bluuebunny/crossref_metadata_2025 huggingface dataset:
Early Postnatal Experience Modifies Activation of the Pituitary Testicular Complex in Male House Mice (Mus Musculus) Exposed to the Odor of Receptive Con- and Heterospecific Females
Authors: Kotenkova E. V. , Kuznezova E. V. , Maltsev A. N. , Ambaryan A. V.
Published: October 2023

For the first time, it was shown that activation of the pituitary–testicular complex in male house mice exposed to the odor of receptive females of their own and closely related species was modified under the influence of early postnatal experience and the maternal environment. We have confirmed associated formation of behavioral and physiological mechanisms of precopulatory isolation in early ontogenesis. The serum levels of free testosterone in males of closely related species M. spicilegus and M. m. wagneri differ, it is significantly lower in mound-building mice. In males fostered by a conspecific female, the level of free testosterone was significantly lower when exposed to a heterospecific female odor in comparison with a conspecific odor. The rearing of M. m. wagneri males by females of a closely related species led to a decrease in the testosterone response caused by exposure to female chemosignals (both con- and heterospecific) and to the absence of differences in the serum level of free testosterone when exposed to the odor of a female of their own or closely related species. These results indicate that the rearing conditions had a significant influence on the formation of hormonal mechanisms of reproductive isolation.
Comparative Pharmacoeconomic Effectiveness of Interleukin-17 Inhibitors for the Treatment of Ankylosing Spondylitis
Authors: Dubinina T. V. , Gaidukova I. Z. , Sableva N. A. , Sapozhnikov K. V. , Sokolova V. D. , Tolkacheva D. G.
Published: October 2023

The objective of this study was to compare the clinical efficacy and cost-effectiveness of IL-17 inhibitors (SEC, IXE, NTK) in the treatment of adult patients with ankylosing spondylitis (AS) in the healthcare system of the Russian Federation. Materials and methods. The study is a sub-analysis of a previously published systematic review and network meta-analysis of the comparative efficacy of biologics in adult patients with AS in the Russian Federation. NNT values were calculated for BASDAI 50 and ASAS 20/40 after 16 weeks of therapy for all studied drugs. CpR was estimated for each biologic after 16 weeks and one year of therapy. Additionally, we carried out an assessment of the financial burden of the most cost-effective strategies for the treatment of AS. The use of NTK is characterized by an average of no more than three patients needed to treat to achieve one ASAS 20/40 or BASDAI 50 response, while on IXE and SEC no more than 4–5 patients need to be treated, depending on the estimated effectiveness criterion. According to CpR estimate, NTK is the most cost-effective IL-17 inhibitor for the treatment of AS, both after 16 weeks and after one year of therapy. The obtained results make it possible to compare the effectiveness of IL-17 inhibitors from a clinical and economic points of view and can be used both in decision making on treatment strategies for individual patients and at the population level when deciding on the reimbursement of drugs.
Deep geometric learning for intracranial aneurysm detection: towards expert rater performance
Authors: Bizjak Žiga , Choi June Ho , Park Wonhyoung , Pernuš Franjo , Špiclin Žiga
Published: October 2023

Background

Early detection of intracranial aneurysms (IAs) is crucial for patient outcomes. Typically identified on angiographic scans such as CT angiography (CTA) or MR angiography (MRA), the sensitivity of experts in studies on small IAs (diameter <3 mm) was moderate (64–74.1% for CTAs and 70–92.8% for MRAs), and these figures could be lower in a routine clinical setting. Recent research shows that the expert level of sensitivity might be achieved using deep learning approaches.

Methods

A large multisite dataset including 1054 MRA and 2174 CTA scans with expert IA annotations was collected. A novel modality-agnostic two-step IA detection approach was proposed. The first step used nnU-Net for segmenting vascular structures, with model training performed separately for each modality. In the second step, segmentations were converted to vascular surface that was parcellated by sampling point clouds and, using a PointNet++ model, each point was labeled as an aneurysm or vessel class.

Results

Quantitative validation of the test data from different sites than the training data showed that the proposed approach achieved pooled sensitivity of 85% and 90% on 157 MRA scans and 1338 CTA scans, respectively, while the sensitivity for small IAs was 72% and 83%, respectively. The corresponding number of false findings per image was low at 1.54 and 1.57, and 0.4 and 0.83 on healthy subject data.

Conclusions

The proposed approach achieved a state-of-the-art balance between the sensitivity and the number of false findings, matched the expert-level sensitivity to small (and other) IAs on external data, and therefore seems fit for computer-assisted detection of IAs in a clinical setting.
Deep-underground search for the decay of $$^{180\textrm{m}}\text {Ta}$$ with an ultra-low-background HPGe detector
Authors: Cerroni R. , Dell’Oro S. , Formicola A. , Ghislandi S. , Ioannucci L. , Laubenstein M. , Lehnert B. , Nagorny S. S. , Nisi S. , Pagnanini L.
Published: October 2023

$$^{180\textrm{m}}\text {Ta}$$

180
m

Ta

is the longest-lived metastable state presently known. Its decay has not been observed yet. In this work, we report a new result on the decay of $$^{180\textrm{m}}\text {Ta}$$

180
m

Ta

obtained with a 2015.12-g tantalum sample measured for 527.7 d with an ultra-low background HPGe detector in the STELLA laboratory of the Laboratori Nazionali del Gran Sasso (LNGS), in Italy. Before the measurement, the sample has been stored deep-underground for ten years, resulting in subdominant background contributions from cosmogenically activated $$^{182}\text {Ta}$$

182

Ta

. We observe no signal in the regions of interest and set half-life limits on the process for the two channels EC and $$\beta ^-$$

β
-

: $$T_{1/2,~\textrm{EC}}> 1.6 \times 10^{18}$$

T

1
/
2
,

EC

>
1.6
×

10
18

year and $$T_{1/2,~\beta ^-}> 1.1\times 10^{18}$$

T

1
/
2
,

β
-

>
1.1
×

10
18

 year (90% C. I.), respectively. We also set the limit on the $$\gamma $$
γ
de-excitation / IC channel: $$T_{1/2,~\textrm{IC}}> 4.1 \times 10^{15}$$

