From 973e2b7a5df7a7fb7d07d3bc064bd7f426504ecc Mon Sep 17 00:00:00 2001 From: akhanf <11492701+akhanf@users.noreply.github.com> Date: Mon, 1 Jun 2026 10:14:39 +0000 Subject: [PATCH] Update publications by Actions bot --- _data/publications/publications.csv | 5 +- get_publications.ipynb | 215 +++++++++++++++------------- 2 files changed, 123 insertions(+), 97 deletions(-) diff --git a/_data/publications/publications.csv b/_data/publications/publications.csv index 3421cda..a2d6f30 100644 --- a/_data/publications/publications.csv +++ b/_data/publications/publications.csv @@ -1,6 +1,9 @@ pmid,pmcid,doi,title,authors,year,month,day,journal,volume,issue,pages +41531669,PMC12794307,10.1162/IMAG.a.1080,Revisiting the interpretation of axon diameter mapping using higher-order signal representations,"['Karat BG', 'Wren-Jarvis J', 'Raven EP', 'Khan AR', 'Jones DK', 'Palombo M', 'Veraart J']",2026,6,1,Imaging Neurosci (Camb),4,, +42120698,PMC13167817,10.1007/s11682-026-01162-6,Longitudinal evaluation of hippocampal subfields volumes and episodic memory in breast cancer patients and healthy controls,"['Lerosier B', 'Segobin S', 'Allouache D', 'Noal S', 'Levy C', 'Khan AR', 'Karat BG', 'Christy F', 'Joly F', 'Chetelat G', 'Eustache F', 'Giffard B', 'Perrier J']",2026,5,13,Brain Imaging Behav,20,3, +41680562,PMC13009190,10.1038/s42003-026-09622-x,Microstructural variation of hippocampal substructures across childhood and adolescence quantified with high-gradient diffusion MRI,"['Karat BG', 'Genc S', 'Raven EP', 'Palombo M', 'Khan AR', 'Jones DK']",2026,2,12,Commun Biol,9,1, 41280080,PMC12632981,10.1101/2025.10.15.682705,Hippocampal grey matter changes across scales in Alzheimer's Disease,"['Karat BG', 'Farahani MV', 'Davidson M', 'Thurairajah A', 'Taha A', 'Schmitz TW', 'Khan AR']",2025,10,15,bioRxiv,,, -41034610,PMC12510884,10.1038/s41592-025-02783-3,HippoMaps: multiscale cartography of human hippocampal organization,"['DeKraker J', 'Cabalo DG', 'Royer J', 'Ngo A', 'Khan AR', 'Karat BG', 'Benkarim O', 'Rodriguez-Cruces R', 'Frauscher B', 'Pana R', 'Hansen JY', 'Misic B', 'Valk SL', 'Lau JC', 'Kirschner M', 'Bernasconi A', 'Bernasconi N', 'Muenzing SEA', 'Axer M', 'Amunts K', 'Evans AC', 'Bernhardt BC']",2025,10,1,Nat Methods,22,10,2211-2222 +41034610,PMC12510884,10.1038/s41592-025-02783-3,HippoMaps: multiscale cartography of human hippocampal organization,"['DeKraker J', 'Cabalo DG', 'Royer J', 'Ngo A', 'Khan AR', 'Karat BG', 'Benkarim O', 'Rodriguez-Cruces R', 'Frauscher B', 'Pana R', 'Hansen JY', 'Misic B', 'Valk SL', 'Lau JC', 'Kirschner M', 'Bernasconi A', 'Bernasconi N', 'Muenzing SEA', 'Axer M', 'Amunts K', 'Evans AC', 'Bernhardt BC']",2025,10,1,Nat Methods,22,10.0,2211-2222 40505888,,10.1016/j.bpsc.2025.06.001,Neurite Density and Kurtosis in the Gray Matter of People With Early Schizophrenia,"['Van Dyken PC', 'Khan AR', 'Palaniyappan L']",2025,6,10,Biol Psychiatry Cogn Neurosci Neuroimaging,,, 40202728,PMC11983296,10.1001/jamapsychiatry.2025.0432,Convergence of Cannabis and