Model: kr-manish/fine-tuned-bge-base-raw_pdf-v1
Author: kr-manish
Pipeline: sentence-similarity
Library: sentence-transformers
Tags: sentence-transformers, safetensors, bert, sentence-similarity, feature-extraction, generated_from_trainer, dataset_size:76, loss:MatryoshkaLoss, loss:MultipleNegativesRankingLoss, arxiv:1908.10084, arxiv:2205.13147, arxiv:1705.00652, base_model:BAAI/bge-base-en-v1.5, base_model:finetune:BAAI/bge-base-en-v1.5, model-index, text-embeddings-inference, endpoints_compatible, region:us
Base models (finetune): id: BAAI/bge-base-en-v1.5
Card metadata: base_model: BAAI/bge-base-en-v1.5
library_name: sentence-transformers
metrics: cosine_accuracy@1, cosine_accuracy@3, cosine_accuracy@5, cosine_accuracy@10, cosine_precision@1, cosine_precision@3, cosine_precision@5, cosine_precision@10, cosine_recall@1, cosine_recall@3, cosine_recall@5, cosine_recall@10, cosine_ndcg@10, cosine_mrr@10, cosine_map@100
pipeline_tag: sentence-similarity
tags: sentence-transformers, sentence-similarity, feature-extraction, generated_from_trainer, dataset_size:76, loss:MatryoshkaLoss, loss:MultipleNegativesRankingLoss
widget: source_sentence: ply C Tris  pH8.0 Dextran Trehalose dNTPS Na2 SO4 Triton X-100
sentences: NE, Assignee, ID  NO, source_sentence: Certain  isothermal  amplification  methods  are  able  to amplify a target nucleic  acid from  trace levels to  very high  25 and  detectable  levels  within  a  matter  of  minutes.  Such isothermal  methods,  e.g.,  Nicking  and  Extension Amplifi cation Reaction  (NEAR),  allow users  to  detect  a  particular nucleotide  sequence in trace  amounts,  facilitating point-of care  testing  and  increasing  the  accessibility  and  speed  of diagnostics. Streptococcus pyogenes is  the causative agent of group A streptococcal  (GAS)  infections  such  as  pharyngitis,  impe tigo,  and  life-threatening  necrotizing  fasciitis  and  sepsis. The  most  common  GAS  infection,  pharyngitis,  can  be diagnosed by collecting a throat swab sample from a patient and culturing the sample under conditions that would enable bacterial,  specifically S.  pyogenes,  growth, which takes 2-3 days.  Culturing  S.  pyogenes  is  an  accurate  and  reliable method of diagnosing GAS,  but it  is  slow. A 2-3  day delay in prescribing appropriate  antibiotic treatment can result in unnecessary patient suffering and potentially the onset oflife threatening conditions such as rheumatic fever.  In the recent past, biochemical methods have been developed to detect S. pyogenes,  but these  methods  do  not  provide  the  necessary characteristics  to  be  deployed  in  the  point-of-care  setting, either due  to  a  lack of sensitivity  or time to  result  (speed). Accordingly, a highly sensitive and rapid qualitative assay for the detection and diagnosis of a S.  pyogenes infection is desired.
sentences: ABSTRACT, TACTGTTCCTGTTTGA, BACKGROUND, source_sentence: W02010/141940 12/2010 CA (US)
sentences: WO, DESCRIPTION OF  DRAWINGS, SUMMARY, source_sentence: 9 6 nucleotide sequence at least 80,  85  or 95%  identity to  SEQ
sentences: 2, NEAR, Ph.  Dissertation published Jan.  1,  2008.  (Year, source_sentence: One potential inhibitor of the NEAR technology is human gDNA.  When  a  throat  swab  sample  is  collected  from  a patient  symptomatic  for  GAS  infection,  it  is  possible  that human gDNA is  also  collected on the  swab  (from immune cells such as white blood cells or from local epithelial cells). In order to  assess the  impact that human gDNA has on the GAS  assay,  a  study  was  performed  using  three  different levels  of GAS  gDNA  (25,  250  and  1000  copies)  in  the presence of 0,  10,  50,  100,  250,  500  or  1000 ng  of human gDNA. As  shown in FIG.  6,  the presence of human gDNA does  have  an  impact  on GAS  assay  performance,  and  the impact is  GAS  target concentration dependent.  When there is  a low copy number of target GAS present in the reaction, 10  ng  of human  gDNA  or  more  significantly  inhibits  the assay. At 250 copies  of GAS target,  the impact of 10 ng of 60  human gDNA is  less, and at 1,000 copies of GAS target, the effect of 10 ng of human gDNA on the assay is  significantly less.  In fact,  when  1,000  copies  of target  is  present  in the assay, up to  100 ng of human gDNA can be tolerated, albeit with a slower amplification speed and reduced fluorescence signal.  Testing  of the  501  (IC  only)  mix  showed  a  more robust  response  to  human  gDNA.  When  the  501  mix  was tested in the presence of O copies  of target  GAS  and up  to US  10,329,601  B2 23 1,000 ng of human gDNA, the assay still produced a clearly positive signal at 500 ng of human gDNA (even at 1,000 ng of human  gDNA  the  fluorescence  signal  was  still  above background). Other Embodiments It  is  to  be understood  that  while  the  invention has  been described  in  conjunction  with  the  detailed  description 24 thereof,  the  foregoing  description  is  intended  to  illustrate and not limit the scope of the invention, which is  defined by the scope of the appended claims. Other aspects, advantages, and  modifications  are  within  the  scope  of the  following claims.
