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 Rv2891/-

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

	Rv0365c/-	Rv2891/-
Fe_supp_jason_reseq	-0.158	-0.276
low_pH_jason_reseq	-0.793	-0.418
NO_jason_reseq	0.339	0.018
B6_jason_reseq	-0.393	0.181
MHCII_jason_reseq	-0.159	-0.582
Isoniazid02	0.042	-0.908
Rifampicin4	0.436	-0.171
Ethambutol3	0.306	-0.567
Meropenem3	-0.999	-0.806
Vancomycin16	-0.358	-0.806
Rv2680_day32	0.061	-0.177
H37Rv_KO_MarP	-0.095	0.104
hypoxia_3wks	-0.494	-0.259
hypoxia_6wks	-1.038	-0.683
glycerol	0.844	-0.019
cholesterol	0.129	1.015
AJ	-0.254	-0.067
Bibs02	0.234	0.959
Bibs02c	0.338	1.901
BL6	0.314	0.137
BL6a	0.176	1.537
BXD01	0.361	0.049
BXD010	0.344	0.225
BXD011	2.593	1.089
BXD03	0.441	1.043
BXD04	-0.383	0.43
BXD05	0.523	1.105
BXD06	0.278	0.025
BXD07	0.418	0.565
BXD08	0.202	0.878
BXD09	-0.188	0.189
CAST	0.182	1.084
CCcont	0.283	0.477
DS01	0.175	1.436
DS02	1.093	1.251
DS04	0.114	1.592
DS0c	0.149	1.021
GP01	0.842	0.568
GP02	0.915	1.395
GP0c	0.377	0.142
NOD	-0.288	0.021
NZO	-0.045	-0.446
PWK	0.271	0.722
H37Rv_KO_CtpC	0.044	0.754
H37Rv_KO_CtpD	0.511	0.449
H37Rv_KO_Rv1272	0.097	-0.631
H37Rv_KO_SugABC	0.742	0.586
H37Rv_KO_MbtN	0.381	-0.206
Trans05	-0.143	0.22
macrophage_unactivated	0.297	0.641
IL1	0.338	0.021
Rapamycin	0.657	-0.043
Tcell	0.212	0.479
GMCSF	0.581	1.983
IFNab	0.608	0.426
IFNg	0.468	-0.115
IFNg_GMCSF1	0.273	-0.157
Rv1432_day32	-0.103	0.066
Rv1565c_day32	-0.377	0.084
secA2_input	0.155	0.435
delta_Rv3594	-0.497	0.635
delta_Rv3717	-0.653	-0.072
delta_Rv3811	-0.228	0.592
delta_Rv0954	-0.411	0.722
PonA1	0.22	0.125
EccD1_KO	0.342	0.349
EspI_KO	-0.268	-0.117
PE35_KO	-0.292	0.117
PPE68_KO	-0.378	-0.509
glycerol2	-0.087	0.363
lignocerate	0.287	0.904
oleate	0.102	0.285
phosphatidylcholine	0.146	0.774
acetate	0.012	0.522
glucAc	0.133	1.141
Rv0950ko	0.657	0.742
Rv1096ko	0.262	0.51
Rv3684ko	0.134	1.077
delta_otsA_trehalose	-0.284	0.965