Psychosis on the Dopamine System,"['Ahrens J', 'Ford SD', 'Schaefer B', 'Reese D', 'Khan AR', 'Tibbo P', 'Rabin R', 'Cassidy CM', 'Palaniyappan L']",2025,6,1,JAMA Psychiatry,82,6.0,609-617 40404790,PMC12098761,10.1038/s42003-025-08165-x,Early life stress impairs hippocampal subfield myelination,"['Nichols ES', 'Karat BG', 'Grace M', 'Bezanson S', 'Khan AR', 'Duerden EG']",2025,5,22,Commun Biol,8,1.0,785 diff --git a/get_publications.ipynb b/get_publications.ipynb index 967df92..abbec3c 100644 --- a/get_publications.ipynb +++ b/get_publications.ipynb @@ -5,10 +5,10 @@ "id": "74557173", "metadata": { "papermill": { - "duration": 0.00232, - "end_time": "2026-01-01T05:23:23.506811", + "duration": 0.002433, + "end_time": "2026-06-01T10:14:35.372438", "exception": false, - "start_time": "2026-01-01T05:23:23.504491", + "start_time": "2026-06-01T10:14:35.370005", "status": "completed" }, "tags": [] @@ -37,16 +37,16 @@ "id": "e22f3858", "metadata": { "execution": { - "iopub.execute_input": "2026-01-01T05:23:23.511797Z", - "iopub.status.busy": "2026-01-01T05:23:23.511485Z", - "iopub.status.idle": "2026-01-01T05:23:23.836326Z", - "shell.execute_reply": "2026-01-01T05:23:23.835734Z" + "iopub.execute_input": "2026-06-01T10:14:35.377750Z", + "iopub.status.busy": "2026-06-01T10:14:35.377191Z", + "iopub.status.idle": "2026-06-01T10:14:36.582593Z", + "shell.execute_reply": "2026-06-01T10:14:36.582013Z" }, "papermill": { - "duration": 0.329352, - "end_time": "2026-01-01T05:23:23.838028", + "duration": 1.209973, + "end_time": "2026-06-01T10:14:36.584343", "exception": false, - "start_time": "2026-01-01T05:23:23.508676", + "start_time": "2026-06-01T10:14:35.374370", "status": "completed" }, "tags": [] @@ -67,10 +67,10 @@ "id": "d526e19d", "metadata": { "papermill": { - "duration": 0.001712, - "end_time": "2026-01-01T05:23:23.841704", + "duration": 0.001685, + "end_time": "2026-06-01T10:14:36.588075", "exception": false, - "start_time": "2026-01-01T05:23:23.839992", + "start_time": "2026-06-01T10:14:36.586390", "status": "completed" }, "tags": [] @@ -85,16 +85,16 @@ "id": "5d9095c2", "metadata": { "execution": { - "iopub.execute_input": "2026-01-01T05:23:23.845945Z", - "iopub.status.busy": "2026-01-01T05:23:23.845684Z", - "iopub.status.idle": "2026-01-01T05:23:23.853140Z", - "shell.execute_reply": "2026-01-01T05:23:23.852521Z" + "iopub.execute_input": "2026-06-01T10:14:36.592847Z", + "iopub.status.busy": "2026-06-01T10:14:36.592289Z", + "iopub.status.idle": "2026-06-01T10:14:36.599740Z", + "shell.execute_reply": "2026-06-01T10:14:36.599127Z" }, "papermill": { - "duration": 0.011364, - "end_time": "2026-01-01T05:23:23.854682", + "duration": 0.01125, + "end_time": "2026-06-01T10:14:36.601043", "exception": false, - "start_time": "2026-01-01T05:23:23.843318", + "start_time": "2026-06-01T10:14:36.589793", "status": "completed" }, "tags": [] @@ -116,10 +116,10 @@ "id": "da017a87", "metadata": { "papermill": { - "duration": 0.001683, - "end_time": "2026-01-01T05:23:23.858059", + "duration": 