T

1
/
2
,

IC

>
4.1
×

10
15

 year (90% C. I.). These are, as of now, the most stringent bounds on the decay of $$^{180\textrm{m}}\text {Ta}$$

180
m

Ta

worldwide. Finally, we test the hypothetical scenarios of de-excitation of $$^{180\textrm{m}}\text {Ta}$$

180
m

Ta

by cosmological Dark Matter and constrain new parameter space for strongly-interacting dark-matter particle with mass up to $$10^5$$

10
5

 GeV.
On the conditional existence of foliations by CMC and Willmore type half-spheres
Authors: Metsch Jan-Henrik
Published: October 2023

We study half-spheres with small radii [Formula: see text] sitting on the boundary of a smooth bounded domain while meeting it orthogonally. Even though it is known that there exist families of CMC and Willmore type half-spheres near a nondegenerate critical point [Formula: see text] of the domains boundaries mean curvature, it is unknown in both cases whether these provide a foliation of any deleted neighborhood of [Formula: see text]. We prove that this is not guaranteed and establish a criterion in terms of the boundaries geometry that ensures or prevents the respective surfaces from providing such a foliation. This perhaps surprising phenomenon of conditional foliations is absent in the closely related Riemannian setting, where a foliation is guaranteed. We show how this unconditional foliation arises from symmetry considerations and how these fail to apply to the “domain-setting”.
Comparative Pathogenesis of Severe Acute Respiratory Syndrome Coronaviruses
Authors: Zhang Jingshu , Rissmann Melanie , Kuiken Thijs , Haagmans Bart L.
Published: October 2023

Over the last two decades the world has witnessed the global spread of two genetically related highly pathogenic coronaviruses, severe acute respiratory syndrome coronavirus (SARS-CoV) and SARS-CoV-2. However, the impact of these outbreaks differed significantly with respect to the hospitalizations and fatalities seen worldwide. While many studies have been performed recently on SARS-CoV-2, a comparative pathogenesis analysis with SARS-CoV may further provide critical insights into the mechanisms of disease that drive coronavirus-induced respiratory disease. In this review, we comprehensively describe clinical and experimental observations related to transmission and pathogenesis of SARS-CoV-2 in comparison with SARS-CoV, focusing on human, animal, and in vitro studies. By deciphering the similarities and disparities of SARS-CoV and SARS-CoV-2, in terms of transmission and pathogenesis mechanisms, we offer insights into the divergent characteristics of these two viruses. This information may also be relevant to assessing potential novel introductions of genetically related highly pathogenic coronaviruses.
New Insights into the Physicochemical and Electrochemical Characterization of Gold Phthalocyanine-Based Materials
Authors: Nitiema Wend-Kuny Guy Aristide , Ouemega Bertrand , Lacour Marie-Agnès , Knani Sarra , Petit Eddy , Flaud Valerie , Masquelez Nathalie , Cornu David , Bayo-Bangoura Mabinty , Holade Yaovi
Published: October 2023

Gold phthalocyanine-based materials can allow to combine the unique physical properties of the metallophthalocyanine with gold for numerous applications such as (photo)-electrochemistry or the so-called single atom catalysts (SACs), which require very small amounts of metal. However, there is currently a lack of physico-chemical and electrochemical knowledge to consider such applications. We report the synthesis and the physical characterization of three types of materials, the unsubstituted and the octo-substituted gold phthalocyanines AuPc, AuPc(CN)8 and AuPc(COOH)8, which were successfully synthesized. To interrogate the physicochemical and electrochemical properties of the as-synthesized materials, we have performed a multi-variant study by integrating different methods (UV–vis, FTIRS, TGA-TDA, HR-ESI-MS, SEM-EDX, XRD, XPS, CV). UV–vis confirms the shift towards high wavelengths (bathochromic effect) for the transition Q-band (charge transfer from pyrrolic carbons to neighboring atoms in the macrocycle) of AuPc(CN)8 and AuPc(COOH)8 compared to AuPc. CV in both aqueous and non-aqueous provides the first electrochemical insights into the phthalocyanine ring reduction and oxidation, AuPc/[AuPc]−, [AuPc]−/[AuPc]2− and [AuPc]2−/[AuPc]3−. The results delineate a possible rational pathway for AuPc-based materials or alternatively, their transformation into SACs, where a single Au atom is embedded in a nanostructured carbon-nitrogen scaffold.
Torsional Modeling of Reinforced Concrete Beam–Column Joint Retrofitted by Aramid Fiber—Experimental and Numerical Analysis
Authors: Prasath Palaniappan , Gobinath Ravindran , Sridhar Jayaprakash
Published: October 2023

The performance of structural composites during loading has always been a concern for the designers and construction industry since the reinforced concrete structure was discovered. In this study, lateral load–displacement behavior of beam–column joints wrapped with aramid fiber is evaluated using both experimental and numerical analysis subjected to torsional moment (beam-eccentric loading). Three categories of reinforcement concepts are adopted for the preparation of the beam–column joints, where members are wrapped with aramid fiber at the joints, and others are not fortified with aramid fibers. Prior to testing, the structural composites are cured for maximum 28 days into water. The beam–column joints are subjected to lateral load at a point near the column end of the beam–column connection, and the corresponding deflections are measured until the member fails. Based on the test results, ductility and energy absorption capacity are evaluated. The findings of the numerical investigation of beam–column joint show there is not much variation in the experimental and numerical analysis; it is clearly found that aramid fiber wrapping provided large rigidity in the joint, and it is also prolonged the final failure of the joints. This study shows that in addition to the conventional reinforcement, providing the hanger reinforcement and the diagonal reinforcement improves the rigidity of the beam–column joints during severe loadings, as this study described.
Application of Fuzzy Case-Based Reasoning and Fuzzy Analytic Hierarchy Process for Machining Cutter Planning and Control
Authors: Kasie Fentahun Moges , Bright Glen
Published: October 2023

