{"id":"https://openalex.org/W3212983993","doi":"https://doi.org/10.1093/bib/bbab439","title":"StaBle-ABPpred: a stacked ensemble predictor based on biLSTM and attention mechanism for accelerated discovery of antibacterial peptides","display_name":"StaBle-ABPpred: a stacked ensemble predictor based on biLSTM and attention mechanism for accelerated discovery of antibacterial peptides","publication_year":2021,"publication_date":"2021-09-30","ids":{"openalex":"https://openalex.org/W3212983993","doi":"https://doi.org/10.1093/bib/bbab439","mag":"3212983993","pmid":"https://pubmed.ncbi.nlm.nih.gov/34750606"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbab439","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab439","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073205736","display_name":"Vishakha Singh","orcid":"https://orcid.org/0000-0001-9683-6504"},"institutions":[{"id":"https://openalex.org/I91357014","display_name":"Banaras Hindu University","ror":"https://ror.org/04cdn2797","country_code":"IN","type":"education","lineage":["https://openalex.org/I91357014"]},{"id":"https://openalex.org/I56404289","display_name":"Indian Institute of Technology BHU","ror":"https://ror.org/01kh5gc44","country_code":"IN","type":"education","lineage":["https://openalex.org/I56404289"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Vishakha Singh","raw_affiliation_strings":["Department of Computer Science and Engineering, Indian Institute of Technology (BHU), Varanasi, 221005, Uttar Pradesh, India"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Indian Institute of Technology (BHU), Varanasi, 221005, Uttar Pradesh, India","institution_ids":["https://openalex.org/I56404289","https://openalex.org/I91357014"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060733665","display_name":"Sameer Shrivastava","orcid":"https://orcid.org/0000-0001-8296-0010"},"institutions":[{"id":"https://openalex.org/I185790649","display_name":"Indian Veterinary Research Institute","ror":"https://ror.org/02jcfzc36","country_code":"IN","type":"facility","lineage":["https://openalex.org/I179420787","https://openalex.org/I185790649"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Sameer Shrivastava","raw_affiliation_strings":["Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, 243122, Uttar Pradesh, India"],"affiliations":[{"raw_affiliation_string":"Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, 243122, Uttar Pradesh, India","institution_ids":["https://openalex.org/I185790649"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100696254","display_name":"Sanjay Kumar Singh","orcid":"https://orcid.org/0000-0002-9061-6313"},"institutions":[{"id":"https://openalex.org/I56404289","display_name":"Indian Institute of Technology BHU","ror":"https://ror.org/01kh5gc44","country_code":"IN","type":"education","lineage":["https://openalex.org/I56404289"]},{"id":"https://openalex.org/I91357014","display_name":"Banaras Hindu University","ror":"https://ror.org/04cdn2797","country_code":"IN","type":"education","lineage":["https://openalex.org/I91357014"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Sanjay Kumar Singh","raw_affiliation_strings":["Department of Computer Science and Engineering, Indian Institute of Technology (BHU), Varanasi, 221005, Uttar Pradesh, India"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Indian Institute of Technology (BHU), Varanasi, 221005, Uttar Pradesh, India","institution_ids":["https://openalex.org/I56404289","https://openalex.org/I91357014"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101860102","display_name":"Abhinav Kumar","orcid":"https://orcid.org/0000-0001-9741-4020"},"institutions":[{"id":"https://openalex.org/I91357014","display_name":"Banaras Hindu University","ror":"https://ror.org/04cdn2797","country_code":"IN","type":"education","lineage":["https://openalex.org/I91357014"]},{"id":"https://openalex.org/I56404289","display_name":"Indian Institute of Technology BHU","ror":"https://ror.org/01kh5gc44","country_code":"IN","type":"education","lineage":["https://openalex.org/I56404289"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Abhinav Kumar","raw_affiliation_strings":["Department of Computer Science and Engineering, Indian Institute of Technology (BHU), Varanasi, 221005, Uttar Pradesh, India"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Indian Institute of Technology (BHU), Varanasi, 221005, Uttar Pradesh, India","institution_ids":["https://openalex.org/I56404289","https://openalex.org/I91357014"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5062501121","display_name":"Sonal