ras oncogene products produced by Escherichia coli and investigated their proteaseinhibitory activity toward papain and cathepsins B and L.  ...  Among them, four mutants, l-48 LIR , showed significant reduction in the inhibitory activity toward cathepsin L and these four mutants have lost transforming activity toward NIH3T3 mouse fibroblasts.  ...  For example, l-2 1 PDQ 37-189 has insertion of Pro-Asp-Gln instead of deletion of the amino acid sequence between positions 22 and 36.  ... 
doi:10.1016/0014-5793(93)80532-y pmid:8440385 fatcat:jx6q6bladjhvrh75hllibvypnm

Linear Time Additively Exact Algorithm for Transformation of Chain-Cycle Graphs for Arbitrary Costs of Deletions and Insertions

Konstantin Gorbunov, Vassily Lyubetsky
2020 Mathematics  
We assume that the double cut and join operations have identical costs, and costs of the deletion and insertion operations are arbitrary strictly positive rational numbers.  ...  We propose a novel linear time algorithm which, given any directed weighted graphs a and b with vertex degrees 1 or 2, constructs a sequence of operations transforming a into b.  ...  These operations are analogous to standard deletion of a subword in a word and to insertion of a word as a subword. Each operation is assigned with its cost, a strictly positive rational number.  ... 
doi:10.3390/math8112001 fatcat:5zdo5di3tbgatnp3qlozvg3krq

Deletions and insertions within an amino-terminal domain of pp60v-src inactivate transformation and modulate membrane stability

H C Wang, J T Parsons
1989 Journal of Virology  
In addition, insertion of four, but not one, amino acid residues at position 161 also inhibited transformation.  ...  Here we report that introduction of small (tri-and tetrapeptide) deletions into a region of pp6O-src containing amino acid residues 155 to 175 was found to inactivate transformation.  ...  We report here that trior tetra-amino acid deletions or insertions within the region defined by residues 155 to 177 abrogated pp60v-src transformation of CE cells. src proteins encoded by these deletion  ... 
doi:10.1128/jvi.63.1.291-302.1989 fatcat:hdsmpeyku5c6lnktipecvsx4vq

Deletions and insertions within an amino-terminal domain of pp60v-src inactivate transformation and modulate membrane stability

H C Wang, J T Parsons
1989 Journal of Virology  
In addition, insertion of four, but not one, amino acid residues at position 161 also inhibited transformation.  ...  Here we report that introduction of small (tri-and tetrapeptide) deletions into a region of pp60v-src containing amino acid residues 155 to 175 was found to inactivate transformation.  ...  We report here that trior tetra-amino acid deletions or insertions within the region defined by residues 155 to 177 abrogated pp60v-src transformation of CE cells. src proteins encoded by these deletion  ... 
pmid:2535735 pmcid:PMC247684 fatcat:g7gdd2s755gmhgrc24n6drfxpm

Deletion of the origin of replication impairs the ability of polyomavirus DNA to transform cells and to form tandem insertions

L Dailey, S Pellegrini, C Basilico
1984 Journal of Virology  
The inability of these molecules to replicate results from the deletion of sequences comprising the viral replication origin.  ...  transformed by origin-minus mutants generally contained the integrated viral DNA in a nontandem arrangement.  ...  If Py large T-Ag promotes a high efficiency of transformation and tandem insertion of viral DNA by allowing viral DNA replication, the efficiency of transformation of molecules which are cis defective  ... 
pmid:6321778 pmcid:PMC255561 fatcat:mhyzrmg77rea3d2eywv2ud23de

Deletion of the origin of replication impairs the ability of polyomavirus DNA to transform cells and to form tandem insertions

L Dailey, S Pellegrini, C Basilico
1984 Journal of Virology  
The inability of these molecules to replicate results from the deletion of sequences comprising the viral replication origin.  ...  transformed by origin-minus mutants generally contained the integrated viral DNA in a nontandem arrangement.  ...  If Py large T-Ag promotes a high efficiency of transformation and tandem insertion of viral DNA by allowing viral DNA replication, the efficiency of transformation of molecules which are cis defective  ... 
doi:10.1128/jvi.49.3.984-987.1984 fatcat:laearaqygrachni2pzerondsvi

Deletion and insertion mutations in early region 1a of type 5 adenovirus that produce cold-sensitive or defective phenotypes for transformation

L E Babiss, P B Fisher, H S Ginsberg
1984 Journal of Virology  
On the basis of earlier findings showing that H5hr1 (hr1) is cold sensitive for transformation, a series of mutants were constructed so that they contained deletions or insertions in different sites of  ...  It is striking, however, that a mutant (H5dl105) with a 69-base pair deletion beginning at nucleotide 1,003, and having a stop codon at nucleotide 1,544, was totally defective for transformation at any  ...  Transformation characteristics of sub3O9 and Ela deletion and insertion mutants.  ... 
pmid:6699937 pmcid:PMC255531 fatcat:5ymuf3qyrrbixmaztpj2urowom

Deletion and insertion mutations in early region 1a of type 5 adenovirus that produce cold-sensitive or defective phenotypes for transformation