Cutter planning and control are the crucial problems in machining processes. The current literature indicates that the issue of cutter planning and control problem was not adequately researched in the past in a metal-cutting process. Usually, cutter planning and control problems were addressed using different optimization, simulation, and computer-aided planning (CAP) methods. To bridge this knowledge gap, this study proposed a decision support system (DSS) that can integrate fuzzy case-based reasoning (F-CBR) and fuzzy analytic hierarchy process (F-AHP) methods. This integration was applied to determine hybrid similarity measures between new and prior cases. The study provides new insights into the integration of fuzzy set theory (FST), CBR, and AHP for solving machining cutter planning and control problems. Our proposed system retrieves the best similar prior cases to reuse and adapt them to new order arrivals. A numerical example was illustrated to validate the soundness of the researched DSS.
A Spine Segmentation Method under an Arbitrary Field of View Based on 3D Swin Transformer
Authors: Zhang Yonghong , Ji Xuquan , Liu Wenyong , Li Zhuofu , Zhang Jian , Liu Shanshan , Zhong Woquan , Hu Lei , Li Weishi
Published: October 2023

High‐precision image segmentation of the spine in computed tomography (CT) images is important for the diagnosis of spinal diseases and surgical path planning. Manual segmentation is often tedious and time consuming. Thus, an automatic segmentation algorithm is expected to solve this problem. However, because different areas are scanned, the number of spines in the original CT image and the coverage area are often different, making it extremely difficult to directly conduct a fully autonomous spine segmentation. In this study, we propose a two‐stage automatic spine segmentation method based on 3D Swin Transformer. In the first stage, the 3D Swin‐YoloX algorithm is used to achieve an accurate positioning of each spine segment in the CT images. In the second stage, 3D Swin‐UNet is used to achieve a high‐precision segmentation of the spine. Using an open dataset, the average Dice of our approach can reach 0.942 and the average Hausdorff distance can reach 6.24, indicating a higher accuracy in comparison with other published methods. Our proposed method can effectively eliminate any adverse effects of the different scanning areas on a spinal image segmentation and has a high application value.
Research on a Model for an Empirical Analysis of Inherent Defect Insurance Based on Ruin Theory
Authors: Yan Xikang , Chen Zeyu , Wang Lida , Luo Qinyu , Yan Yunhan , Qiu Tian , Cheng Peng , Wang Shichao
Published: October 2023

The system of inherent defect insurance is an important measure to serve the real economy through financial means and improve the quality of construction projects, which is the future development direction of China’s construction industry. However, the related research is not perfect due to the short implementation of the insurance. This could bring risks to the promotion of insurance for companies. Insurance ruin theory is an important method in risk management theory, so adopting it to manage the risk inherent defect insurance from the perspective of insurance companies is vital. The research starts with the classic insurance ruin theory and determines the coefficient of premium collection from the perspective of claim settlement distribution expectations. Furthermore, the approximate distribution of claim settlement is deduced, and a comprehensive risk assessment model is constructed. Finally, based on the data of insurance actuarial practice in Shanghai, both the ruin probability of inherent defect insurance in each insuring term and its average required initial reserve are calculated, which provides the analyses on the risks and main subitems of inherent defect insurance as well as relevant suggestions. Finally, the sensitivity analysis is used to further analyse the risk of different insurance stages of IDI, and the relevant measures are proposed. The research can provide theoretical assistances for insurance companies to carry out effective risk management and provide model tools to make scientific decisions.
Supplementary Data from Development of a Rare Earth Nanoprobe Enables In Vivo Real-Time Detection of Sentinel Lymph Node Metastasis of Breast Cancer Using NIR-IIb Imaging
Authors: Zhu Yuan-Yuan , Song Liang , Zhang Yong-Qu , Liu Wan-Ling , Chen Wei-Ling , Gao Wen-Liang , Zhang Li-Xin , Wang Jia-Zheng , Ming Zi-He , Zhang Yun , Zhang Guo-Jun
Published: October 2023

All Supplementary Data
Supplementary Data from Targeting the Immunoglobulin IGSF9 Enhances Antitumor T-cell Activity and Sensitivity to Anti–PD-1 Immunotherapy
Authors: Liu Yifan , Wang Hongying , Zhao Xinyu , Zhang Jiashen , Zhao Zhiling , Lian Xia , Zhang Juan , Kong Feng , Hu Tao , Wang Ting , Li Xiaohua , Wang Lei , Wang Dapeng , Li Chunling , Luan Huiwen , Liu Xiaoli , Wang Chunyan , Jiang Yun , Li Xiaomin , Li Fangmin , Ji Shuhao , Wang Yaopeng , Li Zunling
Published: October 2023

Supplementary material and methods and Supplementary tables
Figure S8 from Targeting the Immunoglobulin IGSF9 Enhances Antitumor T-cell Activity and Sensitivity to Anti–PD-1 Immunotherapy
Authors: Liu Yifan , Wang Hongying , Zhao Xinyu , Zhang Jiashen , Zhao Zhiling , Lian Xia , Zhang Juan , Kong Feng , Hu Tao , Wang Ting , Li Xiaohua , Wang Lei , Wang Dapeng , Li Chunling , Luan Huiwen , Liu Xiaoli , Wang Chunyan , Jiang Yun , Li Xiaomin , Li Fangmin , Ji Shuhao , Wang Yaopeng , Li Zunling
Published: October 2023

Anti-IGSF9 regained the activation of T cells.
Figure S5 from Targeting the Immunoglobulin IGSF9 Enhances Antitumor T-cell Activity and Sensitivity to Anti–PD-1 Immunotherapy
Authors: Liu Yifan , Wang Hongying , Zhao Xinyu , Zhang Jiashen , Zhao Zhiling , Lian Xia , Zhang Juan , Kong Feng , Hu Tao , Wang Ting , Li Xiaohua , Wang Lei , Wang Dapeng , Li Chunling , Luan Huiwen , Liu Xiaoli , Wang Chunyan , Jiang Yun , Li Xiaomin , Li Fangmin , Ji Shuhao , Wang Yaopeng , Li Zunling
Published: October 2023