Saxena","orcid":"https://orcid.org/0000-0001-6501-3097"},"institutions":[{"id":"https://openalex.org/I185790649","display_name":"Indian Veterinary Research Institute","ror":"https://ror.org/02jcfzc36","country_code":"IN","type":"facility","lineage":["https://openalex.org/I179420787","https://openalex.org/I185790649"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Sonal Saxena","raw_affiliation_strings":["Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, 243122, Uttar Pradesh, India"],"affiliations":[{"raw_affiliation_string":"Division of Veterinary Biotechnology, ICAR-Indian Veterinary Research Institute, Izatnagar, 243122, Uttar Pradesh, India","institution_ids":["https://openalex.org/I185790649"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5060733665","https://openalex.org/A5100696254"],"corresponding_institution_ids":["https://openalex.org/I185790649","https://openalex.org/I56404289","https://openalex.org/I91357014"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.6181,"has_fulltext":false,"cited_by_count":63,"citation_normalized_percentile":{"value":0.97053331,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"23","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/mechanism","display_name":"Mechanism (biology)","score":0.8009225130081177},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49245819449424744},{"id":"https://openalex.org/keywords/antibacterial-peptide","display_name":"Antibacterial peptide","score":0.4337748885154724},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4100455343723297},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3781062960624695},{"id":"https://openalex.org/keywords/antibacterial-activity","display_name":"Antibacterial activity","score":0.2766059637069702},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17043137550354004},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.1595401167869568},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.08342260122299194},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.05708363652229309}],"concepts":[{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.8009225130081177},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49245819449424744},{"id":"https://openalex.org/C2993778972","wikidata":"https://www.wikidata.org/wiki/Q1201508","display_name":"Antibacterial peptide","level":4,"score":0.4337748885154724},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4100455343723297},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3781062960624695},{"id":"https://openalex.org/C2780104969","wikidata":"https://www.wikidata.org/wiki/Q4774530","display_name":"Antibacterial activity","level":3,"score":0.2766059637069702},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17043137550354004},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.1595401167869568},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.08342260122299194},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.05708363652229309},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D000900","descriptor_name":"Anti-Bacterial Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbab439","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab439","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34750606","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34750606","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15","score":0.6499999761581421}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":71,"referenced_works":["https://openalex.org/W1614298861","https://openalex.org/W1976522772","https://openalex.org/W1978444624","https://openalex.org/W1996930205","https://openalex.org/W1998064689","https://openalex.org/W2035755292","https://openalex.org/W2055752079","https://openalex.org/W2067402644","https://openalex.org/W2083416546","https://openalex.org/W2097834518","https://openalex.org/W2100965251","https://openalex.org/W2108658946","https://openalex.org/W2114850508","https://openalex.org/W2115552956","https://openalex.org/W2119993590","https://openalex.org/W2128495797","https://openalex.org/W2133564696","https://openalex.org/W2156125289","https://openalex.org/W2160257187","https://openalex.org/W2175270296","https://openalex.org/W2271840356","https://openalex.org/W2280211494","https://openalex.org/W2525580669","https://openalex.org/W2588467130","https://openalex.org/W2758953455","https://openalex.org/W2766736793","https://openalex.org/W2766842911","https://openalex.org/W2791848964","https://openalex.org/W2807001312","https://openalex.org/W2898192966