L E Babiss, P B Fisher, H S Ginsberg
1984 Journal of Virology  
On the basis of earlier findings showing that HShrl (hrl) is cold sensitive for transformation, a series of mutants were constructed so that they contained deletions or insertions in different sites of  ...  MATERIALS AND METHODS Construction and characterization of Ad5 Ela deletion and insertion mutants.  ...  Transformation characteristics of sub3O9 and Ela deletion and insertion mutants.  ... 
doi:10.1128/jvi.49.3.731-740.1984 fatcat:nlux7233vrcvljnp2buyuxq6jm

Mapping of transforming region of the Harvey murine sarcoma virus genome by using insertion-deletion mutants constructed in vitro

C. M. Wei, D. R. Lowy, E. M. Scolnick
1980 Proceedings of the National Academy of Sciences of the United States of America  
By using the cloned Ha-MuSV DNA insert as a parental genome, we have constructed a series of insertion-deletion mutants by inserting an octomer containing the Sal I linker sequence (C-G-T-C-A-C-C) into  ...  However, a mutant containing a deletion of 1.5kb at the 5'-end and a mutant with a deletion of the sequences between 1.0 and 1.5 kb from the 5'-end completely lost their transforming potential.  ...  The lower efficiency of transformation Cleavage maps of insertion-deletion mutants of Ha-MuSV.  ... 
doi:10.1073/pnas.77.8.4674 pmid:6254037 pmcid:PMC349908 fatcat:53ztl2g7lfcvzgu7kd265xfk3u

Collaborative Interactive Theorem Proving with Clide [chapter]

Martin Ring, Christoph Lüth
2014 Lecture Notes in Computer Science  
] b = [Insert Y] transform a b = ([Insert X, Delete, , [Retain, Delete, ) • • a - • b - • a - b - Example: a = [] b = [] transform a b = ([Insert X, Delete, Retain] , [Retain, Delete, Insert Y] ) • • a  ...  • • a - • b - • a - b - Example: a = [Insert X, Retain, Delete] b = [Delete, Retain, Insert Y] transform a b = ([ , [ ) • • a - • b - • a - b - Example: a = [Retain, Delete] b = [Delete, Retain, Insert  ... 
doi:10.1007/978-3-319-08970-6_30 fatcat:2qmxr23uw5ehpj4jbe3bhx2dga

Simultaneous editing of JSON objects via operational transformation

Tim Jungnickel, Tobias Herb
2016 Proceedings of the 31st Annual ACM Symposium on Applied Computing - SAC '16  
For the synchronization of the changes a replication system named Operational Transformation is used. Such a system consists of a control algorithm and a transformation function.  ...  In this work we investigate on the correctness of such transformation functions.  ...  After introducing transformation functions for two insert T or two delete T operations, we combine both functions to achieve a transformation function for a transformation of insert T against delete T  ... 
doi:10.1145/2851613.2852003 dblp:conf/sac/JungnickelH16 fatcat:ud33iujyb5cclaa2bbs4rq3ffu

Levenshtein Transformer [article]

Jiatao Gu, Changhan Wang, Jake Zhao
2019 arXiv   pre-print
Unlike previous approaches, the atomic operations of our model are insertion and deletion.  ...  In this work, we develop Levenshtein Transformer, a new partially autoregressive model devised for more flexible and amenable sequence generation.  ...  insert >> nothing to delete, nothing to insert >> [Terminate] Figure 6: Translation examples for WAT’17 Small-NMT En-Ja with the Levenshtein Transformer.  ... 
arXiv:1905.11006v2 fatcat:ddajkqlmqvcldpbef5uf2bueaq

Cut-paste string operation for collaborative groupware applications

Santosh Kumawat, Ajay Khunteta
2015 Technology Innovation and Education  
Till date only two character-wise primitive operations Insert and Delete are proposed and these operations have time complexity of the order of O(|H| 2 ) where H is the history buffer of operations.  ...  In past 15 years, OT is an acceptable method for consistency and concurrency maintenance in multi-user group editors such Abstract Operational transformation (OT) is a concurrency control approach in multi-user  ...  )/ITDI (Inclusive Transformation of Delete-Insert) algorithms for transformation of insert and delete string operations.  ... 
doi:10.1186/s40660-015-0003-z fatcat:4bgegwm4vvgcjh5rghr4zc67yu

Computing generators of second homotopy module using Tietze transformation methods

Yanita, Abdul Ghafur Ahmad
2013 International Journal of Contemporary Mathematical Sciences  
These two presentations can be transformed to each other using Tietze transformation. This relationship was determined by considering the generators of second homotopy module for both presentations.  ...  , deletion and insertion folding pair and bridge move; or (b) both are not spherical and one can be transformed to the other by a finite number of operation deletion and insertion floating circle, deletion  ...  deletion and insertion floating circle, deletion and insertion floating semicircle, deletion and insertion folding pair, bridge move and deletion and insertion -picture (see [3] ).  ... 
doi:10.12988/ijcms.2013.3679 fatcat:c2zp42ubkrejzexxepnsfgaq5u
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