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 Rv1139c/-:

update plot	correlation	link to info on gene
Rv1353c/-	(cc=0.5101)	info on Rv1353c/-
Rv1639c/-	(cc=0.4907)	info on Rv1639c/-
Rv2119/-	(cc=0.489)	info on Rv2119/-
Rv2632c/-	(cc=0.4555)	info on Rv2632c/-
Rv2019/-	(cc=0.4437)	info on Rv2019/-
Rv0590A/-	(cc=0.4428)	info on Rv0590A/-
Rv0084/hycD	(cc=0.4407)	info on Rv0084/hycD
Rv0771/-	(cc=0.4397)	info on Rv0771/-
Rv2507/-	(cc=0.43)	info on Rv2507/-
Rv3536c/hsaE	(cc=0.428)	info on Rv3536c/hsaE

Correlation of Rv1139c/- with Rv1353c/-

Normalized LFCs for Rv1139c/-:
(description and provenance of datasets)

	Rv1139c/-	Rv1353c/-
Fe_supp_jason_reseq	0.734	0.423
low_pH_jason_reseq	0.898	0.683
NO_jason_reseq	0.814	0.226
B6_jason_reseq	0.25	0.125
MHCII_jason_reseq	0.558	-0.151
Isoniazid02	0.345	-0.567
Rifampicin4	0.452	0.504
Ethambutol3	0.123	-0.51
Meropenem3	0.325	-0.399
Vancomycin16	0.042	0.029
Rv2680_day32	-1.027	-0.354
H37Rv_KO_MarP	-0.58	0.406
hypoxia_3wks	-0.634	-0.734
hypoxia_6wks	0.572	-0.04
glycerol	-0.083	-1.463
cholesterol	-0.208	-0.055
AJ	-0.193	0.894
Bibs02	-0.616	-1.011
Bibs02c	-1.302	-0.906
BL6	0.265	1.039
BL6a	-0.475	0.432
BXD01	0.653	0.416
BXD010	0.326	0.916
BXD011	0.234	0.198
BXD03	0.786	0.374
BXD04	-0.177	0.825
BXD05	0.833	1.163
BXD06	0.374	1.175
BXD07	0.599	0.654
BXD08	0.716	0.53
BXD09	0.027	0.76
CAST	-0.886	-0.998
CCcont	-0.214	0.966
DS01	-0.375	-0.77
DS02	-0.521	0.158
DS04	-0.339	-1.556
DS0c	-0.731	1.15
GP01	-0.034	0.885
GP02	-0.214	0.759
GP0c	-0.841	0.689
NOD	-1.398	-1.801
NZO	0.64	0.246
PWK	-0.094	-0.037
H37Rv_KO_CtpC	-0.349	0.354
H37Rv_KO_CtpD	0.812	1.43
H37Rv_KO_Rv1272	-0.257	0.0
H37Rv_KO_SugABC	-0.263	-1.297
H37Rv_KO_MbtN	0.394	0.24
Trans05	0.406	0.934
macrophage_unactivated	-0.597	0.682
IL1	-0.219	1.092
Rapamycin	-0.724	1.203
Tcell	-0.863	0.433
GMCSF	-0.264	0.121
IFNab	-0.275	0.23
IFNg	-0.457	-0.043
IFNg_GMCSF1	-0.05	0.55
Rv1432_day32	-0.207	0.888
Rv1565c_day32	-0.379	0.013
secA2_input	-0.2	-2.069
delta_Rv3594	0.061	0.843
delta_Rv3717	0.651	0.237
delta_Rv3811	0.672	1.164
delta_Rv0954	-0.642	-0.384
PonA1	-1.021	-0.039
EccD1_KO	1.644	0.095
EspI_KO	0.804	1.286
PE35_KO	1.406	1.736
PPE68_KO	1.427	1.232
glycerol2	0.758	0.356
lignocerate	1.34	0.843
oleate	0.692	0.608
phosphatidylcholine	1.333	0.945
acetate	0.963	1.368
glucAc	1.043	0.929
Rv0950ko	-0.434	0.323
Rv1096ko	1.291	0.682
Rv3684ko	1.379	1.742
delta_otsA_trehalose	-0.912	-2.4