IGSF9 itself did not affect tumor cell proliferation.
Supplementary Fig. 8 from Spatial Profiling of Circular RNAs in Cancer Reveals High Expression in Muscle and Stromal Cells
Authors: García-Rodríguez Juan L. , Korsgaard Ulrik , Ahmadov Ulvi , Jarlstad Olesen Morten T. , Dietrich Kim-Gwendolyn , Hansen Emma B. , Vissing Stine M. , Ulhøi Benedichte P. , Dyrskjøt Lars , Sørensen Karina D. , Kjems Jørgen , Hager Henrik , Kristensen Lasse S.
Published: October 2023

Single molecule in situ hybridization for circSLC8A1 in bladder adenocarcinoma. Brightfield and fluorescent microscopy images of circSLC8A1 at 200X magnification. A signal from circSLC8A1 can be observed in muscle cells, whereas the cancer cells were negative.
Supplementary Fig. 7 from Spatial Profiling of Circular RNAs in Cancer Reveals High Expression in Muscle and Stromal Cells
Authors: García-Rodríguez Juan L. , Korsgaard Ulrik , Ahmadov Ulvi , Jarlstad Olesen Morten T. , Dietrich Kim-Gwendolyn , Hansen Emma B. , Vissing Stine M. , Ulhøi Benedichte P. , Dyrskjøt Lars , Sørensen Karina D. , Kjems Jørgen , Hager Henrik , Kristensen Lasse S.
Published: October 2023

Single molecule in situ hybridization for circITGA7 and circHIPK3 in colon adenocarcinoma and adjacent normal tissues. A, B. Brightfield and fluorescent microscopy images at 200X magnification. A strong signal from circITGA7 can be observed in muscle cells, whereas the epithelium, tumor stroma, and cancer cells were negative
(A). A signal from circHIPK3 can be observed in the epithelium, tumor stroma, muscle, and cancer cells (B).
Tables S4-S6 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Authors: Modi Apexa , Lopez Gonzalo , Conkrite Karina L. , Su Chun , Leung Tsz Ching , Ramanan Sathvik , Manduchi Elisabetta , Johnson Matthew E. , Cheung Daphne , Gadd Samantha , Zhang Jinghui , Smith Malcolm A. , Guidry Auvil Jaime M. , Meshinchi Soheil , Perlman Elizabeth J. , Hunger Stephen P. , Maris John M. , Wells Andrew D. , Grant Struan F.A. , Diskin Sharon J.
Published: October 2023

Table S4: Top 10 expressed lncRNAs across TARGET cancers and GTEx tissues, Table S5: Tissue specificity index (tau score) annotation per gene, Table S6: Validation of tissue specific lncRNAs based on tau score analysis in alternate NBL datasets
Tables S15-S17 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Authors: Modi Apexa , Lopez Gonzalo , Conkrite Karina L. , Su Chun , Leung Tsz Ching , Ramanan Sathvik , Manduchi Elisabetta , Johnson Matthew E. , Cheung Daphne , Gadd Samantha , Zhang Jinghui , Smith Malcolm A. , Guidry Auvil Jaime M. , Meshinchi Soheil , Perlman Elizabeth J. , Hunger Stephen P. , Maris John M. , Wells Andrew D. , Grant Struan F.A. , Diskin Sharon J.
Published: October 2023

Table S15: Data integration using multi-dimensional analysis to prioritize functional lncRNAs in each cancer, Table S16: Prioritized lncRNAs and predicted lncRNA target genes and pathways in NBL, Table S17: GSEA Analysis: MSigDB Hallmarks enriched across genes impacted by siTBX2-AS1 or siTBX2 treatment in NLF
Tables S13-S14 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Authors: Modi Apexa , Lopez Gonzalo , Conkrite Karina L. , Su Chun , Leung Tsz Ching , Ramanan Sathvik , Manduchi Elisabetta , Johnson Matthew E. , Cheung Daphne , Gadd Samantha , Zhang Jinghui , Smith Malcolm A. , Guidry Auvil Jaime M. , Meshinchi Soheil , Perlman Elizabeth J. , Hunger Stephen P. , Maris John M. , Wells Andrew D. , Grant Struan F.A. , Diskin Sharon J.
Published: October 2023

Table S13: lncRNAs associated with CRC of NBL, Table S14: Differentially expressed lncRNAs between major subtypes in NBL
Supplementary Fig. 3 from Spatial Profiling of Circular RNAs in Cancer Reveals High Expression in Muscle and Stromal Cells
Authors: García-Rodríguez Juan L. , Korsgaard Ulrik , Ahmadov Ulvi , Jarlstad Olesen Morten T. , Dietrich Kim-Gwendolyn , Hansen Emma B. , Vissing Stine M. , Ulhøi Benedichte P. , Dyrskjøt Lars , Sørensen Karina D. , Kjems Jørgen , Hager Henrik , Kristensen Lasse S.
Published: October 2023

Heatmap and unsupervised hierarchical clustering of normalized nanostring nCounter data from cancer cells, tumor stroma and normal epithelium. A clearer clustering of these sample groups can be observed when the muscularis propria samples are not included in the analysis.
Supplementary Fig. 10 from Spatial Profiling of Circular RNAs in Cancer Reveals High Expression in Muscle and Stromal Cells
Authors: García-Rodríguez Juan L. , Korsgaard Ulrik , Ahmadov Ulvi , Jarlstad Olesen Morten T. , Dietrich Kim-Gwendolyn , Hansen Emma B. , Vissing Stine M. , Ulhøi Benedichte P. , Dyrskjøt Lars , Sørensen Karina D. , Kjems Jørgen , Hager Henrik , Kristensen Lasse S.
Published: October 2023

