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 Rv3334/-:

update plot	correlation	link to info on gene
Rv1897c/-	(cc=0.4902)	info on Rv1897c/-
Rv0557/mgtA	(cc=0.4376)	info on Rv0557/mgtA
Rv1055/-	(cc=0.4336)	info on Rv1055/-
Rv1687c/-	(cc=0.4229)	info on Rv1687c/-
Rv3017c/esxQ	(cc=0.4205)	info on Rv3017c/esxQ
Rv1936/-	(cc=0.4147)	info on Rv1936/-
Rv0377/-	(cc=0.4069)	info on Rv0377/-
Rv2290/lppO	(cc=0.3888)	info on Rv2290/lppO
Rv2811/-	(cc=0.3828)	info on Rv2811/-
Rv3069/-	(cc=0.3823)	info on Rv3069/-

Correlation of Rv3334/- with Rv1936/-

Normalized LFCs for Rv3334/-:
(description and provenance of datasets)

	Rv3334/-	Rv1936/-
Fe_supp_jason_reseq	0.346	-0.69
low_pH_jason_reseq	0.535	0.0
NO_jason_reseq	0.202	0.57
B6_jason_reseq	0.019	-0.495
MHCII_jason_reseq	0.075	0.541
Isoniazid02	0.374	-0.048
Rifampicin4	0.027	-0.295
Ethambutol3	-0.161	0.124
Meropenem3	0.134	-0.114
Vancomycin16	0.345	-0.271
Rv2680_day32	-2.671	-0.947
H37Rv_KO_MarP	1.031	-0.161
hypoxia_3wks	0.762	-0.076
hypoxia_6wks	-0.443	-0.357
glycerol	-1.295	0.699
cholesterol	-0.753	0.493
AJ	0.254	0.264
Bibs02	0.785	-0.55
Bibs02c	-0.809	0.199
BL6	-0.059	-1.195
BL6a	-0.057	0.475
BXD01	0.115	-0.489
BXD010	0.309	-0.504
BXD011	0.325	-0.016
BXD03	0.038	0.006
BXD04	-0.014	0.581
BXD05	0.112	0.25
BXD06	-0.272	-0.028
BXD07	0.309	-0.495
BXD08	-0.224	-0.157
BXD09	-0.19	0.181
CAST	0.556	-0.148
CCcont	-0.736	-1.145
DS01	0.548	-0.346
DS02	-0.551	0.009
DS04	0.572	0.235
DS0c	0.074	-0.091
GP01	0.098	0.883
GP02	0.074	-0.423
GP0c	-1.215	-0.203
NOD	1.902	0.0
NZO	0.25	-0.341
PWK	0.894	0.45
H37Rv_KO_CtpC	-0.712	0.0
H37Rv_KO_CtpD	-1.507	-1.074
H37Rv_KO_Rv1272	0.268	0.384
H37Rv_KO_SugABC	-0.624	-0.059
H37Rv_KO_MbtN	-0.181	-0.031
Trans05	0.516	-0.4
macrophage_unactivated	-0.107	-0.619
IL1	-0.074	0.056
Rapamycin	0.681	0.153
Tcell	0.212	-0.319
GMCSF	0.771	0.335
IFNab	0.29	0.094
IFNg	0.575	0.246
IFNg_GMCSF1	1.625	0.346
Rv1432_day32	-1.454	-0.356
Rv1565c_day32	1.042	0.603
secA2_input	-1.586	-0.753
delta_Rv3594	0.514	-0.047
delta_Rv3717	0.49	-0.138
delta_Rv3811	0.416	0.11
delta_Rv0954	0.525	0.808
PonA1	0.187	0.457
EccD1_KO	1.266	0.309
EspI_KO	1.169	0.145
PE35_KO	0.391	-0.155
PPE68_KO	0.333	0.141
glycerol2	-0.307	-0.325
lignocerate	-1.102	-0.315
oleate	0.347	0.142
phosphatidylcholine	1.318	0.081
acetate	-1.77	-0.342
glucAc	-2.307	-0.827
Rv0950ko	0.238	0.534
Rv1096ko	0.317	0.274
Rv3684ko	0.147	0.213
delta_otsA_trehalose	1.149	0.767