sentences: 75, TGTAGCTGACACCACCAAGCTACA, Impact  of Human Genomic  DNA (gDNA)  on GAS Assay
model-index: name: SentenceTransformer based on BAAI/bge-base-en-v1.5
results: task: type: information-retrieval
name: Information Retrieval
dataset: name: dim 768
type: dim_768
metrics: type: cosine_accuracy@1
value: 0.625
name: Cosine Accuracy@1
verified: no, type: cosine_accuracy@3
value: 0.875
name: Cosine Accuracy@3
verified: no, type: cosine_accuracy@5
value: 1
name: Cosine Accuracy@5
verified: no, type: cosine_accuracy@10
value: 1
name: Cosine Accuracy@10
verified: no, type: cosine_precision@1
value: 0.625
name: Cosine Precision@1
verified: no, type: cosine_precision@3
value: 0.29166666666666663
name: Cosine Precision@3
verified: no, type: cosine_precision@5
value: 0.2
name: Cosine Precision@5
verified: no, type: cosine_precision@10
value: 0.1
name: Cosine Precision@10
verified: no, type: cosine_recall@1
value: 0.625
name: Cosine Recall@1
verified: no, type: cosine_recall@3
value: 0.875
name: Cosine Recall@3
verified: no, type: cosine_recall@5
value: 1
name: Cosine Recall@5
verified: no, type: cosine_recall@10
value: 1
name: Cosine Recall@10
verified: no, type: cosine_ndcg@10
value: 0.8202007889556063
name: Cosine Ndcg@10
verified: no, type: cosine_mrr@10
value: 0.7604166666666666
name: Cosine Mrr@10
verified: no, type: cosine_map@100
value: 0.7604166666666666
name: Cosine Map@100
verified: no, task: type: information-retrieval
name: Information Retrieval
dataset: name: dim 512
type: dim_512
metrics: type: cosine_accuracy@1
value: 0.625
name: Cosine Accuracy@1
verified: no, type: cosine_accuracy@3
value: 0.875
name: Cosine Accuracy@3
verified: no, type: cosine_accuracy@5
value: 0.875
name: Cosine Accuracy@5
verified: no, type: cosine_accuracy@10
value: 1
name: Cosine Accuracy@10
verified: no, type: cosine_precision@1
value: 0.625
name: Cosine Precision@1
verified: no, type: cosine_precision@3
value: 0.29166666666666663
name: Cosine Precision@3
verified: no, type: cosine_precision@5
value: 0.17500000000000002
name: Cosine Precision@5
verified: no, type: cosine_precision@10
value: 0.1
name: Cosine Precision@10
verified: no, type: cosine_recall@1
value: 0.625
name: Cosine Recall@1
verified: no, type: cosine_recall@3
value: 0.875
name: Cosine Recall@3
verified: no, type: cosine_recall@5
value: 0.875
name: Cosine Recall@5
verified: no, type: cosine_recall@10
value: 1
name: Cosine Recall@10
verified: no, type: cosine_ndcg@10
value: 0.810892117584935
name: Cosine Ndcg@10
verified: no, type: cosine_mrr@10
value: 0.75
name: Cosine Mrr@10
verified: no, type: cosine_map@100
value: 0.75
name: Cosine Map@100
verified: no, task: type: information-retrieval
name: Information Retrieval
dataset: name: dim 256
type: dim_256
metrics: type: cosine_accuracy@1
value: 0.625
name: Cosine Accuracy@1
verified: no, type: cosine_accuracy@3
value: 0.875
name: Cosine Accuracy@3
verified: no, type: cosine_accuracy@5
value: 0.875
name: Cosine Accuracy@5
verified: no, type: cosine_accuracy@10
value: 1
name: Cosine Accuracy@10
verified: no, type: cosine_precision@1
value: 0.625
name: Cosine Precision@1
verified: no, type: cosine_precision@3
value: 0.29166666666666663
name: Cosine Precision@3