Muscle and epithelial marker correlations to circSLC8A1 in prostate cancer patients. Scatter plots comparing the normalized expression levels of circSLC8A1 with levels of the muscle-specific marker, DES, ACTA2 and the epithelial markers KLK3, NKX3.1, and KRT8 for each of the 172 prostatic tumor tissue samples. Linear regression was performed to assess potential correlation and the Pearson correlation coefficient (R).
Type refers to tissue sample type, where 0 stands for Adjacent normal, 1 stands for localized prostate cancer and 2 stands for Primary tumor sample from patient with metastatic prostate cancer.
Figure S7 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Authors: Modi Apexa , Lopez Gonzalo , Conkrite Karina L. , Su Chun , Leung Tsz Ching , Ramanan Sathvik , Manduchi Elisabetta , Johnson Matthew E. , Cheung Daphne , Gadd Samantha , Zhang Jinghui , Smith Malcolm A. , Guidry Auvil Jaime M. , Meshinchi Soheil , Perlman Elizabeth J. , Hunger Stephen P. , Maris John M. , Wells Andrew D. , Grant Struan F.A. , Diskin Sharon J.
Published: October 2023

Figure S7: Validation of TBX2-AS1 expression in NBL cell lines and impact on NBL cell growth
Figure S4 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Authors: Modi Apexa , Lopez Gonzalo , Conkrite Karina L. , Su Chun , Leung Tsz Ching , Ramanan Sathvik , Manduchi Elisabetta , Johnson Matthew E. , Cheung Daphne , Gadd Samantha , Zhang Jinghui , Smith Malcolm A. , Guidry Auvil Jaime M. , Meshinchi Soheil , Perlman Elizabeth J. , Hunger Stephen P. , Maris John M. , Wells Andrew D. , Grant Struan F.A. , Diskin Sharon J.
Published: October 2023

Figure S4: Structural variants impact lncRNAs in pediatric cancers
Figure S2 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Authors: Modi Apexa , Lopez Gonzalo , Conkrite Karina L. , Su Chun , Leung Tsz Ching , Ramanan Sathvik , Manduchi Elisabetta , Johnson Matthew E. , Cheung Daphne , Gadd Samantha , Zhang Jinghui , Smith Malcolm A. , Guidry Auvil Jaime M. , Meshinchi Soheil , Perlman Elizabeth J. , Hunger Stephen P. , Maris John M. , Wells Andrew D. , Grant Struan F.A. , Diskin Sharon J.
Published: October 2023

Figure S2: lncRNA expression varies across pediatric cancers
Table S1 from Breast Cancer–Secreted Factors Promote Lung Metastasis by Signaling Systemically to Induce a Fibrotic Premetastatic Niche
Authors: Cohen Noam , Mundhe Dhanashree , Deasy Sarah K. , Adler Omer , Ershaid Nour , Shami Tamar , Levi-Galibov Oshrat , Wassermann Rina , Scherz-Shouval Ruth , Erez Neta
Published: October 2023

Supplementary Table 1 showing list of proteins detected in protein array
Figure S3 from Breast Cancer–Secreted Factors Promote Lung Metastasis by Signaling Systemically to Induce a Fibrotic Premetastatic Niche
Authors: Cohen Noam , Mundhe Dhanashree , Deasy Sarah K. , Adler Omer , Ershaid Nour , Shami Tamar , Levi-Galibov Oshrat , Wassermann Rina , Scherz-Shouval Ruth , Erez Neta
Published: October 2023

Supplementary data to Figure 6
Supplementary Figure S5 from Radiotherapy-Induced Neurocognitive Impairment Is Driven by Heightened Apoptotic Priming in Early Life and Prevented by Blocking BAX
Authors: Singh Rumani , Yu Stacey , Osman Marwa , Inde Zintis , Fraser Cameron , Cleveland Abigail H. , Almanzar Nicole , Lim Chuan Bian , Joshi Gaurav N. , Spetz Johan , Qin Xingping , Toprani Sneh M. , Nagel Zachary , Hocking Matthew C. , Cormack Robert A. , Yock Torunn I. , Miller Jeffrey W. , Yuan Zhi-Min , Gershon Timothy , Sarosiek Kristopher A.
Published: October 2023

Supplementary Figure S5
Data from Fatty Acids Support the Fitness and Functionality of Tumor-Resident CD8+ T Cells by Maintaining SCML4 Expression
Authors: Feng Maoxiao , Liu Xiaoyan , Hao Xiaodong , Ren Yidan , Dong Guoying , Tian Jie , Wang Yuli , Du Lutao , Wang Yunshan , Wang Chuanxin
Published: October 2023

Abstract
CD8+ tissue-resident memory T (Trm) cells and tumor-infiltrating lymphocytes (TIL) regulate tumor immunity and immune surveillance. Characterization of Trm cells and TILs could help identify potential strategies to boost antitumor immunity. Here, we found that the transcription factor SCML4 was required for the progression and polyfunctionality of Trm cells and was associated with a better prognosis in patients with cancer. Moreover, SCML4 maintained multiple functions of TILs. Increased expression of SCML4 in CD8+ cells significantly reduced the growth of multiple types of tumors in mice, while deletion of SCML4 reduced antitumor immunity and promoted CD8+ T-cell exhaustion. Mechanistically, SCML4 recruited the HBO1–BRPF2–ING4 complex to reprogram the expression of T cell–specific genes, thereby enhancing the survival and effector functions of Trm cells and TILs. SCML4 expression was promoted by fatty acid metabolism through mTOR–IRF4–PRDM1 signaling, and fatty acid metabolism–induced epigenetic modifications that promoted tissue-resident and multifunctional gene expression in Trm cells and TILs. SCML4 increased the therapeutic effect of anti–PD-1 treatment by elevating the expression of effector molecules in TILs and inhibiting the apoptosis of TILs, which could be further enhanced by adding an inhibitor of H3K14ac deacetylation. These results provide a mechanistic perspective of functional regulation of tumor-localized Trm cells and TILs and identify an important activation target for tumor immunotherapy.
Significance:
SCML4 upregulation in CD8+ Trm cells and tumor-infiltrating lymphocytes induced by fatty acid metabolism enhances antitumor immune responses, providing an immunometabolic axis to target for cancer treatment.