0.001632, + "end_time": "2026-06-01T10:14:36.604365", "exception": false, - "start_time": "2026-01-01T05:23:23.856376", + "start_time": "2026-06-01T10:14:36.602733", "status": "completed" }, "tags": [] @@ -134,16 +134,16 @@ "id": "700613de", "metadata": { "execution": { - "iopub.execute_input": "2026-01-01T05:23:23.863510Z", - "iopub.status.busy": "2026-01-01T05:23:23.863124Z", - "iopub.status.idle": "2026-01-01T05:23:23.866777Z", - "shell.execute_reply": "2026-01-01T05:23:23.866057Z" + "iopub.execute_input": "2026-06-01T10:14:36.608799Z", + "iopub.status.busy": "2026-06-01T10:14:36.608402Z", + "iopub.status.idle": "2026-06-01T10:14:36.612054Z", + "shell.execute_reply": "2026-06-01T10:14:36.611348Z" }, "papermill": { - "duration": 0.007863, - "end_time": "2026-01-01T05:23:23.868200", + "duration": 0.007333, + "end_time": "2026-06-01T10:14:36.613322", "exception": false, - "start_time": "2026-01-01T05:23:23.860337", + "start_time": "2026-06-01T10:14:36.605989", "status": "completed" }, "tags": [] @@ -165,16 +165,16 @@ "id": "2ad1de07", "metadata": { "execution": { - "iopub.execute_input": "2026-01-01T05:23:23.872898Z", - "iopub.status.busy": "2026-01-01T05:23:23.872356Z", - "iopub.status.idle": "2026-01-01T05:23:25.898608Z", - "shell.execute_reply": "2026-01-01T05:23:25.897907Z" + "iopub.execute_input": "2026-06-01T10:14:36.617888Z", + "iopub.status.busy": "2026-06-01T10:14:36.617500Z", + "iopub.status.idle": "2026-06-01T10:14:39.014740Z", + "shell.execute_reply": "2026-06-01T10:14:39.014111Z" }, "papermill": { - "duration": 2.030165, - "end_time": "2026-01-01T05:23:25.900187", + "duration": 2.400971, + "end_time": "2026-06-01T10:14:39.016009", "exception": false, - "start_time": "2026-01-01T05:23:23.870022", + "start_time": "2026-06-01T10:14:36.615038", "status": "completed" }, "scrolled": true, @@ -187,7 +187,7 @@ "text": [ "Total number of publications containing \"Khan AR\"[AUTH] AND (\"2015/01/01\"[PDAT] : \"3000/12/31\"[PDAT]) AND\n", " (\"Western University\"[AFFL] OR \"University of Western Ontario\"[AFFL] OR\n", - " \"Brain and Mind Institute\"[AFFL] OR \"Robarts Research Institute\"[AFFL]): 93\n" + " \"Brain and Mind Institute\"[AFFL] OR \"Robarts Research Institute\"[AFFL]): 96\n" ] }, { @@ -201,7 +201,7 @@ "name": "stderr", "output_type": "stream", "text": [ - "/tmp/ipykernel_2325/990535001.py:54: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.\n", + "/tmp/ipykernel_2614/990535001.py:54: FutureWarning: The frame.append method is deprecated and will be removed from pandas in a future version. Use pandas.concat instead.