verified: no, type: cosine_precision@5
value: 0.17500000000000002
name: Cosine Precision@5
verified: no, type: cosine_precision@10
value: 0.1
name: Cosine Precision@10
verified: no, type: cosine_recall@1
value: 0.625
name: Cosine Recall@1
verified: no, type: cosine_recall@3
value: 0.875
name: Cosine Recall@3
verified: no, type: cosine_recall@5
value: 0.875
name: Cosine Recall@5
verified: no, type: cosine_recall@10
value: 1
name: Cosine Recall@10
verified: no, type: cosine_ndcg@10
value: 0.8057993287946483
name: Cosine Ndcg@10
verified: no, type: cosine_mrr@10
value: 0.7447916666666666
name: Cosine Mrr@10
verified: no, type: cosine_map@100
value: 0.7447916666666666
name: Cosine Map@100
verified: no, task: type: information-retrieval
name: Information Retrieval
dataset: name: dim 128
type: dim_128
metrics: type: cosine_accuracy@1
value: 0.75
name: Cosine Accuracy@1
verified: no, type: cosine_accuracy@3
value: 0.875
name: Cosine Accuracy@3
verified: no, type: cosine_accuracy@5
value: 1
name: Cosine Accuracy@5
verified: no, type: cosine_accuracy@10
value: 1
name: Cosine Accuracy@10
verified: no, type: cosine_precision@1
value: 0.75
name: Cosine Precision@1
verified: no, type: cosine_precision@3
value: 0.29166666666666663
name: Cosine Precision@3
verified: no, type: cosine_precision@5
value: 0.2
name: Cosine Precision@5
verified: no, type: cosine_precision@10
value: 0.1
name: Cosine Precision@10
verified: no, type: cosine_recall@1
value: 0.75
name: Cosine Recall@1
verified: no, type: cosine_recall@3
value: 0.875
name: Cosine Recall@3
verified: no, type: cosine_recall@5
value: 1
name: Cosine Recall@5
verified: no, type: cosine_recall@10
value: 1
name: Cosine Recall@10
verified: no, type: cosine_ndcg@10
value: 0.8608566009043177
name: Cosine Ndcg@10
verified: no, type: cosine_mrr@10
value: 0.8166666666666667
name: Cosine Mrr@10
verified: no, type: cosine_map@100
value: 0.8166666666666667
name: Cosine Map@100
verified: no, task: type: information-retrieval
name: Information Retrieval
dataset: name: dim 64
type: dim_64
metrics: type: cosine_accuracy@1
value: 0.75
name: Cosine Accuracy@1
verified: no, type: cosine_accuracy@3
value: 0.875
name: Cosine Accuracy@3
verified: no, type: cosine_accuracy@5
value: 1
name: Cosine Accuracy@5
verified: no, type: cosine_accuracy@10
value: 1
name: Cosine Accuracy@10
verified: no, type: cosine_precision@1
value: 0.75
name: Cosine Precision@1
verified: no, type: cosine_precision@3
value: 0.29166666666666663
name: Cosine Precision@3
verified: no, type: cosine_precision@5
value: 0.2
name: Cosine Precision@5
verified: no, type: cosine_precision@10
value: 0.1
name: Cosine Precision@10
verified: no, type: cosine_recall@1
value: 0.75
name: Cosine Recall@1
verified: no, type: cosine_recall@3
value: 0.875
name: Cosine Recall@3
verified: no, type: cosine_recall@5
value: 1
name: Cosine Recall@5
verified: no, type: cosine_recall@10
value: 1
name: Cosine Recall@10
verified: no, type: cosine_ndcg@10
value: 0.8608566009043177
name: Cosine Ndcg@10
verified: no, type: cosine_mrr@10
value: 0.8166666666666667
name: Cosine Mrr@10
verified: no, type: cosine_map@100
value: 0.8166666666666667
name: Cosine Map@100
verified: no
Likes: 0 | All-time downloads: 138
Created: 2024-07-22 13:39:08