See related commentary by Chakraborty et al., p. 3321
Teee Gene Signature DS2 from A Population of Tumor-Infiltrating CD4+ T Cells Co-Expressing CD38 and CD39 Is Associated with Checkpoint Inhibitor Resistance
Authors: Mitra Ankita , Thompson Brian , Strange Ann , Amato Carol M. , Vassallo Melinda , Dolgalev Igor , Hester-McCullough Jonathan , Muramatsu Tomoaki , Kimono Diana , Puranik Amrutesh S. , Weber Jeffrey S. , Woods David
Published: October 2023

Teee Gene Signature
Supplementary Figures 1-7 from A Population of Tumor-Infiltrating CD4+ T Cells Co-Expressing CD38 and CD39 Is Associated with Checkpoint Inhibitor Resistance
Authors: Mitra Ankita , Thompson Brian , Strange Ann , Amato Carol M. , Vassallo Melinda , Dolgalev Igor , Hester-McCullough Jonathan , Muramatsu Tomoaki , Kimono Diana , Puranik Amrutesh S. , Weber Jeffrey S. , Woods David
Published: October 2023

Supplementary Figures 1 - 7
CD38CD39 Population DEGs DS1 from A Population of Tumor-Infiltrating CD4+ T Cells Co-Expressing CD38 and CD39 Is Associated with Checkpoint Inhibitor Resistance
Authors: Mitra Ankita , Thompson Brian , Strange Ann , Amato Carol M. , Vassallo Melinda , Dolgalev Igor , Hester-McCullough Jonathan , Muramatsu Tomoaki , Kimono Diana , Puranik Amrutesh S. , Weber Jeffrey S. , Woods David
Published: October 2023

CD38/CD39 populations DEGs
Supplementary Figure S4 from Memory-like Differentiation, Tumor-Targeting mAbs, and Chimeric Antigen Receptors Enhance Natural Killer Cell Responses to Head and Neck Cancer
Authors: Jacobs Miriam T. , Wong Pamela , Zhou Alice Y. , Becker-Hapak Michelle , Marin Nancy D. , Marsala Lynne , Foster Mark , Foltz Jennifer A. , Cubitt Celia C. , Tran Jennifer , Russler-Germain David A. , Neal Carly , Kersting-Schadek Samantha , Chang Lily , Schappe Timothy , Pence Patrick , McClain Ethan , Zevallos Jose P. , Rich Jason T. , Paniello Randal C. , Jackson Ryan S. , Pipkorn Patrik , Adkins Douglas R. , DeSelm Carl J. , Berrien-Elliott Melissa M. , Puram Sidharth V. , Fehniger Todd A.
Published: October 2023

Supplementary Figure 4. Cetuximab does not impair in vitro growth of HNSCC cells or cause toxicity to mice in NSG xenograft models.
Supplementary Table S9 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Proteomics analysis of plasma three week post CAR-T infusion in relation to CRS
Supplementary Table S8 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Proteomics analysis of plasma one week post CAR-T infusion in relation to CRS
Supplementary Figure S1 from Memory-like Differentiation, Tumor-Targeting mAbs, and Chimeric Antigen Receptors Enhance Natural Killer Cell Responses to Head and Neck Cancer
Authors: Jacobs Miriam T. , Wong Pamela , Zhou Alice Y. , Becker-Hapak Michelle , Marin Nancy D. , Marsala Lynne , Foster Mark , Foltz Jennifer A. , Cubitt Celia C. , Tran Jennifer , Russler-Germain David A. , Neal Carly , Kersting-Schadek Samantha , Chang Lily , Schappe Timothy , Pence Patrick , McClain Ethan , Zevallos Jose P. , Rich Jason T. , Paniello Randal C. , Jackson Ryan S. , Pipkorn Patrik , Adkins Douglas R. , DeSelm Carl J. , Berrien-Elliott Melissa M. , Puram Sidharth V. , Fehniger Todd A.
Published: October 2023

Supplementary Figure 1. Memory-Like (ML) NK cells from normal donors exhibit improved ability to control HNSCC cell lines compared to conventional NK (cNK) cells.
Supplementary Table S5 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Pearson correlation of genes related to culture time
Supplementary Table S4 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Biomarkers for CD8 and CD4 clusters
Supplementary Table S2 from Associations between AI-Assisted Tumor Amphiregulin and Epiregulin IHC and Outcomes from Anti-EGFR Therapy in the Routine Management of Metastatic Colorectal Cancer
Authors: Williams Christopher J.M. , Elliott Faye , Sapanara Nancy , Aghaei Faranak , Zhang Liping , Muranyi Andrea , Yan Dongyao , Bai Isaac , Zhao Zuo , Shires Michael , Wood Henry M. , Richman Susan D. , Hemmings Gemma , Hale Michael , Bottomley Daniel , Galvin Leanne , Cartlidge Caroline , Dance Sarah , Bacon Chris M. , Mansfield Laura , Young-Zvandasara Kathe , Sudan Ajay , Lambert Katy , Bibby Irena , Coupland Sarah E. , Montazeri Amir , Kipling Natalie , Hughes Kathryn , Cross Simon S. , Dewdney Alice , Pheasey Leanne , Leng Cathryn , Gochera Tatenda , Mangham D. Chas , Saunders Mark , Pritchard Martin , Stott Helen , Mukherjee Abhik , Ilyas Mohammad , Silverman Rafael , Hyland Georgina , Sculthorpe Declan , Thornton Kirsty , Gould Imogen , O'Callaghan Ann , Brown Nicholas , Turnbull Samantha , Shaw Lisa , Seymour Matthew T. , West Nicholas P. , Seligmann Jenny F. , Singh Shalini , Shanmugam Kandavel , Quirke Philip
Published: October 2023