\n", " df = df_old.append(new_pubs)\n" ] } @@ -275,16 +275,16 @@ "id": "70df731e", "metadata": { "execution": { - "iopub.execute_input": "2026-01-01T05:23:25.905439Z", - "iopub.status.busy": "2026-01-01T05:23:25.904953Z", - "iopub.status.idle": "2026-01-01T05:23:25.912066Z", - "shell.execute_reply": "2026-01-01T05:23:25.911243Z" + "iopub.execute_input": "2026-06-01T10:14:39.021369Z", + "iopub.status.busy": "2026-06-01T10:14:39.020848Z", + "iopub.status.idle": "2026-06-01T10:14:39.027894Z", + "shell.execute_reply": "2026-06-01T10:14:39.027018Z" }, "papermill": { - "duration": 0.011109, - "end_time": "2026-01-01T05:23:25.913406", + "duration": 0.011057, + "end_time": "2026-06-01T10:14:39.029244", "exception": false, - "start_time": "2026-01-01T05:23:25.902297", + "start_time": "2026-06-01T10:14:39.018187", "status": "completed" }, "tags": [] @@ -294,17 +294,21 @@ "name": "stdout", "output_type": "stream", "text": [ - "89 total articles found.\n", - "2 new articles found.\n", + "92 total articles found.\n", + "3 new articles found.\n", "\n", "New publications found:\n", - "Title: Hippocampal grey matter changes across scales in Alzheimer's Disease (bioRxiv)\n", - "Authors: ['Karat BG', 'Farahani MV', 'Davidson M', 'Thurairajah A', 'Taha A', 'Schmitz TW', 'Khan AR']\n", - "Journal (Date): bioRxiv (10/15/2025)\n", + "Title: Longitudinal evaluation of hippocampal subfields volumes and episodic memory in breast cancer patients and healthy controls (Brain Imaging Behav)\n", + "Authors: ['Lerosier B', 'Segobin S', 'Allouache D', 'Noal S', 'Levy C', 'Khan AR', 'Karat BG', 'Christy F', 'Joly F', 'Chetelat G', 'Eustache F', 'Giffard B', 'Perrier J']\n", + "Journal (Date): Brain Imaging Behav (5/13/2026)\n", "\n", - "Title: HippoMaps: multiscale cartography of human hippocampal organization (Nat Methods)\n", - "Authors: ['DeKraker J', 'Cabalo DG', 'Royer J', 'Ngo A', 'Khan AR', 'Karat BG', 'Benkarim O', 'Rodriguez-Cruces R', 'Frauscher B', 'Pana R', 'Hansen JY', 'Misic B', 'Valk SL', 'Lau JC', 'Kirschner M', 'Bernasconi A', 'Bernasconi N', 'Muenzing SEA', 'Axer M', 'Amunts K', 'Evans AC', 'Bernhardt BC']\n", - "Journal (Date): Nat Methods (10/1/2025)\n", + "Title: Microstructural variation of hippocampal substructures across childhood and adolescence quantified with high-gradient diffusion MRI (Commun Biol)\n", + "Authors: ['Karat BG', 'Genc S', 'Raven EP', 'Palombo M', 'Khan AR', 'Jones DK']\n", + "Journal (Date): Commun Biol (2/12/2026)\n", + "\n", + "Title: Revisiting the interpretation of axon diameter mapping using higher-order signal representations (Imaging Neurosci (Camb))\n", + "Authors: ['Karat BG', 'Wren-Jarvis J', 'Raven EP', 'Khan AR', 'Jones DK', 'Palombo M', 'Veraart J']\n", + "Journal (Date): Imaging Neurosci (Camb) (6/1/2026)\n", "\n" ] } @@ -331,16 +335,16 @@ "id": "e76e9b21", "metadata": { "execution": { - "iopub.execute_input": "2026-01-01T05:23:25.918715Z", - "iopub.status.busy": "2026-01-01T05:23:25.918188Z", - "iopub.status.idle": "2026-01-01T05:23:25.931770Z", - "shell.execute_reply": "2026-01-01T05:23:25.931061Z" + "iopub.execute_input": "2026-06-01T10:14:39.034074Z", + "iopub.status.busy": "2026-06-01T10:14:39.033742Z", + "iopub.status.idle": "2026-06-01T10:14:39.052371Z", + "shell.execute_reply": "2026-06-01T10:14:39.051798Z" }, "papermill": { - "duration": 0.017717, - "end_time": "2026-01-01T05:23:25.933124", + "duration": 0.022555, + "end_time": "2026-06-01T10:14:39.053744", "exception": false, - "start_time": "2026-01-01T05:23:25.915407", + "start_time": "2026-06-01T10:14:39.031189", "status": "completed" }, "tags": [] @@ -384,33 +388,48 @@ " \n", " \n", " 0\n", - " 41280080\n", - " PMC12632981\n", - " 10.1101/2025.10.15.682705\n", - " Hippocampal grey matter changes across scales ...