","https://openalex.org/W2899938658","https://openalex.org/W2901391417","https://openalex.org/W2920961832","https://openalex.org/W2930601680","https://openalex.org/W2937346329","https://openalex.org/W2946834045","https://openalex.org/W2965128681","https://openalex.org/W2970152602","https://openalex.org/W2971544617","https://openalex.org/W2971874382","https://openalex.org/W2999569426","https://openalex.org/W3010871530","https://openalex.org/W3011858083","https://openalex.org/W3013675885","https://openalex.org/W3026779156","https://openalex.org/W3041308951","https://openalex.org/W3048777978","https://openalex.org/W3087692915","https://openalex.org/W3092381885","https://openalex.org/W3094421290","https://openalex.org/W3118321697","https://openalex.org/W3118814205","https://openalex.org/W3122585911","https://openalex.org/W3136918052","https://openalex.org/W3138985726","https://openalex.org/W3139686515","https://openalex.org/W3150808126","https://openalex.org/W3158459184","https://openalex.org/W3164941572","https://openalex.org/W3173102465","https://openalex.org/W3175581533","https://openalex.org/W3178663131","https://openalex.org/W3186424845","https://openalex.org/W4212774754","https://openalex.org/W6636510571","https://openalex.org/W6666761814","https://openalex.org/W6667333778","https://openalex.org/W6679434410","https://openalex.org/W6694517276","https://openalex.org/W6739901393","https://openalex.org/W6775869595"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Due":[0],"to":[1,49,59,108,131,163,230],"the":[2,22,179,182,232],"rapid":[3],"emergence":[4],"of":[5,24,32,98,117,133,181,200],"multi-drug":[6],"resistant":[7],"(MDR)":[8],"bacteria,":[9],"existing":[10,150],"antibiotics":[11],"are":[12,17],"becoming":[13],"ineffective.":[14],"So,":[15],"researchers":[16],"looking":[18],"for":[19,51,212,235],"alternatives":[20],"in":[21,167,177,223],"form":[23],"antibacterial":[25,112],"peptides":[26,110,198],"(ABPs)":[27],"based":[28],"medicines.":[29],"The":[30,115,218],"discovery":[31],"novel":[33,165,175,237],"ABPs":[34,166,176,188,238],"using":[35],"wet-lab":[36],"experiments":[37],"is":[38,56],"time-consuming":[39],"and":[40,68,90,95,103,127,137,159,209,220],"expensive.":[41],"Many":[42],"machine":[43],"learning":[44,81],"models":[45],"have":[46,189],"been":[47,121,157],"proposed":[48],"search":[50],"new":[52],"ABPs,":[53],"but":[54],"there":[55],"still":[57],"scope":[58],"develop":[60],"a":[61,76,153],"robust":[62],"model":[63,119,146,219],"that":[64,83,144],"has":[65,120,156],"high":[66],"accuracy":[67],"precision.":[69],"In":[70],"this":[71,171,224],"work,":[72],"we":[73,173],"present":[74],"StaBle-ABPpred,":[75],"stacked":[77],"ensemble":[78,97],"technique-based":[79],"deep":[80],"classifier":[82],"uses":[84],"bidirectional":[85],"long-short":[86],"term":[87],"memory":[88],"(biLSTM)":[89],"attention":[91],"mechanism":[92],"at":[93,106,161],"base-level":[94],"an":[96],"random":[99],"forest,":[100],"gradient":[101],"boosting":[102],"logistic":[104],"regression":[105],"meta-level":[107],"classify":[109],"as":[111],"or":[113],"otherwise.":[114],"performance":[116],"our":[118,145],"compared":[122],"with":[123,194,239],"several":[124],"state-of-the-art":[125],"classifiers,":[126],"results":[128],"were":[129],"subjected":[130],"analysis":[132],"variance":[134],"(ANOVA)":[135],"test":[136],"its":[138],"post":[139],"hoc":[140],"analysis,":[141],"which":[142],"proves":[143],"performs":[147],"better":[148],"than":[149],"classifiers.":[151],"Furthermore,":[152],"web":[154],"app":[155,221],"developed":[158,222],"deployed":[160],"https://stable-abppred.anvil.app":[162],"identify":[164],"protein":[168,233],"sequences.":[169],"Using":[170],"app,":[172],"identified":[174],"all":[178],"proteins":[180],"Streptococcus":[183],"phage":[184],"T12":[185],"genome.":[186],"These":[187],"shown":[190],"amino":[191],"acid":[192],"similarities":[193],"experimentally":[195,210],"tested":[196],"antimicrobial":[197],"(AMPs)":[199],"other":[201],"organisms.":[202],"Hence,":[203],"they":[204],"could":[205],"be":[206,227],"chemically":[207],"synthesized":[208],"validated":[211],"their":[213],"activity":[214],"against":[215,243],"different":[216],"bacteria.":[217],"work":[225],"can":[226],"further":[228],"utilized":[229],"explore":[231],"diversity":[234],"identifying":[236],"broad-spectrum":[240],"activity,":[241],"especially":[242],"MDR":[244],"bacterial":[245],"pathogens.":[246]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":19},{"year":2024,"cited_by_count":18},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