AREG/EREG with variation in tissue processing
Supplementary Table S13 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Patient cohort characteristics
Supplementary Figure S1 from Associations between AI-Assisted Tumor Amphiregulin and Epiregulin IHC and Outcomes from Anti-EGFR Therapy in the Routine Management of Metastatic Colorectal Cancer
Authors: Williams Christopher J.M. , Elliott Faye , Sapanara Nancy , Aghaei Faranak , Zhang Liping , Muranyi Andrea , Yan Dongyao , Bai Isaac , Zhao Zuo , Shires Michael , Wood Henry M. , Richman Susan D. , Hemmings Gemma , Hale Michael , Bottomley Daniel , Galvin Leanne , Cartlidge Caroline , Dance Sarah , Bacon Chris M. , Mansfield Laura , Young-Zvandasara Kathe , Sudan Ajay , Lambert Katy , Bibby Irena , Coupland Sarah E. , Montazeri Amir , Kipling Natalie , Hughes Kathryn , Cross Simon S. , Dewdney Alice , Pheasey Leanne , Leng Cathryn , Gochera Tatenda , Mangham D. Chas , Saunders Mark , Pritchard Martin , Stott Helen , Mukherjee Abhik , Ilyas Mohammad , Silverman Rafael , Hyland Georgina , Sculthorpe Declan , Thornton Kirsty , Gould Imogen , O'Callaghan Ann , Brown Nicholas , Turnbull Samantha , Shaw Lisa , Seymour Matthew T. , West Nicholas P. , Seligmann Jenny F. , Singh Shalini , Shanmugam Kandavel , Quirke Philip
Published: October 2023

Example AREG and EREG immunohistochemistry
Supplementary Table S1 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Representativeness of Study Participants
Supplementary Figure S8 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Supplementary Figure S8. Functional scores amongst the CD8+ CAR-T clusters.
Supplementary Figure S7 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Supplementary Figure S7. Cluster specifications of single-cell RNA sequenced CAR-T infusion
products
Supplementary Figure S6 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Supplementary Figure S6. Validation of single-cell RNA sequencing data of CAR-T products.
Supplementary Table S4 from Baseline Mutations and ctDNA Dynamics as Prognostic and Predictive Factors in ER-Positive/HER2-Negative Metastatic Breast Cancer Patients
Authors: Pascual Javier , Gil-Gil Miguel , Proszek Paula , Zielinski Christoph , Reay Alistair , Ruiz-Borrego Manuel , Cutts Rosalind , Ciruelos Gil Eva M. , Feber Andrew , Muñoz-Mateu Montserrat , Swift Claire , Bermejo Begoña , Herranz Jesus , Margeli Vila Mireia , Antón Antonio , Kahan Zsuzsanna , Csöszi Tibor , Liu Yuan , Fernandez-Garcia Daniel , Garcia-Murillas Isaac , Hubank Michael , Turner Nicholas C. , Martín Miguel
Published: October 2023

Supplementary Table 4. Baseline characteristics comparison between our selected study population and the overall PEARL population.
Supplementary Table S3 from Baseline Mutations and ctDNA Dynamics as Prognostic and Predictive Factors in ER-Positive/HER2-Negative Metastatic Breast Cancer Patients
Authors: Pascual Javier , Gil-Gil Miguel , Proszek Paula , Zielinski Christoph , Reay Alistair , Ruiz-Borrego Manuel , Cutts Rosalind , Ciruelos Gil Eva M. , Feber Andrew , Muñoz-Mateu Montserrat , Swift Claire , Bermejo Begoña , Herranz Jesus , Margeli Vila Mireia , Antón Antonio , Kahan Zsuzsanna , Csöszi Tibor , Liu Yuan , Fernandez-Garcia Daniel , Garcia-Murillas Isaac , Hubank Michael , Turner Nicholas C. , Martín Miguel
Published: October 2023

Supplementary Table 3. Complete table results for all patients (n=120) involved in C1D15 analysis.
Supplementary Figure S1 from Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients
Authors: Sarén Tina , Ramachandran Mohanraj , Gammelgård Gustav , Lövgren Tanja , Mirabello Claudio , Björklund Åsa K. , Wikström Kristina , Hashemi Jamileh , Freyhult Eva , Ahlström Håkan , Amini Rose-Marie , Hagberg Hans , Loskog Angelica , Enblad Gunilla , Essand Magnus
Published: October 2023

Supplementary Figure S1. CRP level before CAR-T infusion influence response
Tables 2 from Tumor Microenvironment Modifications Induced by Afatinib in Squamous Cell Carcinoma of the Head and Neck: A Window-of-Opportunity Study (EORTC-90111–24111)
Authors: Beyaert Simon P. , Loriot Axelle E. , Huyghe Nicolas D. , Goebbels Rose-Marie , Mendola Antonella , Govaerts Anne-Sophie , Fortpied Catherine , Baldin Pamela , Licitra Lisa F. , Lalami Yassine , Clement Paul M. , Machiels Jean-Pascal H. , Schmitz Sandra
Published: October 2023

Lists of differentially expressed genes in RNA-seq analyses of bulk biopsies
Supplementary Data_Figures 1 from Tumor Microenvironment Modifications Induced by Afatinib in Squamous Cell Carcinoma of the Head and Neck: A Window-of-Opportunity Study (EORTC-90111–24111)
Authors: Beyaert Simon P. , Loriot Axelle E. , Huyghe Nicolas D. , Goebbels Rose-Marie , Mendola Antonella , Govaerts Anne-Sophie , Fortpied Catherine , Baldin Pamela , Licitra Lisa F. , Lalami Yassine , Clement Paul M. , Machiels Jean-Pascal H. , Schmitz Sandra
Published: October 2023

Supplementary data (figures)
Supplementary Data - "Tables 1" from Tumor Microenvironment Modifications Induced by Afatinib in Squamous Cell Carcinoma of the Head and Neck: A Window-of-Opportunity Study (EORTC-90111–24111)
Authors: Beyaert Simon P. , Loriot Axelle E. , Huyghe Nicolas D. , Goebbels Rose-Marie , Mendola Antonella , Govaerts Anne-Sophie , Fortpied Catherine , Baldin Pamela , Licitra Lisa F. , Lalami Yassine , Clement Paul M. , Machiels Jean-Pascal H. , Schmitz Sandra
Published: October 2023

Tables 1A & 1B
Supplementary Data 1 from Preclinical Efficacy of LP-184, a Tumor Site Activated Synthetic Lethal Therapeutic, in Glioblastoma
Authors: Lal Bachchu , Kulkarni Aditya , McDermott Joseph , Rais Rana , Alt Jesse , Wu Ying , Lopez-Bertoni Hernando , Sall Sophie , Kathad Umesh , Zhou Jianli , Slusher Barbara S. , Bhatia Kishor , Laterra John
Published: October 2023