\n", - " [Karat BG, Farahani MV, Davidson M, Thurairaja...\n", - " 2025\n", - " 10\n", - " 15\n", - " bioRxiv\n", - " \n", - " \n", + " 42120698\n", + " PMC13167817\n", + " 10.1007/s11682-026-01162-6\n", + " Longitudinal evaluation of hippocampal subfiel...\n", + " [Lerosier B, Segobin S, Allouache D, Noal S, L...\n", + " 2026\n", + " 5\n", + " 13\n", + " Brain Imaging Behav\n", + " 20\n", + " 3\n", " \n", " \n", " \n", " 1\n", - " 41034610\n", - " PMC12510884\n", - " 10.1038/s41592-025-02783-3\n", - " HippoMaps: multiscale cartography of human hip...\n", - " [DeKraker J, Cabalo DG, Royer J, Ngo A, Khan A...\n", - " 2025\n", - " 10\n", + " 41680562\n", + " PMC13009190\n", + " 10.1038/s42003-026-09622-x\n", + " Microstructural variation of hippocampal subst...\n", + " [Karat BG, Genc S, Raven EP, Palombo M, Khan A...\n", + " 2026\n", + " 2\n", + " 12\n", + " Commun Biol\n", + " 9\n", " 1\n", - " Nat Methods\n", - " 22\n", - " 10\n", - " 2211-2222\n", + " \n", + " \n", + " \n", + " 2\n", + " 41531669\n", + " PMC12794307\n", + " 10.1162/IMAG.a.1080\n", + " Revisiting the interpretation of axon diameter...\n", + " [Karat BG, Wren-Jarvis J, Raven EP, Khan AR, J...\n", + " 2026\n", + " 6\n", + " 1\n", + " Imaging Neurosci (Camb)\n", + " 4\n", + " \n", + " \n", " \n", " \n", "\n", @@ -418,20 +437,24 @@ ], "text/plain": [ " pmid pmcid doi \\\n", - "0 41280080 PMC12632981 10.1101/2025.10.15.682705 \n", - "1 41034610 PMC12510884 10.1038/s41592-025-02783-3 \n", + "0 42120698 PMC13167817 10.1007/s11682-026-01162-6 \n", + "1 41680562 PMC13009190 10.1038/s42003-026-09622-x \n", + "2 41531669 PMC12794307 10.1162/IMAG.a.1080 \n", "\n", " title \\\n", - "0 Hippocampal grey matter changes across scales ... \n", - "1 HippoMaps: multiscale cartography of human hip... \n", + "0 Longitudinal evaluation of hippocampal subfiel... \n", + "1 Microstructural variation of hippocampal subst... \n", + "2 Revisiting the interpretation of axon diameter... \n", "\n", " authors year month day \\\n", - "0 [Karat BG, Farahani MV, Davidson M, Thurairaja... 2025 10 15 \n", - "1 [DeKraker J, Cabalo DG, Royer J, Ngo A, Khan A... 2025 10 1 \n", + "0 [Lerosier B, Segobin S, Allouache D, Noal S, L... 2026 5 13 \n", + "1 [Karat BG, Genc S, Raven EP, Palombo M, Khan A... 2026 2 12 \n", + "2 [Karat BG, Wren-Jarvis J, Raven EP, Khan AR, J... 2026 6 1 \n", "\n", - " journal volume issue pages \n", - "0 bioRxiv \n", - "1 Nat Methods 22 10 2211-2222 " + " journal volume issue pages \n", + "0 Brain Imaging Behav 20 3 \n", + "1 Commun Biol 9 1 \n", + "2 Imaging Neurosci (Camb) 4 " ] }, "execution_count": 6, @@ -462,18 +485,18 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - 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