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 Rv2390c/-

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

	Rv0365c/-	Rv2390c/-
Fe_supp_jason_reseq	-0.158	0.204
low_pH_jason_reseq	-0.793	-0.433
NO_jason_reseq	0.339	0.27
B6_jason_reseq	-0.393	-0.542
MHCII_jason_reseq	-0.159	-0.671
Isoniazid02	0.042	-1.177
Rifampicin4	0.436	0.506
Ethambutol3	0.306	-1.234
Meropenem3	-0.999	-1.096
Vancomycin16	-0.358	-0.891
Rv2680_day32	0.061	0.664
H37Rv_KO_MarP	-0.095	0.093
hypoxia_3wks	-0.494	-0.068
hypoxia_6wks	-1.038	0.255
glycerol	0.844	-0.123
cholesterol	0.129	-0.102
AJ	-0.254	-0.765
Bibs02	0.234	0.601
Bibs02c	0.338	-0.788
BL6	0.314	1.199
BL6a	0.176	0.419
BXD01	0.361	0.711
BXD010	0.344	0.714
BXD011	2.593	1.144
BXD03	0.441	0.824
BXD04	-0.383	0.942
BXD05	0.523	0.753
BXD06	0.278	0.6
BXD07	0.418	0.825
BXD08	0.202	0.766
BXD09	-0.188	0.867
CAST	0.182	0.389
CCcont	0.283	0.531
DS01	0.175	-0.484
DS02	1.093	-0.147
DS04	0.114	-0.017
DS0c	0.149	-0.082
GP01	0.842	1.229
GP02	0.915	1.336
GP0c	0.377	0.79
NOD	-0.288	-0.469
NZO	-0.045	0.318
PWK	0.271	0.337
H37Rv_KO_CtpC	0.044	0.306
H37Rv_KO_CtpD	0.511	1.358
H37Rv_KO_Rv1272	0.097	1.097
H37Rv_KO_SugABC	0.742	1.031
H37Rv_KO_MbtN	0.381	0.291
Trans05	-0.143	0.841
macrophage_unactivated	0.297	0.073
IL1	0.338	0.825
Rapamycin	0.657	0.899
Tcell	0.212	-0.368
GMCSF	0.581	0.488
IFNab	0.608	-0.039
IFNg	0.468	0.759
IFNg_GMCSF1	0.273	0.804
Rv1432_day32	-0.103	0.185
Rv1565c_day32	-0.377	0.622
secA2_input	0.155	-0.258
delta_Rv3594	-0.497	0.101
delta_Rv3717	-0.653	0.058
delta_Rv3811	-0.228	-0.448
delta_Rv0954	-0.411	0.391
PonA1	0.22	0.641
EccD1_KO	0.342	-0.95
EspI_KO	-0.268	-0.117
PE35_KO	-0.292	-1.114
PPE68_KO	-0.378	-0.873
glycerol2	-0.087	0.258
lignocerate	0.287	1.139
oleate	0.102	0.383
phosphatidylcholine	0.146	1.062
acetate	0.012	0.178
glucAc	0.133	0.666
Rv0950ko	0.657	1.179
Rv1096ko	0.262	0.329
Rv3684ko	0.134	0.187
delta_otsA_trehalose	-0.284	0.697