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 Rv3365c/-:

update plot	correlation	link to info on gene
Rv0385/-	(cc=0.6551)	info on Rv0385/-
Rv3271c/-	(cc=0.5616)	info on Rv3271c/-
Rv3194c/-	(cc=0.5528)	info on Rv3194c/-
Rv2696c/-	(cc=0.5237)	info on Rv2696c/-
Rv0774c/-	(cc=0.5138)	info on Rv0774c/-
Rv3191c/-	(cc=0.5124)	info on Rv3191c/-
Rv2352c/PPE38	(cc=0.5117)	info on Rv2352c/PPE38
Rv3156/nuoL	(cc=0.4913)	info on Rv3156/nuoL
Rv0301/vapC2	(cc=0.4892)	info on Rv0301/vapC2
Rv0104/-	(cc=0.4804)	info on Rv0104/-

Correlation of Rv3365c/- with Rv2696c/-

Normalized LFCs for Rv3365c/-:
(description and provenance of datasets)

	Rv3365c/-	Rv2696c/-
Fe_supp_jason_reseq	-0.106	2.276
low_pH_jason_reseq	-1.225	0.843
NO_jason_reseq	-0.656	-0.294
B6_jason_reseq	0.089	0.047
MHCII_jason_reseq	-0.529	-0.228
Isoniazid02	-1.793	-1.775
Rifampicin4	-0.341	-0.241
Ethambutol3	-1.694	-3.006
Meropenem3	-0.516	-2.344
Vancomycin16	-0.114	-0.623
Rv2680_day32	0.184	-1.481
H37Rv_KO_MarP	-1.158	-5.136
hypoxia_3wks	-0.61	-0.77
hypoxia_6wks	-0.038	1.462
glycerol	-0.647	-1.181
cholesterol	-0.054	1.678
AJ	0.0	-0.914
Bibs02	-0.24	1.405
Bibs02c	0.203	0.45
BL6	0.24	0.357
BL6a	0.27	1.313
BXD01	0.326	0.664
BXD010	0.149	2.192
BXD011	-0.009	0.65
BXD03	0.4	1.318
BXD04	0.184	1.019
BXD05	0.183	2.54
BXD06	0.256	1.422
BXD07	0.171	1.083
BXD08	0.181	0.923
BXD09	0.209	1.158
CAST	-0.174	-2.039
CCcont	0.155	2.208
DS01	0.068	0.78
DS02	0.769	1.336
DS04	0.859	1.434
DS0c	0.481	0.0
GP01	0.523	1.734
GP02	1.221	2.198
GP0c	0.135	1.762
NOD	0.277	-0.885
NZO	-0.214	-1.631
PWK	0.352	-1.878
H37Rv_KO_CtpC	0.058	0.094
H37Rv_KO_CtpD	0.875	0.143
H37Rv_KO_Rv1272	0.362	0.912
H37Rv_KO_SugABC	0.654	1.137
H37Rv_KO_MbtN	0.401	2.563
Trans05	0.908	1.447
macrophage_unactivated	0.615	0.969
IL1	0.418	0.561
Rapamycin	0.285	0.58
Tcell	0.055	-0.042
GMCSF	0.222	1.267
IFNab	1.267	0.834
IFNg	0.738	0.567
IFNg_GMCSF1	0.49	-0.041
Rv1432_day32	0.471	1.295
Rv1565c_day32	-0.649	-1.995
secA2_input	-0.21	-3.311
delta_Rv3594	0.014	0.727
delta_Rv3717	0.177	2.114
delta_Rv3811	-0.217	1.46
delta_Rv0954	-0.226	0.983
PonA1	0.335	0.055
EccD1_KO	-0.059	-0.312
EspI_KO	-0.402	-1.235
PE35_KO	-0.773	-1.698
PPE68_KO	-0.419	-0.825
glycerol2	0.573	-0.27
lignocerate	0.302	0.392
oleate	-0.132	-0.588
phosphatidylcholine	-0.623	-0.581
acetate	1.385	1.736
glucAc	0.873	0.78
Rv0950ko	-0.072	-2.421
Rv1096ko	1.179	-0.603
Rv3684ko	1.009	-0.714
delta_otsA_trehalose	0.304	3.153