Supplemental Materials
Figures 1 from Preclinical Efficacy of LP-184, a Tumor Site Activated Synthetic Lethal Therapeutic, in Glioblastoma
Authors: Lal Bachchu , Kulkarni Aditya , McDermott Joseph , Rais Rana , Alt Jesse , Wu Ying , Lopez-Bertoni Hernando , Sall Sophie , Kathad Umesh , Zhou Jianli , Slusher Barbara S. , Bhatia Kishor , Laterra John
Published: October 2023

Supplemental Figures
Supplementary Table 1 from Specific Targeting of Multiple Myeloma by Dual Split-signaling Chimeric Antigen Receptor T cells Directed against CD38 and CD138
Authors: van der Schans Jort J. , Wang Ziyu , van Arkel Jennemiek , van Schaik Thijs , Katsarou Afroditi , Ruiter Ruud , Baardemans Thomas , Yuan Huipin , de Bruijn Joost , Zweegman Sonja , van de Donk Niels W.C.J. , Groen Richard W.J. , Themeli Maria , Mutis Tuna
Published: October 2023

Supplementary Table containing nucleotide sequences used in CAR designs
Supplementary Data Tables S1-S5 from Diagnostic Performance of a Tumor Marker Gene Test to Personalize Serum CA19–9 Reference Ranges
Authors: Dbouk Mohamad , Abe Toshiya , Koi Chiho , Ando Yohei , Saba Helena , Abou Diwan Elizabeth , MacGregor-Das Anne , Blackford Amanda L. , Mocci Evelina , Beierl Katie , Dbouk Ali , He Jin , Burkhart Richard , Lennon Anne Marie , Sokoll Lori , Canto Marcia Irene , Eshleman James R. , Goggins Michael
Published: October 2023

Supplementary tables
Supplementary Data 1 from Diagnostic Performance of a Tumor Marker Gene Test to Personalize Serum CA19–9 Reference Ranges
Authors: Dbouk Mohamad , Abe Toshiya , Koi Chiho , Ando Yohei , Saba Helena , Abou Diwan Elizabeth , MacGregor-Das Anne , Blackford Amanda L. , Mocci Evelina , Beierl Katie , Dbouk Ali , He Jin , Burkhart Richard , Lennon Anne Marie , Sokoll Lori , Canto Marcia Irene , Eshleman James R. , Goggins Michael
Published: October 2023

Supplementary Figure 1
Supplementary Figure S7 from Integrated Genomic and Transcriptomic Analysis Improves Disease Classification and Risk Stratification of MDS with Ring Sideroblasts
Authors: Todisco Gabriele , Creignou Maria , Bernard Elsa , Björklund Ann-Charlotte , Moura Pedro Luis , Tesi Bianca , Mortera-Blanco Teresa , Sander Birgitta , Jansson Monika , Walldin Gunilla , Barbosa Indira , Reinsbach Susanne E. , Hofman Isabel Juliana , Nilsson Christer , Yoshizato Tetsuichi , Dimitriou Marios , Chang David , Olafsdottir Svannildur , Venckute Larsson Sigita , Tobiasson Magnus , Malcovati Luca , Woll Petter , Jacobsen Sten Eirik W. , Papaemmanuil Elli , Hellström-Lindberg Eva
Published: October 2023

Results from Gene Ontology enrichment analysis (molecular function dataset) for the top 250 contributors of principal component 2 (PC2)
Supplementary Figure S5 from Integrated Genomic and Transcriptomic Analysis Improves Disease Classification and Risk Stratification of MDS with Ring Sideroblasts
Authors: Todisco Gabriele , Creignou Maria , Bernard Elsa , Björklund Ann-Charlotte , Moura Pedro Luis , Tesi Bianca , Mortera-Blanco Teresa , Sander Birgitta , Jansson Monika , Walldin Gunilla , Barbosa Indira , Reinsbach Susanne E. , Hofman Isabel Juliana , Nilsson Christer , Yoshizato Tetsuichi , Dimitriou Marios , Chang David , Olafsdottir Svannildur , Venckute Larsson Sigita , Tobiasson Magnus , Malcovati Luca , Woll Petter , Jacobsen Sten Eirik W. , Papaemmanuil Elli , Hellström-Lindberg Eva
Published: October 2023

Cumulative proportion of principal components derived from principal component analysis. The first 14 explain 2/3 of the total variability.
Supplementary Figure S18 from Integrated Genomic and Transcriptomic Analysis Improves Disease Classification and Risk Stratification of MDS with Ring Sideroblasts
Authors: Todisco Gabriele , Creignou Maria , Bernard Elsa , Björklund Ann-Charlotte , Moura Pedro Luis , Tesi Bianca , Mortera-Blanco Teresa , Sander Birgitta , Jansson Monika , Walldin Gunilla , Barbosa Indira , Reinsbach Susanne E. , Hofman Isabel Juliana , Nilsson Christer , Yoshizato Tetsuichi , Dimitriou Marios , Chang David , Olafsdottir Svannildur , Venckute Larsson Sigita , Tobiasson Magnus , Malcovati Luca , Woll Petter , Jacobsen Sten Eirik W. , Papaemmanuil Elli , Hellström-Lindberg Eva
Published: October 2023

Distribution of estimated MEP proportion according to bone marrow blast percentage. P-value for each pairwise comparison is reported in the upper part of the plot.
Supplementary Methods S1 from Neoantigen Targetability in Progressive Advanced Melanoma
Authors: van den Bulk Jitske , Verdegaal Els M.E. , van der Ploeg Manon , Visser Marten , Nunes Joana B. , de Ru Arnoud H. , Tjokrodirijo Rayman T.N. , Ijsselsteijn Marieke E. , Janssen Natasja I. , van der Breggen Ruud , de Bruin Linda , de Kok Pita , Janssen George M.C. , Ruano Dina , Kapiteijn Ellen H.W. , van Veelen Peter A. , de Miranda Noel F.C.C. , van der Burg Sjoerd H.
Published: October 2023

More detailed information on: 1) Immune-fluorescent staining, 2) Mass spectrometry, 3) MLTC and TIL cultures.