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 Rv0365c/-:

update plot	correlation	link to info on gene
Rv3138/pflA	(cc=0.4881)	info on Rv3138/pflA
Rv3675/-	(cc=0.4735)	info on Rv3675/-
Rv0145/-	(cc=0.468)	info on Rv0145/-
Rv0971c/echA7	(cc=0.4593)	info on Rv0971c/echA7
Rv1981c/nrdF1	(cc=0.4332)	info on Rv1981c/nrdF1
Rv3008/-	(cc=0.4268)	info on Rv3008/-
Rv2390c/-	(cc=0.4256)	info on Rv2390c/-
Rv2891/-	(cc=0.4252)	info on Rv2891/-
Rv0874c/-	(cc=0.4176)	info on Rv0874c/-
Rv0897c/-	(cc=0.4155)	info on Rv0897c/-

Correlation of Rv0365c/- with Rv0874c/-

Normalized LFCs for Rv0365c/-:
(description and provenance of datasets)

	Rv0365c/-	Rv0874c/-
Fe_supp_jason_reseq	-0.158	0.527
low_pH_jason_reseq	-0.793	-0.668
NO_jason_reseq	0.339	-0.648
B6_jason_reseq	-0.393	0.484
MHCII_jason_reseq	-0.159	0.356
Isoniazid02	0.042	-0.547
Rifampicin4	0.436	-0.588
Ethambutol3	0.306	-0.178
Meropenem3	-0.999	-0.721
Vancomycin16	-0.358	-1.135
Rv2680_day32	0.061	-0.884
H37Rv_KO_MarP	-0.095	-0.227
hypoxia_3wks	-0.494	0.132
hypoxia_6wks	-1.038	0.18
glycerol	0.844	0.145
cholesterol	0.129	-0.348
AJ	-0.254	0.092
Bibs02	0.234	0.258
Bibs02c	0.338	0.773
BL6	0.314	0.078
BL6a	0.176	0.855
BXD01	0.361	0.447
BXD010	0.344	-0.292
BXD011	2.593	0.73
BXD03	0.441	0.13
BXD04	-0.383	-0.324
BXD05	0.523	0.117
BXD06	0.278	0.173
BXD07	0.418	0.4
BXD08	0.202	0.192
BXD09	-0.188	0.122
CAST	0.182	0.172
CCcont	0.283	-0.233
DS01	0.175	0.873
DS02	1.093	0.682
DS04	0.114	0.216
DS0c	0.149	0.261
GP01	0.842	-0.154
GP02	0.915	0.873
GP0c	0.377	0.117
NOD	-0.288	-0.944
NZO	-0.045	-0.381
PWK	0.271	-0.306
H37Rv_KO_CtpC	0.044	0.215
H37Rv_KO_CtpD	0.511	1.47
H37Rv_KO_Rv1272	0.097	-0.364
H37Rv_KO_SugABC	0.742	0.752
H37Rv_KO_MbtN	0.381	0.096
Trans05	-0.143	-0.603
macrophage_unactivated	0.297	-0.527
IL1	0.338	0.128
Rapamycin	0.657	0.638
Tcell	0.212	0.593
GMCSF	0.581	0.393
IFNab	0.608	0.054
IFNg	0.468	0.059
IFNg_GMCSF1	0.273	0.459
Rv1432_day32	-0.103	-0.49
Rv1565c_day32	-0.377	-0.586
secA2_input	0.155	0.8
delta_Rv3594	-0.497	0.18
delta_Rv3717	-0.653	-0.167
delta_Rv3811	-0.228	-0.513
delta_Rv0954	-0.411	-0.419
PonA1	0.22	-0.088
EccD1_KO	0.342	0.687
EspI_KO	-0.268	-0.242
PE35_KO	-0.292	0.44
PPE68_KO	-0.378	0.403
glycerol2	-0.087	0.367
lignocerate	0.287	0.42
oleate	0.102	0.106
phosphatidylcholine	0.146	0.605
acetate	0.012	-0.828
glucAc	0.133	-0.314
Rv0950ko	0.657	0.341
Rv1096ko	0.262	0.081
Rv3684ko	0.134	0.16
delta_otsA_trehalose	-0.284	-1.402