TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2696c/-:

update plot	correlation	link to info on gene
Rv2190c/-	(cc=0.7379)	info on Rv2190c/-
Rv1836c/-	(cc=0.6532)	info on Rv1836c/-
Rv1821/secA2	(cc=0.607)	info on Rv1821/secA2
Rv0019c/fhaB	(cc=0.5833)	info on Rv0019c/fhaB
Rv0385/-	(cc=0.5786)	info on Rv0385/-
Rv1421/-	(cc=0.5704)	info on Rv1421/-
Rv2553c/-	(cc=0.5658)	info on Rv2553c/-
Rv1565c/-	(cc=0.565)	info on Rv1565c/-
Rv3330/dacB1	(cc=0.5628)	info on Rv3330/dacB1
Rv0017c/rodA	(cc=0.556)	info on Rv0017c/rodA

Correlation of Rv2696c/- with Rv0385/-

Normalized LFCs for Rv2696c/-:
(description and provenance of datasets)

	Rv2696c/-	Rv0385/-
Fe_supp_jason_reseq	2.276	-0.436
low_pH_jason_reseq	0.843	-1.472
NO_jason_reseq	-0.294	-0.824
B6_jason_reseq	0.047	-0.957
MHCII_jason_reseq	-0.228	-0.264
Isoniazid02	-1.775	-1.873
Rifampicin4	-0.241	-0.856
Ethambutol3	-3.006	-1.837
Meropenem3	-2.344	-1.348
Vancomycin16	-0.623	0.069
Rv2680_day32	-1.481	0.735
H37Rv_KO_MarP	-5.136	-4.106
hypoxia_3wks	-0.77	-0.439
hypoxia_6wks	1.462	1.328
glycerol	-1.181	-0.162
cholesterol	1.678	3.246
AJ	-0.914	-0.508
Bibs02	1.405	-0.225
Bibs02c	0.45	-0.37
BL6	0.357	0.744
BL6a	1.313	0.083
BXD01	0.664	0.842
BXD010	2.192	0.005
BXD011	0.65	-0.129
BXD03	1.318	0.494
BXD04	1.019	0.963
BXD05	2.54	0.632
BXD06	1.422	0.857
BXD07	1.083	0.555
BXD08	0.923	0.94
BXD09	1.158	0.455
CAST	-2.039	0.475
CCcont	2.208	0.355
DS01	0.78	0.358
DS02	1.336	0.091
DS04	1.434	0.842
DS0c	0.0	0.542
GP01	1.734	0.71
GP02	2.198	0.94
GP0c	1.762	0.227
NOD	-0.885	-0.238
NZO	-1.631	-0.055
PWK	-1.878	1.029
H37Rv_KO_CtpC	0.094	-0.394
H37Rv_KO_CtpD	0.143	-0.139
H37Rv_KO_Rv1272	0.912	-0.64
H37Rv_KO_SugABC	1.137	0.428
H37Rv_KO_MbtN	2.563	1.353
Trans05	1.447	0.584
macrophage_unactivated	0.969	-0.095
IL1	0.561	-0.231
Rapamycin	0.58	-0.307
Tcell	-0.042	-0.459
GMCSF	1.267	0.33
IFNab	0.834	1.155
IFNg	0.567	0.27
IFNg_GMCSF1	-0.041	0.465
Rv1432_day32	1.295	1.352
Rv1565c_day32	-1.995	-3.159
secA2_input	-3.311	-1.141
delta_Rv3594	0.727	-0.425
delta_Rv3717	2.114	0.311
delta_Rv3811	1.46	0.0
delta_Rv0954	0.983	-0.538
PonA1	0.055	0.104
EccD1_KO	-0.312	0.224
EspI_KO	-1.235	-0.037
PE35_KO	-1.698	-1.383
PPE68_KO	-0.825	-0.963
glycerol2	-0.27	0.073
lignocerate	0.392	-0.239
oleate	-0.588	-1.418
phosphatidylcholine	-0.581	-1.675
acetate	1.736	0.595
glucAc	0.78	0.166
Rv0950ko	-2.421	0.296
Rv1096ko	-0.603	1.113
Rv3684ko	-0.714	0.943
delta_otsA_trehalose	3.153	-0.144